Healthcare Nanotechnology (Nanomedicine) Market Size, Drivers, Potential Growth Opportunities, Competitive Landscape, Trends And Forecast To 2027 -…

Healthcare Nanotechnology (Nanomedicine) Market Overview

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Healthcare Nanotechnology (Nanomedicine) Market: Competitive Landscape

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Healthcare Nanotechnology (Nanomedicine) Market Segmentation:

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Healthcare Nanotechnology (Nanomedicine) Market Segment by Type:

Healthcare Nanotechnology (Nanomedicine) Market Segment by Application:

Healthcare Nanotechnology (Nanomedicine) Market Segment by Global Presence:

North America Latin America Middle East Asia-Pacific Africa Europe

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Healthcare Nanotechnology (Nanomedicine) Market Size, Drivers, Potential Growth Opportunities, Competitive Landscape, Trends And Forecast To 2027 -...

A review on RNAi therapy for NSCLC: Opportunities and challenges – DocWire News

This article was originally published here

Wiley Interdiscip Rev Nanomed Nanobiotechnol. 2020 Nov 10:e1677. doi: 10.1002/wnan.1677. Online ahead of print.

ABSTRACT

Non-small cell lung cancer (NSCLC) is the primary cause of cancer death worldwide. Despite developments in chemotherapy and targeted therapies, the 5-year survival rate has remained at approximately 16% for the last four decades. NSCLC is a heterogeneous group of tumors that, through mutations and drivers, also demonstrate intra-tumor heterogeneity. Thus, current treatment approaches revolve around targeting these oncogenes, often using small molecule inhibitors and chemotherapeutics. However, the efficacy of these therapies has been crippled by acquired and inherent drug-resistance in the tumor, accompanied by increased therapeutic dosages and subsequent devastating off-target effects for patients. Evidently, there is a critical need for developing treatment methodologies more effective than the current standard of care. Fortunately, RNA interference, particularly small interfering RNA (siRNA), presents an alternative of silencing specific oncogenes to control tumor growth. Although siRNA therapy is subject to rapid degradation and poor internalization in vivo, nanoparticles can serve as nontoxic and efficient delivery vehicles, even introducing combinational delivery of multiple therapeutic agents. Indeed, siRNA-nanoconstructs possess extraordinary potential as an innovative modality to address clinical needs. This state-of-the-art review summarizes the recent advancements in the development of novel nanosystems for delivering siRNA to NSCLC tumors and analyzes the efficacy of representative examples. By illuminating the most promising biomarkers for silencing, we hope to streamline current therapeutic efforts and highlight powerful translational opportunities to combat NSCLC. This article is categorized under: Therapeutic Approaches and Drug Discovery > Emerging Technologies Biology-Inspired Nanomaterials > Lipid-Based Structures Therapeutic Approaches and Drug Discovery > Nanomedicine for Oncologic Disease.

PMID:33174364 | DOI:10.1002/wnan.1677

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A review on RNAi therapy for NSCLC: Opportunities and challenges - DocWire News

Redox-responsive nanoplatform for codelivery of miR-519c and gemcitabine for pancreatic cancer therapy – Science Advances

INTRODUCTION

Pancreatic cancer is one of the most chemotherapy-resistant cancers and a leading cause of cancer-related mortality with a dismal 5-year survival rate of 8 to 10% (https://seer.cancer.gov/statfacts/html/pancreas.html). Gemcitabine (GEM) is a first-line therapy for pancreatic cancer either alone or in combination with other drugs such as nanoparticle albumin-bound paclitaxel or nab-paclitaxel (1). However, the clinical effect of single-agent GEM is modest due to its rapid metabolism, inefficient delivery to the desmoplastic tumor, and development of chemoresistance (2, 3). The combination therapy of GEM and nab-paclitaxel versus GEM alone increases survival along with an increase in grade 3 neutropenia, fatigue, and neuropathy (4). The use of FOLFIRINOX (5-fluorouracil, oxaliplatin, irinotecan, and leucovorin combination), as compared to GEM, significantly prolongs survival but at the expense of higher grade 3 or 4 toxicities (5).

Most patients with pancreatic cancer are present with metastatic or inoperable disease, and therefore, systemic polychemotherapy remains the treatment of choice. The median survival of patients with metastatic pancreatic cancer is still less than a year with either FOLFIRINOX or GEM and nab-paclitaxel (6, 7). Therefore, safer and more effective combination of GEM and novel drugs further need to be developed particularly for older or less fit patients or those with significant comorbidities, who cannot tolerate intensive chemotherapy.

Chemotherapy resistance in pancreatic cancer involves multiple mechanisms. GEM-resistant cells mainly represent cancer stem cells and epithelial-to-mesenchymal transformation (EMT) phenotype (8, 9). Desmoplasia produces hypoxic microenvironment, stimulating hypoxia-inducible factor-1 (HIF-1), which, in turn, modulates tumor metabolism, induces profibrotic and angiogenic responses, and mediates the overexpression of adenosine triphosphatebinding cassette superfamily G member 2 (ABCG2). As a member of the ABC transporter superfamily, ABCG2 functions as a drug efflux pump and has been reported to play a role in GEM resistance in pancreatic cancer (10, 11). Because of an increase in high-glucose metabolism in GEM-resistant cells, the flux of glycolytic intermediates is directed toward nonoxidative pentose phosphate pathway (PPP), leading to an increase in pyrimidine biosynthesis and pool of deoxycytidine triphosphate (dCTP). The structural similarity between dCTP and GEM, a nucleoside analog, results in a molecular competition to bind the replicating DNA, reducing the efficacy of GEM. Hypoxia is responsible for an increase in sonic hedgehog (SHH) signaling and smoothened (SMO) expression in pancreatic cancer and activation of the transcription factor glioma-associated oncogene (GLI) (12). These changes result in further generation of fibrosis and a decrease in blood flow, creating a desmoplasia-hypoxia vicious cycle.

MicroRNAs (miRNAs) regulate gene expression by the degradation of target mRNAs, repressing of mRNA translation, or up-regulating of target genes. Aberrant expressions of miRNAs correlate with altered expression of genes responsible for stemness, metastasis, tumor metabolism, hypoxia, and chemoresistance (13). We previously reported differential down-regulation of miR-205 and miR-let7b in human pancreatic cancer tissues and cells (14). Further, we demonstrated that the combination of GEM-conjugated polymeric micelles and miR-205 significantly inhibited pancreatic tumor growth in mice after systemic administration, as miR-205 sensitized resistant pancreatic cells to GEM (8, 15). miR-519c is of particular interest in pancreatic cancer, as it is down-regulated in pancreatic cancer, binds to HIF-1 mRNA, and can inhibit HIF-1 expression, leading to sensitization of pancreatic cancer cells (16, 17). We hypothesize that a combination of GEM and miR-519c can target HIF-1 and ABCG2, resensitize resistant pancreatic cancer cells to GEM, and result in decreased desmoplasia. Moreover, 2-O-methyl phosphorothioate (2-OMe-PS) modification of RNA based on our previous study (18) was applied to miR-519c to increase its stability, binding affinity, and functional potential and decrease immunostimulatory properties.

Nanoparticulate delivery systems have shown distinct advantages in increasing drug accumulation at the tumor site after systemic administration. GEM delivery is limited by its poor pharmacokinetic profiles and dense desmoplasia, which may be overcome by a GEM-conjugated delivery system. We recently developed methoxy poly(ethylene glycol)-block-poly(2-methyl-2-carboxyl-propylene carbonate)-graft-gemcitabine-graft-dodecanol (mPEG-b-PCC-g-GEM-g-DC), which conjugates GEM via stable amide bonds and self-assembles into micelles, with 12% (w/w) GEM loading and 2.5-fold higher GEM accumulation in orthotopic pancreatic cancer compared to free GEM (2). Redox-sensitive polymeric micelles are very promising due to their controlled drug release inside the tumor cells in the presence of intracellular stimuli, including glutathione (GSH) (19). GSH concentration in tumor cells is several times higher than that in the extracellular microenvironment and normal tissues (20). Epidermal growth factor receptor (EGFR) has been overexpressed in 40 to 80% of pancreatic cancers. Cells that overexpress EGFR will accumulate the functionalized particles, resulting in greater cytotoxicity. We hypothesized that EGFR targeted GE11 peptide mixed micelles system based on tetraethylene pentamine (TEPA) for complex formation with miRNA and GSH-sensitive polypeptide for GEM conjugation via disulfide bond for targeted delivery of GEM and OMe-PSmiR-519c will result in a synergistic inhibition of pancreatic cancer without excess toxicity. Our in vitro and in vivo studies confirmed that mixed OMe-PSmiR-519ccomplexed and GEM-conjugated mixed micelles effectively inhibit pancreatic tumor growth.

We first established a GEM-resistant pancreatic ductal adenocarcinoma (PDAC) cell model by incubating wild-type MIA PaCa-2 cells with increasing concentrations of GEM over 2 months. The resulting GEM-resistant MIA PaCa-2R cells were 25-fold more resistant compared to the wild-type MIA PaCa-2 cells, as reflected by the pronounced increase in the median inhibitory concentration value from 2 to 50 M. Our immunohistochemical analysis demonstrated a high expression of HIF-1 protein in patient-derived pancreatic cancer tissues but a negligible expression in adjacent healthy patient tissues (fig. S1A). Western blot analysis of MIA PaCa-2R cells demonstrated that the expression level of HIF-1 was very low under normoxic conditions but significantly increased, reaching the highest level at 4 hours after incubation of MIA PaCa-2R cells under hypoxic condition (fig. S1B).

miR-519c was significantly down-regulated in pancreatic cancer tissue compared to adjacent normal tissues, as determined by real-time reverse transcription polymerase chain reaction (RT-PCR) (Fig. 1A). Similarly, we observed a significantly low miR-519c expression level in pancreatic cancer cell lines such as HPAF-II, Capan-1, and MIA PaCa-2R, compared to nonmalignant pancreatic cells HPDE (human pancreatic duct epithelial) (Fig. 1B). With target prediction by miRTarBase, we confirmed that miR-519c directly targets HIF-1 and ABCG2, indicating its potential utility to reverse hypoxia-induced chemoresistance.

miR-519c was down-regulated in patient tissues (A) and pancreatic cancer cell lines (B), compared to paired normal tissues and normal pancreatic cells such as HPDE. Further, miR-519c inhibited the expression of HIF-1 and Hh ligands such as SHH, SMO, and GLI1 after the transfection of MIA PaCa-2R cells with Lipofectamine/miR-519c under hypoxic condition (C and D). (E) miR-519c also inhibited cell migration under hypoxic condition when MIA PaCa-2R cells were cultured on Transwell chamber with human pancreatic stellate cells (hPSCs). *P < 0.05, two-paired t test.

Expression of SHH, SMO, and GLI1 was significantly higher under hypoxic versus normoxic conditions, as determined by Western blot analysis. Transfection of pancreatic cancer cells with Lipofectamine/miR-519c complexes significantly inhibited the expression of HIF-1 and Hh ligands, such as SHH, GLI1, and SMO (Fig. 1, C and D). We observed that addition of human pancreatic stellate cells (hPSCs)conditioned medium to MIA PaCa-2R cells induced tumor cell invasion, especially under hypoxic condition (Fig. 1E), indicating that the exposure of MIA PaCa-2R cells to desmoplastic microenvironment enhances their invasion capacity. Additional treatment of MIA PaCa-2R cells with miR-519c inhibited cell migration under hypoxic condition and desmoplasia (Fig. 1E).

Flow cytometry data demonstrated an up-regulation of glucose transporter 1 (GLUT1) expression in MIA PaCa-2R cells under hypoxic conditions. Transfection of these cells with miR-519c, but not scrambled miRNA, significantly inhibited GLUT1 expression under hypoxic conditions (Fig. 2A and fig. S2). As a glucose analog, the uptake of 2-deoxyglucose (2-DG) by MIA PaCa-2R cells was significantly increased under hypoxic conditions even when these cells were transfected with scrambled miRNA. This is expected, as GLUT1 is a well-known HIF-1 target. Transfection of these cells with miR-519c resulted in a significant decrease in 2-DG uptake under hypoxic conditions (Fig. 2B), suggesting that miR-519c negates hypoxia-induced elevation in glucose uptake, using 2-DG as a GLUT1 substrate. The concentration of dCTP was significantly higher under hypoxic conditions but declined following the transfection of MIA PaCa-2R cells with Lipofectamine/miR-519c complexes (Fig. 2C), indicating that the intracellular level of dCTP is severely suppressed by miR-519c. Hypoxia is known to increase glycolytic influx and pyrimidine biosynthesis in tumor cells. The mRNA expression levels of several known targets of HIF-1 were up-regulated under the hypoxic condition. These targets included NME/NM23 nucleoside diphosphate kinase (NME4) involved in PPP and nucleotide biosynthesis pathways, as well as lactate dehydrogenase (LDH), hexokinase 2 (HKII), and transketolase (TKT) involved in glucose metabolism. The expression level of these targets genes was significantly inhibited after the transfection of MIA PaCa-2R cells with miR-519c but not by scrambled miRNA (Fig. 2D). Together, these results provide strong evidence that miR-519c repletion attenuates glucose metabolism and reduces intracellular dCTP pool.

(A and B) miR-519c inhibited 2-DG uptake, as well as expression of GLUT1 and dCTP, but not scrambled miRNA under hypoxic condition after transfection of MIA PaCa-2R cells with Lipofectamine miR-519c. Cells transfected with Lipofectamine/scrambled miRNA complexes were used as the control. (C) miR-519c decreased dCTP level under hypoxic condition. (D) In addition, miR-519c but not scrambled miRNA inhibited NME4, HKII, LDHA, and TKT expressions under hypoxic condition. Results are presented as the mean SD (n = 3). *P < 0.05 and **P < 0.001, two-paired t test.

Because of an increase in high-glucose metabolism in GEM-resistant cells, the flux of glycolytic intermediates is directed toward nonoxidative PPP, leading to an increase in pyrimidine biosynthesis and pool of dCTP. As GEM is a nucleoside analog, its efficacy is affected by both nucleoside synthesis and their cellular uptake. The presence of dC resulted in a dose-dependent decrease in cytotoxicity after treatment with GEM (Fig. 3A), suggesting that treatment with dCTP increased GEM resistance in MIA PaCa-2R cells. The combination of miR-519c and GEM demonstrated a dose-dependent synergistic effect on cell killing. In contrast, treatment with scrambled miRNA had little effect on cell killing (Fig. 3B). Apoptosis assay further confirmed these observations (fig. S3A). The effect of miR-519c on cell cycle of MIA PaCa-2R cells was determined by flow cytometry after the transfection of MIA PaCa-2R cells with miR-519c under normoxic and hypoxic conditions. Treatment with miR-519c compared to scrambled miRNA under hypoxic conditions resulted in a significant increase in the percentage of cells in the G2 phase (Fig. 3C and fig. S3A). These data suggest that miR-519c inhibited pancreatic cancer cell proliferation by inducing G2 phase cell cycle arrest.

(A) Coincubation of GEM with 100 M dC-reduced drug potency. (B) Significant decrease in cell viability when MIA PaCa-2R cells were transfected with a combination of GEM and miR-519c under the hypoxic condition for 48 hours, but GEM combination with scrambled miRNA was less effective. (C) miR-519c inhibited viability by arresting cell cycle in the G2-M phase. (D and E) miR-519c inhibits ABCG2, c-Myc, and programmed death-ligand 1 (PD-L1) expressions, which are up-regulated under hypoxic condition, but scrambled miRNA had little effect. (F) Combination of miR-519c and GEM was more effective in apoptotic cell death of tumor spheroids generated using MIA PaCa-R cells than either of them alone. The confocal laser scanning microscopy images were captured at a depth of 15 m. *P < 0.05 and **P < 0.001, two-paired t test.

The Western blot analysis demonstrated that drug resistancerelated protein ABCG2 and transcription factor c-MYC (which promotes cancer cell proliferation) and programmed death-ligand 1 (PD-L1) were up-regulated under hypoxic condition. These data indicated that the hypoxic-dependent up-regulation of ABCG2- and c-MYCmagnified GEM resistance and PD-L1 can promote immune escape of tumor cells from cytotoxic T lymphocytes and contribute to the immunosuppression in tumors under hypoxia. Then, the apoptosis rate was investigated by the coculturing of MIA PaCa-2R and peripheral blood lymphocytes with or without miR-519c treatment under normoxic and hypoxic conditions (fig. S4). We observed a significant increase in apoptosis of MIA PaCa-2R cells in the coculture system with miR-519c transfection under hypoxia. Treatment of MIA PaCa-2R cells with miR-519c but not scrambled miRNA inhibited expression of ABCG2, c-MYC, and PD-L1 (Fig. 3, D and E). These data suggest that miR-519c has the potential to improve the cytotoxicity of activated T cells and immunotherapy.

Three-dimensional (3D) desmoplastic tumor spheroids were developed to mimic the hypoxic microenvironment in pancreatic cancer by mixing and culturing hPSCs and MIA PaCa-2R cells in hanging drop plates. Live and dead assay was carried out after treatment with miR-519c and GEM for 48 hours by confocal laser scanning microscopy. Fluorescein isothiocyanatelabeled calcein and propidium iodide binding to nucleic acids presented live and dead cells, respectively. Treatment with the combination of miR-519c and GEM for 9 days exhibited a significantly higher inhibition of tumor growth, leading to the collapse of tumor spheroids. In contrast, treatment with miR-519c or GEM alone failed to destroy tumor spheroids (Fig. 3F). These results suggest that miR-519c facilitates the resensitization of pancreatic cancer cells to GEM.

Chemical modifications can protect miRNA against nuclease degradation and affect their nonspecific interaction with plasma proteins and cell membrane components. Therefore, modification of its 3 end with OMe-PS stabilized miR-519c, which in good agreement with our previous study (18). We determined the effect of nucleases on miRNA stability by incubating unmodified miR-519c and OMe-PSmiR-519c in 50% fetal bovine serum (FBS). miR-519c was degraded within an hour in 50% FBS at 37C. When three-terminal nucleotides at the 3 end of miR-519c guide strand were modified, with 2-OMe-PS, its stability was substantially increased, resulting in significant levels of intact miRNA remained even after 24 hours of incubation at 37C (Fig. 4A). Further, there was no loss of activity in cell killing due to this chemical modification. Incubation of MIA PaCa-2R cells with the combination of 100 nM OMe-PSmiR-519c or miR-519c and increasing concentrations of GEM demonstrated a dose-dependent synergistic effect on cell killing, with OMe-PSmiR-519c being more potent than miR-519c (Fig. 4B).

(A) Synergistic effect of OMe-PSmiR-519c and GEM on cell viability after transfection of MIA PaCa-2R cells with 100 M OMe-PSmiR-519c and increasing concentrations of GEM for 48 hours under hypoxic conditions. (B) Stability of OMe-PSmiR-519c and unmodified miR-519c in 50% FBS. (C and D) Effect of miR-519c and OMe-PSmiR-519c on proinflammatory cytokines interleukin-2 (IL-2) and IL-4, as analyzed by enzyme-linked immunosorbent assay. (E) Association of OMe-PSmiR-519c with endogenous AGO2 protein. (F) HIF-1 and ABCG2 expression levels after miR-519c and OMe-PSmiR-519c treatment for 48 hours under hypoxic conditions, as determined by Western blot analysis. *P < 0.05 and **P < 0.001, two-paired t test.

To examine whether the chemical modification of miR-519c induces proinflammatory cytokine production, we determined the levels of interleukin-2 (IL-2) and IL-4 after incubating OMe-PSmiR-519c and unmodified miR-519c with human peripheral blood mononuclear cells (hPBMCs) for 24 hours and measured cytokines released in hPBMC cultures using a cytokine multianalyte ELISArray kit. The antigen standard cocktail was added to the plate as the positive control. There was a little induction of cytokines due to miRNA treatment. Compared to miR-519ctreated groups, OMe-PSmiR-519ctreated hPBMCs showed the lower release of cytokines, including IL-2 and IL-4 (Fig. 4, C and D).

Argonaute 2 (AGO2) protein is a ribonuclease (RNase) and is an essential component of the RNA-induced silencing complex (RISC) where one strand of the mature miRNA duplex is first loaded onto AGO2 protein. AGO2-bound miRNA interacts with complementary regions of target mRNA and leads to either AGO2-mediated endonuclease cleavage of the mRNA or reduction in its translation efficiency. Therefore, we assessed the effect of chemical modification of miR-519c on its association with AGO2 compared to unmodified miR-519c and OMe-PSmiR-519c in the cytoplasm. As shown in Fig. 4E, the transfection of MIA PaCa-2R with miR-519c and OMe-PSmiR-519c was resulting in 3- and 16-fold higher RISC loading than that of the control group. Consequently, higher RISC loading resulted in improved inhibition of HIF-1 and ABCG2 (Fig. 4F). Notably, the AGO2 association did not differ between normoxic and hypoxic conditions.

On the basis of the results above, we selected OMe-PSmiR-519c over miR-519c for in vivo studies due to its higher stability, enhanced RISC loading, and affinity. We used our mPEG-co-P(Asp)-g-TEPA-g-DC cationic copolymer for complex formation with miRNA and used for preparing mixed micelles with mPEG-co-P(Asp)-g-Ala-SS-GEM-g-DC for codelivery of OMe-PS-miR-591c and GEM. 1H nuclear magnetic resonance (NMR) of mPEG-co-P(Asp)-g-TEPA-g-DC and mPEG-co-P(Asp)-g-Ala-SS-GEM-g-DC is shown in Fig. 5 (A and B). The percentage of GEM loading in mPEG-co-P(Asp)-g-Ala-SS-GEM-g-DC was calculated to be 14% on the basis of the integration of peak at 3.5 parts per million (ppm) for the CH2 of mPEG (f) and peaks at 7.8 to 8.22, 7.09, 5.29 to 6.16, 4.36, 4.27, 3.0, and 2.93 ppm (a, b, c, d, e, g, and h), respectively (protons on GEM-S-S-NH2). The rest of the carboxylic acid groups in the polymer were also reacted with dodecylamine (DC) to provide sufficient hydrophobicity for micelle formation, as indicated by the peaks at 0.85, 0.98, and 1.23 ppm (i, j, and k), respectively. In TEPA polymer, the broad peak at 2.98 ppm for TEPA and the characteristic peaks at 1.38, 1.24, and 0.85 ppm (e, f, and g) for DC chain suggest their successful conjugation (Fig. 5B). 1H NMR spectra of intermediate products, such as mPEG-PBLA (Poly--benzyl-L-aspartate) in dimethyl sulfoxide (DMSO)d6, Boc-Ala-SS-OH in CDCl3, Diboc-GEM in DMSO-d6, Boc-Ala-SS-Diboc-GEM in CDCl3, Ala-SS-GEM in DMSO-d6, and GE11-PEG-co-P(Asp)-g-DC in DMSO-d6, are also shown in fig. S5.

(A and B) 1H NMR spectra of mPEG-co-P(Asp)-g-TEPA-g-DC and mPEG-co-P(Asp)-g-Ala-SS-GEM-g-DC. (C) Particle size distribution of redox-sensitive mixed micelles, as determined by dynamic light scattering. (D) Surface morphology and particle size distribution of mixed micelles determined by atomic force microscopy. (E) mPEG-co-P(Asp)-g-TEPA-g-DC forms complexes with miRNA at the N:P (TEPA:miRNA) ratio of 4:1 and above, as determined by gel electrophoresis. (F) GEM and miRNA release profiles from micelles with or without miR-519c demonstrate GSH-responsive GEM release and controlled release of miRNA in the presence of GSH.

The particle size distribution of miR-519ccomplexed and GEM-conjugated redox-sensitive mixed micelles was prepared using mPEG-co-P(Asp)-g-Ala-SS-GEM-g-DC and mPEG-b-PCC-g-DC-g-TEPA (Fig. 5C). As determined by atomic force microscopy, these mixed micelles were spherical in shape and narrow particle size distribution, with the mean particle size of 129.5 5 nm (Fig. 5D). GEM loading was 14% in the polymer conjugate, as determined after alkaline hydrolysis and analysis with high-performance liquid chromatographyultraviolet (HPLC-UV), which was consistent with the NMR calculation. Micelles prepared using mPEG-co-P(Asp)-g-TEPA-g-DC had the mean particle size of 77.18 nm and formed a complex with miRNA at a very low N:P ratio (4:1) (fig. S6). The particle size of mixed micelles based on the above two polymers was 160 nm. Drug-polymer conjugates and miRNA were analyzed for their drug release profiles at different conditions. In the absence of GSH, GEM conjugates were stable and released only up to 5% of GEM within 4 days. Disulfide conjugates released significant amounts of GEM within an hour in 10 mM GSH. These results confirmed that disulfide conjugates were stable at physiological conditions but rapidly released GEM in the reducing environment. The release profile demonstrated a controlled release of miRNA from GEM conjugates/TEPA micelles over 2 days (Fig. 5F).

To optimize GE11 peptide concentration for enhanced EGFR receptormeditated endocytosis, we determined the effect of GE11 peptide on the cellular uptake of micelles after incubation of MIA PaCa-2R cells with coumarin G6loaded mixed micelles prepared at 10:90, 20:80, and 30:70 ratios of GE11 peptidedecorated micelles and nontargeted micelles. There was an increase in cellular uptake with increasing GE11 peptide concentration, but the level of cellular uptake for the mixed micelles at 20:80 and 30:70 ratios was similar (fig. S7A). To avoid the effect of high GE11 peptide concentration on micellar stability and systemic toxicity, we did not formulate targeted micelles beyond 30:70 ratio. Preincubation of cells with excess of free GE11 peptide significantly reduced the cellular uptake of the mixed micelles, indicating that the uptake was receptor mediated (fig. S7A). Then, we determined the biodistribution of GEM to the tumor at 6 and 24 hours after systemic administration of nontargeted and EGFR-targeted GE11-decorated GEM-conjugated OMe-PSmiR-519c mixed micelles into desmoplastic pancreatic tumorbearing nonobese diabetic/severe combined immunodeficientgamma null (NSG) mice at the doses of GEM (20 mg/kg) and miRNA (1 mg/kg). Desmoplastic orthotopic mouse model recapitulates hypoxic tumor microenvironment responsible for decreased drug delivery and chemoresistance in pancreatic cancer. At 6 and 24 hours after administration, GEM and miRNA were extracted from the tumor, and the liver and their concentrations were determined by liquid chromatographytandem mass spectrometry (LC-MS/MS) (using 5-Aza-2-dC as an internal standard) and real-time PCR, respectively. We observed significantly higher GEM and miR-519c concentrations in the tumor at 6 and 24 hours after administration of GE11 peptidedecorated combination mixed micelles compared to nontargeted combination mixed micelles (Fig. 6A). In contrast, GEM concentrations in the liver at 6 and 24 hours after administration of GE11 peptidedecorated combination mixed micelles were significantly lower than those of the mice injected with nontargeted combination mixed micelles (fig. S8A). The relative levels of miR-519c were higher in the tumor at 6 and 24 hours after administration of GE11 peptidedecorated combination mixed micelles compared to nontargeted combination mixed micelles (fig. S8C).

(A) Biodistribution of GEM and OMe-PSmiR-519c at 6 and 24 hours after injection of nontargeted (NT) and GE11-targeted micelles following intravenous injection at GEM dose of 20 mg/kg and miR-519c dose of 1 mg/kg. GEM concentration was determined by LC-MS/MS using 5-Aza-2-dC as an internal standard for GEM quantification. miR-519c concentration was determined by real-time PCR. (B) Bioluminescence images of tumors and isolated tumor images at the end of the experiment. (C) Tumor weight after treatment and (D) body weight. (E) Representative microscopic pictures of immunohistochemical staining for HIF-1, -SMA, Ki-67, and cleaved caspase-3. Scale bars (10), 200 m. Photo credit: Xiaofei Xin, University of Nebraska Medical Center. *P < 0.05 and *P < 0.001, two-paired t test.

Desmoplastic orthotopic mouse model recapitulates hypoxic tumor microenvironment responsible for decreased drug delivery and chemoresistance in pancreatic cancer. Micelles were injected intravenously three times a week for 2 weeks, and tumor growth was monitored by in vivo imaging system (IVIS) bioluminescence imaging. The rationale of doses and schedules of individual drugs were designed on the basis of previous studies (21). Notably, the combination therapy had lower doses of individual drug and miRNA. GEM micelles and OMe-PSmiR-519c micelles separately controlled tumor growth significantly more than saline or free GEM. Nontargeted combination micelles demonstrated synergy and had greater tumor growth inhibition than either GEM-conjugated micelles or OMe-PSmiR-519ccomplexed micelles, reflecting the ability of OMe-PSmiR-519c to down-regulate HIF-1 and resensitize pancreatic cancer to GEM. EGFR-targeted GE11 peptidedecorated mixed micelles were even more effective than nontargeted mixed micelles in controlling tumor growth (Fig. 6B). The tumor weight was the lowest for GE11 peptidedecorated combination micellestreated group compared to all treated groups (Fig. 6C). We did not observe a decrease in body weight or morbidity in mice (Fig. 6D).

Hematoxylin and eosin (H&E) staining of tumor tissues confirmed the extensive apoptotic and necrotic cells throughout the tumor in the control group and the inhibition of proliferation of tumor cells in the treated groups. Compared to the control and free GEM group, the tumor samples from GEM conjugated redox-sensitive micellestreated group exhibited with limited metastatic cells (Fig. 6E). Coinjection of hPSCs with MIA PaCa-2R cells stimulated tumor growth by inducing fibrosis, as evidenced by the overexpression of smooth muscle actin (-SMA) in the tumor of the saline-treated group (Fig. 6E). Treatment of the mice with GEM-conjugated redox-sensitive micelles or miR-519ccomplexed micelles showed a significantly less -SMApositive fibrotic area (Fig. 6E). However, the mice treated with the combination therapy showed the least -SMApositive staining in the tumor.

Ki-67 protein is an excellent marker for determining the cell proliferation. Ki-67 staining of tumor tissues confirmed the extensive cell proliferation in the nontreated control group compared to the free GEM-treated group. Tumor tissues treated with GEM-conjugated redox-sensitive micellestreated group showed a significantly lower number of cells Ki-67positive cells (Fig. 6E). Furthermore, cleaved caspase-3 staining of tumor tissues indicated the induction of significant apoptosis by treatment with GEM redox-sensitive micelles and miR-519c micellestreated groups, compared to free GEM- and saline-treated group. GE11 peptidedecorated combination micellestreated group showed the lowest Ki-67 and highest cleaved caspase-3 expression compared to all other treatment groups (Fig. 6E). In addition, we determined the systemic toxicity of GE11-decorated combination micellestreated groups and saline-treated control group by histological analysis of the major organs. There were no noticeable histological changes observed in the livers, spleens, kidneys, and hearts from the treatment groups (fig. S9), suggesting that the mice tolerated GE11 peptidedecorated combination micellar formulation of GEM and miR-519c treatment well.

These findings indicated that EGFR-targeted micelles were able to deliver miR-519c and GEM to the tumor sites and release the antitumor agents via redox responsiveness, thus resulting in maximum synergy against pancreatic cancer without additional toxicities.

PDAC is a recalcitrant disease characterized by highly aggressive cancer cells, extensive desmoplastic reaction, and hypovascularization. These unique features endow PDAC tumors with an array of resistance mechanisms against standard-of-care chemotherapy treatments (22). It is, therefore, urgent to identify novel targets that can sensitize tumor cells. Desmoplastic and hypoxic pancreatic tumor microenvironments play multifaceted roles in inducing chemotherapy resistance, promoting distant metastasis, and serving as a barrier to drug delivery (23). Hypoxic microenvironment activates quiescent PSCs in extracellular matrix (ECM) by up-regulation of Hh signaling ligands (Fig. 1D). Strong desmoplasia severely affects vascular function, resulting in hypovascularization of the tumor, which up-regulates HIF-1 expression (fig. S1). Therefore, a cycle of hypoxia and desmoplasia is amplifying each other. This cycle could be blocked by HIF-1 inhibition, which was found sufficient enough to impede Hh signaling (24).

Aberrant expression of miRNA correlates with altered expression of genes responsible for stemness, metastasis, cancer metabolism, hypoxia, and chemoresistance (25). The advantage of miRNAs lies in their ability to modulate multiple cellular pathways simultaneously, which are difficult to target by small molecules and therapeutic proteins. miR-519c is down-regulated in pancreatic cancer patient tissues and different cell lines (Fig. 1, A and B) but can target HIF-1 and Hh ligands such as SHH and GLI, as determined by Western blotting (Fig. 1, C and D). Therefore, miR-519c could be a promising strategy in the inhibition of desmoplasia of pancreatic cancer and other hypoxia-related genes. The presence of miR-519c prevented migration of MIA PaCa-2R cells in the presence of hPSC-conditioned medium (Fig. 1E), indicative of miR-519cmediated inhibition of tumor cellstromal metabolic interactions. The tumor microenvironment promotes the interactions between cancer cells and their surrounding cancer-associated fibroblasts (CAFs; PSCs in this case). This feedback is reciprocal, and CAFs can both promote and impair cancer progression, while cancer cells promote PSC activation, proliferation, migration, and ECM remodeling capability via the Hh pathway. Activated PSCs secrete numerous growth factors including platelet-derived growth factor, transforming growth factor, and inflammatory cytokines in the tumor (26). Many reports suggest that HIF-1 induces migration in pancreatic cancer cells by regulating genes such as EMT regulators Snail, chemokine (C-X3-C motif) receptor 1 (CX3CR1), and glucose metabolism (27, 28). We have shown that inhibiting HIF-1 decreased several metabolism-related genes such as GLUT1, NME4, LDHA, HKII, and TKT (Fig. 2, A and D), thus providing the rationale for reduced migration of MIA PaCa-2R cells in the presence of miR-519c.

Resistance to chemotherapeutic drugs in pancreatic cancer could have many causes, such as intrinsic resistance mechanisms and desmoplastic microenvironments that promotes cancer cell resistance by providing an environment that hampers drug delivery. HIF-1mediated metabolic alterations that facilitate GEM resistance in pancreatic cancer cells have been recently reported (29). GEM-resistant pancreatic cancer cells maintain a higher dC pool. Increased glucose metabolism fuels GEM resistance in pancreatic cancer cells, supporting de novo synthesis of dC through nonoxidative PPPs. Here, we show that GEM resistance in hypoxic pancreatic cancer cells can be reversed by miR-519c repletion. The coordinated transcription induction of genes encoding glycolytic enzymes and pyrimidine synthesis in response to hypoxia is mediated by HIF-1. Consistent with HIF-1 down-regulation by miR-519c, we found that miR-519c may counteract hypoxia-induced increase in glycolytic influx and intracellular dCTP level (Figs. 2 and 3).

Hypoxia up-regulates glucose metabolism, angiogenesis, and drug-resistant genes (30). HIF-1 signaling transactivates a multitude of target genes that enhance glucose uptake, as determined by an increase in 2-DG (Fig. 2B), glycolysis, and oxidative phosphorylation, thus facilitating cancer cell survival under oxygen- and glucose-deprived microenvironments. HIF-1 also results in an increase in pancreatic cancer, leading to increased dCTP pool and GEM resistance (Figs. 2D and 3A). Hypoxia and overexpression of HIF-1 ultimately promote induction of an invasive and treatment-resistant phenotype of pancreatic cancer.

We have reported previously that under in vitro conditions, GEM is highly effective in mediating toxicity against human pancreatic cancer cells. In contrast, orthotopic tumors in the pancreas were resistant to systemic therapy of GEM. Many factors affect GEM efficacy in vivo, including higher-rate metabolism, dose-limiting toxicity, competition with cellular dCTP pool, various efflux mechanisms, and poor penetration into the bulk of the tumor.

ABCG2 is an efflux transporter that is often observed in drug-resistant cancer cells and contributes to a multidrug resistance phenotype. ABCG2 may help provide a survival advantage during conditions of hypoxia and allow cells to escape the toxic effects of chemotherapeutic drugs. HIF-1 binds to the hypoxia response element, and binding of latter to the ABCG2 promoter increases its transcription in pancreatic cancer cells (31). Our data suggest that miR-519c, by inhibiting HIF-1, decreases ABCG2-mediated GEM resistance. Over the decades, researchers faced the technical hurdles associated with bringing a therapeutic oligonucleotide product to market. A key hurdle includes getting small interfering RNA/miRNA molecules into the right cells in vivo. Delivery of miRNAs is difficult because they are relatively large, chemically unstable, immunogenic, and negatively charged molecules that do not cross the cell membrane (32). Previously, we have shown that rationally designed chemically modified miRNA could provide an excellent solution by increasing their stability and decreasing their immunogenicity (18). Here, we chemically modified miR-519c with OMe-PS at its 3 end to enhance stability, in vivo half-life, and loading affinity into the RISC (Fig. 4).

The therapeutic efficacy of GEM depends on its delivery to the tumor site, activation by dC kinase to GEM monophosphate, and evading deactivation by cytidine deaminase. As discussed above in detail, desmoplasia makes it difficult for GEM to achieve adequate accumulation inside the tumor after systemic administration. Previously, we have shown that PEGylation prolongs the circulation of GEM-conjugated micelles and improves its overall therapeutic effect (14).

EGFR overexpression is observed in pancreatic cancer cells (33). EGFR-binding monoclonal antibody cetuximab (C225) blocks the binding of EGFR ligands to the receptor. Although cetuximab can exert an anticancer effect in patients expressing wild-type KRAS, pancreatic cancer that expresses mutated KRAS (Kirsten rat sarcoma) in 95% of cases is resistant to cetuximab therapy. EGFR expression is also high in distant metastatic pancreatic cancer (34), hence provides an ideal candidate for targeted drug delivery. Previously, we demonstrated higher tumor accumulation when cetuximab-conjugated micelles were administered into orthotopic PC (pancreatic cancer)bearing NSG mice, which resulted in low tumor burden compared to immunoglobulin Gtargeted and nontargeted micelles (21). To avoid high mitogenic potential of full-length EGFR antibody cetuximab, we developed GE11 peptide (CYHWYGYTPQNVI)decorated micelles, reported equal target binding capacity as of cetuximab, and showed higher drug accumulation and better efficacy (35). Further, small-sized PEGylated nanoparticles and micelles are preferentially accurate at the tumor and inflammatory sites via passive targeting (2).

To further improve our delivery system, here, we developed a new redox-sensitive therapeutic strategy to enhance the chemotherapeutic efficacy in pancreatic cancer, while reducing systemic side effects at the same time. GEM conjugated with the polymer via an amide bond shows very slow release from the micelles, thus proved to be a bottleneck for effective drug concentration. A conjugate with disulfide bonds, which can be easily cleaved by reducing GSH into sulfhydryl groups, causes the degradation of micelles and facilitates the release of the drug. The disulfide bond in mPEG-co-P(Asp)-g-Ala-SS-GEM-g-DC can be readily broken by GSH, the concentration of which is significantly higher in tumor than the normal tissues. That can facilitate the precise release of GEM in the tumor site and limit its toxicity to normal organs.

For codelivery, we synthesized mPEG-co-P(Asp)-g-DC-g-S-S-GEM, mPEG-P(Asp)-g-TEPA-g-DC, and GE11-PEG-P(Asp)-g-DC to load GEM and miR-519c in the hydrophobic core (Fig. 5). Because of the complexity of different components, we formulated mixed micelles using different ratios of these polymers. Our novel formulations offer distinct advantages such as targeted delivery of GEM and miR-519c, prevention of rapid deamination of GEM, and the intratumoral release of GEM based on intracellular stimuli such as GSH (Fig. 5F), thus reducing toxicity to normal tissues, and enhanced stability of miRNA. Moreover, PEG shell can prevent aggregation and impart a high degree of stability and stealth effect, leading to the enhanced mean residence time of the drug and miRNA.

EGFR expression plays an important role in metastasis, especially liver metastasis, and recurrence of human pancreatic cancer (34). EGFR facilitates metastasis in pancreatic cancer through activation of Akt and extracellular signalregulated kinase pathway. Metastatic nodules have higher EFGR expression level than the primary tumor, but we did not observe those nodules in the liver, as evidenced by H&E staining (Fig. 6E). The total mass balance of the injected dose might be the reason for lower accumulation of GE11 combination micelles in the liver than the nontarget micelles (fig. S8, A and B).

The rationale of combination therapy that combines two or more therapeutic agents is to lower the doses of individual drug and miRNA to achieve better therapeutic outcome and minimize dose-related side effects (36). Since miR-519c resensitizes pancreatic cancer cells to GEM, we decreased the dose of GEM from 40 to 20 mg/kg and the dose of OMe-PSmiR-519c from 2 to 1 mg/kg when used in combination to determine whether there is synergism in their therapeutic efficacy. GEM-conjugated OMe-PSmiR-519ccomplexed mixed micelles exhibited the highest synergy in tumor regression after systemic administration in orthotopic pancreatic tumorbearing mice (Fig. 6, B and C), with no weight loss (Fig. 6D) or any sign of toxicity in the vital organs of mice from any group during or after the treatment. We observed a significant decrease in HIF-1, -SMA, and Ki-67 expression and a decrease in the cleaved caspase-3 expressions in the combination treatment group (Fig. 6E). This might be attributed to GE11 peptidedecorated micelles achieving higher concentrations of GEM and OMe-PSmiR-519c in the tumor. High -SMA in pancreatic cancer is associated with dense stroma reaction and worse patient outcome. -SMA is expressed by activated PSCs, in response to hypoxia and Hh signaling.

Particle size distribution, shape, and surface morphology of nanoparticles affect their biodistribution and accumulation at the tumor site (37, 38). The particle size distribution of mPEG-co-P(Asp)-g-TEPA-g-DC/miR-519ccomplexed micelles, GEM-conjugated mPEG-co-P(Asp)-g-Ala-S-S-GEM-g-DC micelles, and their combination micelles was 100 20 nm (Fig. 5, C and D). On the basis of our previous studies (2, 39), small particle size and PEGylated surface prolong the blood circulation of these micelles after systemic administration. However, stroma acts as a barrier for nanoparticle delivery to the pancreatic tumor. Since miR-519c targets hypoxia and reduces the desmoplastic barrier, we observed a decrease in -SMA expression in the tumor (Fig. 6E). Therefore, there was significant accumulation of miR-519c and GEM in the tumor after systemic administration of combination micelles (Fig. 6A and fig. S8C).

The combination of GEM and miR-519c showed a synergistic effect in the nonmetastatic orthotopic desmoplastic pancreatic cancer mouse model (Fig. 6), which suggests that this treatment could be useful for patients with stage 0 to III pancreatic cancer. Although we did not observe liver metastasis during the therapeutic study, EGFR expression is expected to be higher in hepatic metastatic nodules than in the primary tumor. Hence, GE11-based nanoparticle delivery platform has the potential to target the metastatic nodules in the liver or other distant metastasis in stage IV (34). More data related to the therapeutic effect study in the orthotopic pancreatic tumor mouse model of liver metastasis will be needed to testify this in the future.

In conclusion, the key hurdles of the clinical translation of nanomedicine are biological barriers, large-scale manufacturing, biocompatibility, and safety (40, 41). The characterization of our combination micelles shows sufficient drug loading of GEM and miRNA, redox-responsive release of GEM, and controlled release of miRNA. The GE11-targeting mixed micelle system proposed in this study leads to active EGFR targeting, significant accumulation in desmoplastic pancreatic tumor, precise release of GEM and miR-519c at tumor sites with the disulfide bond, and efficient synergistic therapeutic effect in vivo. In addition, the PEG corona prolonged the circulation time of micelles and has no observed toxicity in major organs, which enhance the biocompatibility and safety of this platform. Further, scale-up of this delivery system is feasible and can support a first-in-human phase 1 clinical trial.

Dulbeccos modified Eagles medium (DMEM) high-glucose medium, 0.25% trypsin, and Dulbeccos phosphate-buffered saline (DPBS) were purchased from HyClone (Logan, UT). Keratinocyte-SFM (serum-free medium) medium, bovine pituitary extract, and human recombinant EGF were purchased from Gibco (Chevy Chase, MD). Heat-inactivated FBS, antibiotic-antimycotic for cell culture, radioimmunoprecipitation assay (RIPA) buffer for cell lysis and phosphatase inhibitor cocktail (100), live and dead assay kit, miR-519c-3p mimics, Pierce BCA (bicinchoninic acid) protein assay kit, RediPlate 96 RiboGreen RNA quantitation kit, and FxCycle PI/RNase staining solution (F10797) were purchased from Thermo Fisher Scientific (Waltham, MA). Hepes buffer was purchased from Millipore Sigma (St. Louis, MO). Human c-Myc primary antibody was purchased from Proteintech (Manchester, UK). GLUT1, GLI1, SHH, -actin, and SMO primary antibodies were purchased from Santa Cruz Biotechnology (Dallas, TX). Laemmli buffer (4), 10 tris/glycine/SDS protein electrophoresis running buffer (pH 8.3), and 10 tris-buffered saline buffer were purchased from Bio-Rad (Hercules, CA). HIF-1 and ABCG2 primary antibodies were purchased from Abcam (Cambridge, MA). HIF-1 primary antibody was purchased from Novus Biologicals LLC (Centennial, CO). AGO2 primary antibody was purchased from Boster Bio (Pleasanton, CA). Glucose uptake cell-based assay kit (item no. 600470) was purchased from Cayman Chemicals (Ann Arbor, MI). RNeasy mini kit, miScipt II RT kit, miScript SYBR Green kit, Hs_miR-519c-3p miScript primer assay, and Hs_RnU6 miScript primer assay were purchased from QIAGEN (Germantown, MD).

MIA PaCa-2 cell line was purchased from the American Type Culture Collection (Manassas, VA), and MIA PaCa-2resistant (MIA PaCa-2R) cells were generated from MIA PaCa-2 by incubating with GEM in a high-glucose DMEM supplemented with 10% FBS and 1% penicillin/streptomycin at 37C, 5% CO2, and 100% humidity and were split when confluent. HPDE cells were cultured in Keratinocyte-SFMsupplemented bovine pituitary extract and human recombinant EGF in an identical atmosphere. hPSCs were cultured in stellate cell basal medium supplemented with 10% FBS, stellate cell growth supplement, and 1% penicillin/streptomycin. A hypoxic chamber filled with 94% nitrogen, 5% CO2, 1% O2, and 100% humidity was used to generate hypoxic conditions as needed.

hPSC-conditioned medium was obtained using the following steps: Subconfluent PSCs were washed with PBS and incubated with stellate cell basal medium under above conditions for 48 hours. Then, the medium was collected and centrifuged for further use.

MIA PaCa-2R cells of 5 105 per well were seeded in six-well plate, and, after 24 hours, cells were treated with PBS, scrambled miRNA, and miR-519c with or without PSC-conditioned medium for 6 hours under normoxia and hypoxia, respectively. Then, 1 105 cells were collected from each well, resuspended with 200 l of serum-free DMEM, and added to Transwell upper chambers. One milliliter of DMEM containing 20% FBS that served as the chemoattractant was in the lower chamber, and the cells were incubated for 24 hours under normoxic and hypoxic conditions. A cotton-tipped swab was used to remove the cells that did not migrate through the pores. The chambers were fixed in 4% paraformaldehyde and stained with crystal violet.

MIA PaCa-2R cells of 5 104 per well were seeded in a 96-well plate. After 24 hours, cells were treated with miR-519c and scrambled miRNA in 100 l of glucose-free culture media for another 24 hours under normoxic and hypoxic conditions. Glucose uptake cell-based assay kit was applied to evaluate glucose uptake in MIA PaCa-2R cells as following: 2-NBDG (2-deoxy-2-((7-nitro-2,1,3-benzoxadiazol-4-yl)amino)-glucose) (150 g/ml) was added in glucose-free medium for 1.5 hours under normoxic and hypoxic conditions. The plates were centrifuged for 5 min at 400g at room temperature. The supernatants were discarded, and 200 l of the cell-based assay buffer was added to each well for washing cells twice. At the end, 100 l of cell-based assay buffer was added, and the plates were analyzed by a fluorescent reader with an excitation/emission of 485/535 nm to quantify 2-NBDG taken up by cells. Samples were normalized by the fluorescence intensity in scrambled miRNA under normoxia. The concentration of dCTP was quantified by LC-MS/MS.

For GLUT1 expression, MIA PaCa-2R cells at a dose of 2 105 per well were seeded in a six-well plate. After 24 hours, cells were incubated under normoxic and hypoxic conditions. Then, cells were harvested, washed with cell staining buffer three times, incubated with GLUT1 primary antibody in cell staining buffer for 1 hour, followed by Cy5-conjugated secondary antibody for another 30 min, and analyzed by flow cytometer.

MIA PaCa-2R cells at a dose of 2 105 per well were plated in a six-well plate overnight and transfected by Lipofectamine/miR-519c under normoxic and hypoxic conditions for 24 hours. Then, all samples were subjected to total RNA isolation by QIAGEN RNeasy mini kit. Reverse transcription PCR was carried out using QIAGEN miScript II reverse transcription kit. MiR-519c and mRNA levels of SHH, GLI1, NME4, LDHA, HKII and TKT were quantitatively assayed in Roche Light Cycler 480 using miScript SYBR Green PCR kit. MiR-519c and mRNA were normalized to U6 small nuclear RNA and glyceraldehyde-3-phosphate dehydrogenase levels, respectively. Primers were designed as follows: HKII-1, 5-GAGCCACCACTCACCCTACT-3 (forward) and 5-ACCCAAAGCACACACGGAAGTT-3 (reverse); TKT-1, 5-TCCACACCATGCGCTACAAG-3 (forward) and 5-CAAGTCGGAGCTGATCTTCCT-3 (reverse); NME4-1, 5-AGGGTACAATGTCGTCCGC-3 (forward) and 5-GACGCTGAAGTCACCCCTTAT-3 (reverse).

For Western blot assay, all samples were isolated with RIPA buffer on ice within 5 min to prevent HIF-1 degradation when reexposed to O2, and the protein concentration was determined with Pierce BCA protein assay kit. After that, cell lysates were mixed with Laemmli loading buffer, boiled at 100C for 5 min, loaded in the wells of 4 to 15% SDSpolyacrylamide gel electrophoresis gel, transferred by electroporation to polyvinylidene difluoride membrane, and incubated with blocking buffer for 1 hour at room temperature first and then with antiHIF-1, antic-Myc, anti-ABCG2, antiHIF-1, and anti-actin primary antibody overnight at 4C. IR-680 fluorescent dyelabeled secondary antibodies were added, followed by imaging in iBright FL1000. HIF-1 and -actin were both used as the loading control.

MIA PaCa-2R cells at a dose of 2 105 per well were plated in a six-well plate and treated with scrambled miRNA and miR-519c under normoxic and hypoxic conditions for 24 hours. Then, cells were harvested, fixed with 70% ethanol in 4C for 1.5 hours, and washed three times with PBS to remove ethanol. Subsequently, cells were centrifuged, a pellet of cells was collected in tubes, and 0.5 ml of FxCycle PI/RNase staining solution was added to each flow cytometry sample for 30 min at room temperature, avoiding any exposure to light. Flow cytometry was used to test samples at an excitation/emission of 532/585 nm.

Cytotoxicity of GEM, miR-519, and their combination was determined by MTT (3-(4,5-Dimethylthiazol-2-yl)-2,5-Diphenyltetrazolium Bromide) assay. MIA PaCa-2R cells were plated at a density of 5000 cells per well in a 96-well plate overnight. Then, GEM, miR-519c-3p, and the combination of GEM and miR-519c were added to 96-well plates with a GEM concentration ranging from 0.1 to 50 M and miR-519c concentration from 5 to 100 nM under hypoxic condition. After 48 hours of incubation, MTT solution at a concentration of 5 mg/ml was added, and cells were cultured for another 3 hours. The supernatant was discarded, and 200 l of DMSO was added to each well. Cell viability was determined using a spectrophotometer.

hPSC and MIA PaCa-2R cells (1:2; a total of 600 cells in 40 l per well) in DMEM with 10% FBS were seeded onto Perfecta3D 96-Well Hanging Drop Plates (3D Biomatrix Inc., Ann Arbor MI) and incubated with 5% CO2 at 37C. On the fourth day, the spheroids were treated with GEM, miR-519c, and their combination. Cells treated with PBS and scrambled miRNA were used as controls. Morphologies of tumor spheroids were observed under a Zeiss microscope on days 6, 8, 10, and 12 to determine cytotoxicity. Live and dead assay kit was applied following the manufacturers protocol to visualize the apoptosis in desmoplastic tumor spheroids by confocal laser scanning microscopy.

Targeting gene silencing by RNA interference requires RISC. AGO protein is a core protein binding to miRNA. We loaded AGO2 with miRNAs by the action of a specialized assembly RISC-loading complex. To assess the difference of miRNA loading between unmodified miR-519c and OMe-PSmiR-519c, MIA PaCa-2R cells at a dose of 2 105 per well were seeded in a six-well plate and then transfected with unmodified miR-519c and OMe-PSmiR-519c using Lipofectamine for 24 hours under normoxic and hypoxic conditions. Cells were washed three times with PBS and lysed using Pierce IP lysis buffer. A Pierce BCA assay kit was applied to quantify protein concentration, and all samples were diluted to 1000 g/ml by cell lysis buffer. Ten micrograms of AGO2 primary antibody and 500 l of cell lysis buffer were mixed and incubated overnight at 4C. Then, the antigen sample/antibody mixture was added to 1.5 ml of microcentrifuge tubes containing prewashed magnetic beads and incubated for 1 hour at room temperature. After that, beads were collected with a magnetic stand and washed twice with tris-buffered saline and ultrapure water, respectively. One hundred microliters of elution buffer was incubated with samples for 10 min at room temperature. The supernatant of miRNA-AGO2 complexes was harvested after separating from beads with a magnetic stand, following which 15 l of neutralization buffer was added. Synthetic miR-39 from Caenorhabditis elegans (Cel-miR-39) was selected as a spike-in control for miRNA quantification by RTquantitative PCR. For this purpose, first, all samples were isolated by QIAGEN RNeasy mini kit, then reverse transcribed by miScript II RT kit, and amplified with miScript SYBR Green PCR kit using Roche LightCycler 480.

Redox-responsive GEM-conjugated copolymer, TEPA-containing copolymer for complex formation with miRNA, and EGFR-targeting GE11 peptideconjugated copolymer were synthesized, as illustrated in Fig. 7 as described below:

GE11 peptide, CYHWYGYTPQNVI. (A) Synthesis of BLA-NCA. (B) Synthesis of mPEG-PBLA. (C-F) Synthesis of Ala-SS-GEM. (G) Synthesis of mPEG-co-P(Asp)-g-Ala-SS-GEM-g-DC and mPEG-P(Asp)-g-TEPA-g-DC. (H) Synthesis of GE11-PEG-co-P(Asp)-g-DC. rt: room temperature, EDC: 1-Ethyl-3-(3-dimethylaminopropyl)carbodiimide, HoBt: Hydroxybenzotriazole, TEA: triethylamine.

Step 1: Synthesis of BLA-NCA: We synthesized -benzyl l-aspartate N-carboxy anhydride (BLA-NCA) by reacting l-aspartic acid -benzyl ester with triphosgene in tetrahydrofuran (THF) under N2 atmosphere. (Fig. 7A).

Step 2: Synthesis of amphiphilic polyamino copolymer mPEG-P(Asp): We synthesized mPEG-PBLA by ring-opening polymerization of BLA-NCA using mPEG-NH2 (weight-average molecular weight, 5000) as a macroinitiator in dry N,N-dimethylformamide at 55C under the N2 atmosphere for 48 hours (Fig. 7B).

Step 3: Synthesis of Ala-SS-GEM: We synthesized Ala-SS-GEM using the following four steps: First, Boc--Ala-OH was reacted with bis(2-hydroxyethyl) disulfide using dicyclohexylcarbodiimide (DCC) coupling reaction in the presence of 4-dimethylaminopyridine in THF. The crude product was purified by flash column chromatography to obtain the intermediate Boc-Ala-SS-OH as a colorless liquid (Fig. 7C). Second, Diboc-GEM was synthesized by reacting GEM HCl, and Boc-anhydride was dissolved in a mixture of dioxane and 1.0 M KOH at room temperature. After completion of the reaction, the reaction mixture was extracted with EtOAc (Ethyl acetate) and washed; dried organic layer was concentrated and, again, treated with Boc-anhydride in 1.0 M KOH solution. After completion of the reaction, the mixture was washed and dried, and the combined organic layer was evaporated and purified by column chromatography to give diboc-GEM a white solid product (Fig. 7D). Third, the intermediate Boc-Ala-SS-OH and diboc-GEM were reacted with triphosgene in the presence of pyridine in anhydrous dichloromethane (DCM) for 1 hour at 0C. The reaction mixture was stirred for additional 4 hours at room temperature. The crude product was then purified using column chromatography to afford Boc-Ala-SS-Diboc-GEM as a colorless oil (Fig. 7E). Last, Ala-SS-GEM was synthesized by removing the Boc groups in a mixture of DCM:trifluoroacetic acid (TFA) (1:1) (Fig. 7F).

Step 4: Ala-SS-GEM and DC (DC-NH2) were conjugated to mPEG-PBLA polymer by aminolysis reaction in dry dimethylformamide at room temperature for 48 hours to afford mPEG-co-P(Asp)-g-Ala-SS-GEM-g-DC (Fig. 7G). The structure and molecular weight of mPEG-co-P(Asp)-g-Ala-SS-GEM-g-DC was determined by 1H NMR and gel permeation chromatography, respectively. Similarly, mPEG-P(Asp)-g-TEPA-g-DC was synthesized by replacing Ala-SS-GEM with TEPA.

Step 5: GE11 peptide (CYHWYGYTPQNVI) and DC were conjugated to MAL-PEG-PBLA polymer in dry dimethylformamide at room temperature overnight to get GE11-PEG-co-P(Asp)-g-DC (GE11-targeting peptide; Fig. 7H).

The mixture of mPEG-co-P(Asp)-g-TEPA-g-DC and mPEG-co-P(Asp)-g-Ala-SS-GEM-g-DC copolymers dissolved in acetone/methanol (1:1, v/v) was added drop by drop to aqueous solution containing miR-519c. To remove residual acetone and methanol, samples were evaporated in a rotary evaporator. The mixture was filtered through polycarbonate syringe filters of 200-nm pore size. Particle size was measured using Malvern Zetasizer. In vitro GEM release from redox-responsive micelles was performed under pH 7.4 with or without 10 mM GSH. Dialysis bags (molecular weight cutoff, 3500 Da) were loaded with 1 ml of redox-responsive micelles, immersed into 30 ml of PBS buffer solutions, and shaken at a speed of 100 rpm at 37C (n = 3). GEM concentration was determined by HPLC-UV under the following conditions: C18 column (5 m, 250 4.6 mm), flow rate (1 ml/min), acetonitirle and water (90:10, v/v) as mobile phase, an injection volume of 20 l, and a wavelength of 267 nm. In vitro miRNA release from TEPA micelles was carried out by suspending the formulation to PBS buffer solutions under pH 7.4 at each time point and shaking at a speed of 100 rpm at 37C (n = 3). The samples were centrifuged, and the supernatants were collected at each time point. The concentration of released miRNA was tested by RiboGreen RNA quantification kit.

All the animal experiments were approved by the Institutional Animal Care and Use Committee of the University of Nebraska Medical Center, Omaha, NE and carried out as per the National Institutes of Health guidelines. The orthotopic human pancreatic cancer mouse model was developed using 6- to 8-week-old male NSG mice (20 to 25 g). Luciferase stably expressing MIA PaCa-2R cells (0.5 106) and hPSCs (0.5 106) were mixed with Matrigel (2:1) using ice-cold instruments and syringes. Then, mice were anesthetized using isoflurane in an induction chamber, and 30 l of Matrigel cell suspension was orthotopically injected into the pancreas tail. Tumor growth was monitored using the Spectrum IVIS (PerkinElmer, Hopkinton, MA) after intraperitoneal administration of luciferin (20 mg/ml) (150 l per mouse). Three weeks after tumor injection, free GEM and OMe-PSmiR-519c, combination micelles, and GE11 combination micelles were injected to mice via the tail vein as a single administration at a dose (or dose equivalent) of GEM (20 mg/kg) and miR-519c (1 mg/kg). Mice were euthanized either at 6 or 24 hours, and major organs such as the tumor, heart, liver, spleen, lung, and kidney were collected for LC-MS/MS analysis (4000 QTRAP, AB, Sciex Inc.). Briefly, 50 mg of tissue samples were homogenized in 1 ml of PBS, spiked with 5-aza-dC as the internal standard and transferred on ice immediately. Subsequently, 3.0 ml of cold acetonitrile was added, followed by vortexing and high-speed centrifugation in 4C. The supernatant was evaporated to dryness, and the residues were reconstituted with 200 l of acetonitrile:water (10:90, v/v). LC-MS/MS data acquisition will be performed using the Analyst software on a QTRAP 4000 mass spectrometer. The mass spectrometer will be operated in the positively selected reaction monitoring for GEM [mass/charge ratio (m/z), 264.0/112.0) and internal standard (m/z, 229.0/113.0). Total RNA from tissue samples were isolated by QIAGEN RNeasy mini kit, and RT-PCR assay was applied for miR-519c quantification.

For therapeutic study, mice were randomly divided into six groups (n = 5 per group) when the bioluminescence reached 1 106. GEM at a dose of 40 mg/kg for free GEM and GEM micelles, miR-519c at the dose of 2 mg/kg for miR-519c micelles, and GEM at a dose of 20 mg/kg and miR-519c at 1 mg/kg for combination micelles were administered via tail vein every 3 days in a total of five injections. Body weights were measured before each dose administration. Three days after the fifth administration, the animals were euthanized to harvest major organs such as the tumor, heart, liver, spleen, lung, and kidney. Examination included H&E staining, immunohistochemical, and Western blot analyses.

Results are presented as the means SD. One-way analysis of variance (ANOVA) was used to assess the statistical significance of differences between groups. A cutoff of P < 0.05 was used to indicate a significant difference.

Acknowledgments: Funding: The NIH (1R01GM113166) and the Faculty Start-up fund of the University of Nebraska Medical Center to R.I.M. are duly acknowledged for providing financial support for this work. V.R.B. is supported by the National Institute of General Medical Sciences, 1 U54 GM115458. The content is solely the responsibility of the authors and does not necessarily represent the official views of the NIH. Author contributions: X.X., Virender Kumar, and R.I.M. designed the study. X.X., F.L., Vinod Kumar, and R.B. performed the experiments and collected data. X.X., Virender Kumar, C.T., and R.I.M. analyzed the data. All authors interpreted the study results. X.X. and R.I.M. wrote the manuscript. All authors provided critical feedback and gave their final approval. Competing interests: All the authors except V.R.B. have declared that they have no competing interests. V.R.B. reports receiving consulting fees from Takeda, Omeros, Agios, Abbvie, Partner Therapeutics, and Incyte, research funding (institutional) from Jazz, Incyte, Tolero Pharmaceuticals, and National Marrow Donor Program, and drug support for a trial from Oncoceutics. Data and materials availability: All data needed to evaluate the conclusions in the paper are present in the paper and/or the Supplementary Materials. Additional data related to this paper may be requested from the authors.

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Redox-responsive nanoplatform for codelivery of miR-519c and gemcitabine for pancreatic cancer therapy - Science Advances

NanoViricides Has Engaged Calvert Labs for Safety Pharmacology Studies of Its Drug for the Treatment of COVID-19 – BioSpace

SHELTON, CT / ACCESSWIRE / November 11, 2020 /NanoViricides, Inc.. (NYSE American:NNVC) (the "Company") a global leader in the development of highly effective antiviral therapies based on a novel nanomedicines platform, today reported that it has engaged Calvert Labs, a contract research organization ("CRO"), for performing the Safety Pharmacology studies of its clinical drug candidate for the treatment of COVID-19.

The Company has been diligently working on advancing its drug candidates for the treatment of COVID-19 towards human clinical trials as rapidly as feasible.

The Company intends to perform certain core safety pharmacology studies to ensure safety of the drug candidates at Calvert Labs. The data from these studies will be used for filing an IND application. Prior to that, the Company also intends to file a pre-IND application with the U.S. Food and Drug Administration ("FDA") to obtain guidance.

The recent increase in COVID-19 cases worldwide has led scientists to suggest that this pandemic virus is expected to become a circulating virus. Influenza viruses and common cold viruses are other examples of circulating viruses. However, SARS-CoV-2 is more virulent, and thereby causes substantially greater morbidity and mortality than these other circulating viruses. Therefore, development of an effective drug to treat the disease caused by SARS-CoV-2 is very important.

A curative treatment for a virus such as SARS-CoV-2 coronavirus would require a multi-faceted attack that shuts down (i) the ability of the virus to infect host cells and simultaneously and (ii) the ability of the virus to multiply inside the host cells. The nanoviricide platform enables direct multi-point attack on the virus that is designed to disable the virus and its ability to infect new cells. At the same time, a nanoviricide is also capable of carrying payload in its "belly" (inside the micelle) that can be chosen to affect the ability of the virus to replicate. The nanoviricide is designed to protect the payload from metabolism in circulation. Thus, the nanoviricide platform provides an important opportunity to develop a curative treatment against SARS-CoV-2, the cause of COVID-19 spectrum of pathologies.

About Calvert Labs

For more than 40 years, Calvert Labs has been working with clients to help them develop the next generation of therapeutics aimed at extending and improving human life. Calvert are a collaborative development partner bringing extensive experience, an innovative, solutions-oriented approach and unsurpassed performance to your preclinical drug development programs.

About NanoViricidesNanoViricides, Inc. (the "Company")(www.nanoviricides.com) is a development stage company that is creating special purpose nanomaterials for antiviral therapy. The Company's novel nanoviricide class of drug candidates are designed to specifically attack enveloped virus particles and to dismantle them. Our lead drug candidate is NV-HHV-101 with its first indication as dermal topical cream for the treatment of shingles rash. In addition, we are developing a clinical candidate for the treatment of COVID-19 disease caused by SARS-CoV-2 coronavirus. The Company cannot project an exact date for filing an IND for this drug because of its dependence on a number of external collaborators and consultants.

The Company is now working on performing required safety pharmacology studies and completing an IND application. The Company believes that since remdesivir already is US FDA approved, our drug candidate encapsulating remdesivir is likely to be an approvable drug, if safety is comparable. Remdesivir is developed by Gilead. The Company has developed our own drug candidates independently.

The Company intends to re-engage into an IND application to the US FDA for NV-HHV-101 drug candidate for the treatment of shingles once its COVID-19 project moves into clinical trials, based on resources availability. The NV-HHV-101 program was slowed down because of the effects of recent COVID-19 restrictions, and re-prioritization for COVID-19 drug development work.

The Company is also developing drugs against a number of viral diseases including oral and genital Herpes, viral diseases of the eye including EKC and herpes keratitis, H1N1 swine flu, H5N1 bird flu, seasonal Influenza, HIV, Hepatitis C, Rabies, Dengue fever, and Ebola virus, among others. NanoViricides' platform technology and programs are based on the TheraCour nanomedicine technology of TheraCour, which TheraCour licenses from AllExcel. NanoViricides holds a worldwide exclusive perpetual license to this technology for several drugs with specific targeting mechanisms in perpetuity for the treatment of the following human viral diseases: Human Immunodeficiency Virus (HIV/AIDS), Hepatitis B Virus (HBV), Hepatitis C Virus (HCV), Rabies, Herpes Simplex Virus (HSV-1 and HSV-2), Varicella-Zoster Virus (VZV), Influenza and Asian Bird Flu Virus, Dengue viruses, Japanese Encephalitis virus, West Nile Virus and Ebola/Marburg viruses. The Company has executed a Memorandum of Understanding with TheraCour that provides a limited license for research and development for drugs against human coronaviruses. The Company intends to obtain a full license and has begun the process for the same. The Company's technology is based on broad, exclusive, sub-licensable, field licenses to drugs developed in these areas from TheraCour Pharma, Inc. The Company's business model is based on licensing technology from TheraCour Pharma Inc. for specific application verticals of specific viruses, as established at its foundation in 2005.

This press release contains forward-looking statements that reflect the Company's current expectation regarding future events. Actual events could differ materially and substantially from those projected herein and depend on a number of factors. Certain statements in this release, and other written or oral statements made by NanoViricides, Inc. are "forward-looking statements" within the meaning of Section 27A of the Securities Act of 1933 and Section 21E of the Securities Exchange Act of 1934. You should not place undue reliance on forward-looking statements since they involve known and unknown risks, uncertainties and other factors which are, in some cases, beyond the Company's control and which could, and likely will, materially affect actual results, levels of activity, performance or achievements. The Company assumes no obligation to publicly update or revise these forward-looking statements for any reason, or to update the reasons actual results could differ materially from those anticipated in these forward-looking statements, even if new information becomes available in the future. Important factors that could cause actual results to differ materially from the company's expectations include, but are not limited to, those factors that are disclosed under the heading "Risk Factors" and elsewhere in documents filed by the company from time to time with the United States Securities and Exchange Commission and other regulatory authorities. Although it is not possible to predict or identify all such factors, they may include the following: demonstration and proof of principle in preclinical trials that a nanoviricide is safe and effective; successful development of our product candidates; our ability to seek and obtain regulatory approvals, including with respect to the indications we are seeking; the successful commercialization of our product candidates; and market acceptance of our products. FDA refers to US Food and Drug Administration. IND application refers to "Investigational New Drug" application. CMC refers to "Chemistry, Manufacture, and Controls".

Contact:NanoViricides, Inc.info@nanoviricides.com

Public Relations Contact:MJ ClyburnTraDigital IR clyburn@tradigitalir.com

Source: NanoViricides, Inc.

View source version on accesswire.com:https://www.accesswire.com/615993/NanoViricides-Has-Engaged-Calvert-Labs-for-Safety-Pharmacology-Studies-of-Its-Drug-for-the-Treatment-of-COVID-19

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NanoViricides Has Engaged Calvert Labs for Safety Pharmacology Studies of Its Drug for the Treatment of COVID-19 - BioSpace

Nanomedicine Market Emerging Trends, Business Opportunities, Segmentation, Production Values, Supply-Demand, Brand Shares and Forecast 2020-2027, By…

Nanomedicine Market Overview:

Reports and Data has recently published a new research study titled Global Nanomedicine Market that offers accurate insights for the Nanomedicine market formulated with extensive research. The report explores the shifting focus observed in the market to offer the readers data and enable them to capitalize on market development. The report explores the essential industry data and generates a comprehensive document covering key geographies, technology developments, product types, applications, business verticals, sales network and distribution channels, and other key segments.

The Nanomedicine Market is projected to grow at a rate of 12.6% to reach USD 387.11 billion in 2027 from USD 149.53 billion in 2019.

The report is further furnished with the latest market changes and trends owing to the global COVID-19 crisis. The report explores the impact of the crisis on the market and offers a comprehensive overview of the segments and sub-segments affected by the crisis. The study covers the present and future impact of the pandemic on the overall growth of the industry.

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Competitive Landscape:

The global Nanomedicine market is consolidated owing to the existence of domestic and international manufacturers and vendors in the market. The prominent players of the key geographies are undertaking several business initiatives to gain a robust footing in the industry. These strategies include mergers and acquisitions, product launches, joint ventures, collaborations, partnerships, agreements, and government deals. These strategies assist them in carrying out product developments and technological advancements.

The report covers extensive analysis of the key market players in the market, along with their business overview, expansion plans, and strategies. The key players studied in the report include:

Arrowhead Pharmaceuticals Inc. AMAG Pharmaceuticals, Bio-Gate AG, Celgene Corporation, and Johnson & Johnson.

An extensive analysis of the market dynamics, including a study of drivers, constraints, opportunities, risks, limitations, and threats have been studied in the report. The report offers region-centric data and analysis of the micro and macro-economic factors affecting the growth of the overall Nanomedicine market. The report offers a comprehensive assessment of the growth prospects, market trends, revenue generation, product launches, and other strategic business initiatives to assist the readers in formulating smart investment and business strategies.

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Product Outlook (Revenue, USD Billion; 2017-2027)

Drug Delivery System Outlook (Revenue, USD Billion; 2017-2027)

Application Outlook (Revenue, USD Billion; 2017-2027)

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‘Healing people is good, improving their life is better’, Laurent Levy from Nanobiotix – Blasting News United States

The news world is saturated with the significant number of deaths linked to COVID-19 since the start of 2020, but cancer is still the leading cause of premature death in France by far (source: Public Health France). More than 150,000 people die each year from this disease. To help provide better treatment outcomes for these patients, French company Nanobiotix offers cutting-edge technology that seeks to revolutionize cancer treatment using nanophysics.

This company, whose market capitalization exceeded 180 million euros in August 2020, is constantly looking to undertake new therapeutic feats. The floor was given to the co-founder and CEO of Nanobiotix, Laurent Levy, to discuss this French innovation within our Blasting Talks project, which consists of focusing on the challenges that companies face during the evolution of the digital world and during this unprecedented period of health crisis.

You created Nanobiotix in 2003, what launched this idea 17 years ago?

As soon as I finished my thesis on nanotechnologies more than 20 years ago, I asked myself the question of the applications of nanophysics in the field of health. A few years later after graduating from the State University of New York at Buffalo in the United States, I decided to create Nanobiotix with a strong conviction: that the extraordinary properties of hafnium oxide nanoparticles can save lives. Therefore, my teams and I have done everything to turn this idea into a concrete reality for patients.

Your company is a pioneer in nanomedicine.

Can you explain to us what is nanomedicine?

Initially, in the 1990s or even 2000s, the properties of nanoparticles were exploited to convey and transport drugs. The idea was then to encapsulate the drugs in nanoscopic objects, in order to facilitate their delivery to certain areas of the body and make them less toxic.

Some time later, we began to consider that the nanoparticle itself could become the active agent. This is what we did at Nanobiotix: our functionalized hafnium oxide nanoparticles amplify the efficiency of X-rays, by attracting them and magnifying the dose help destroy tumor cells without increasing the dosage in surrounding healthy tissue.

This new approach comes strictly from physics instead of biology or chemistry, unlike much of the science behind drug development today.

Your therapeutic approach is completely different from traditional methods, how does your innovation distinguish itself?

For ten years, in oncology, we have only spoken of "precision medicine" or "personalized medicine". The pharmaceutical industry and biotechnology companies are developing new therapeutic solutions based on the biology of patients. They try to find the right receptor that corresponds to the specific characteristics of the patient's disease in order to deliver the most precise treatment possible. It is true that, in recent years, approaches related to cell therapy and especially Immuno-Oncology have provided more effective treatments, however these technologies are applicable to increasingly small patient subpopulations.

Personally, I think we are reaching the end of this logic. Our approach at Nanobiotix is not biological, but linked to physics. When you irradiate a tumor with X-rays, you destroy it, regardless of its biological and cellular characteristics. Its just mechanical. The nanoparticles that we are developing amplify the effectiveness of X-rays: we call it a "radioenhancer". As the laws of physics are universal, it allows us to work on a large number of cancers with the ultimate aim of treating millions of people.

We have been living for 7 months in an unprecedented crisis causing health to be placed at the top of the concerns of many governments around the world. How did you experience this period with your teams?

Like everyone else, we did what we could at the start and we adapted ourselves. After ensuring the welfare of our teams, we ensured the continuity of the company's activities. Our development is largely based on clinical trials conducted in hospitals, with volunteer patients.

For this part of the work, we felt a certain impact like all the players in our industry. Faced with the COVID-19 pandemic, many clinical centers around the world have stopped recruiting. And this is not over. We therefore suffered delays. But it's still manageable, for now. For the future, we will have to adapt to see how to continue to develop products in an environment where the coronavirus could last.

Are cancer patients more at risk for coronavirus?

It is certain that vulnerable people risk developing more severe forms of COVID-19. Cancer patients are one of them. But the greatest risk is that these patients will no longer go to the hospital for fear of being infected. This situation risks creating significant collateral damage.

You help millions of patients who undergo radiotherapy, what are the reported benefits for them?

60% of cancer patients receive X-rays as part of their treatment. They undergo radiation therapy. This represents a huge population. Some of them get better and some don't. The reason is simple: you cannot always give the necessary dose of rays so as not to cause too much damage to healthy tissue.

Our nanoparticle is injected directly into the patient's tumor before radiotherapy.

When the patient receives the rays, the nanoparticle strongly amplifies their radiation in a hyperlocalized manner. Our solution thus increases the destructive effect of rays on cancer cells, without accentuating the damage caused to surrounding tissues.

The benefits are potentially immense: increasing the chances of recovery, reducing the side effects of radiation therapy and enhancing the effectiveness of other combined treatments. In fact, we are part of the path opened more than a century ago by Marie Curie, which paved the way, thanks to physics, to a wave of innovations of universal scope in oncology: radiotherapy, brachytherapy, nuclear medicine, etc.

What are the major challenges of tomorrow for the fight against cancer according to you?

I believe that the main challenge today is to return to innovations that are useful to as many people as possible. Cancer strikes the entire world population. The older we get, the more likely we will develop cancers, and perhaps even new cancers. It will therefore be necessary to find products that are broadly applicable.

Another challenge will be to think about all the treatments according to the quality of life of the patients. Healing and saving people are good, but giving them the means to live well and sustainably is even better. A product must meet a medical need and be understood holistically, and not just from the point of view of healing.

Recently the Horizon Europe program, which will begin in 2021, promised to put the fight against cancer and save 3 million patients from this disease by 2030, can we believe in this kind of research and innovation program?

I firmly believe it is only a matter of time! Now the number of "3 million" is in my opinion too restrictive. We need to be much more ambitious. If we look at the numbers as cold hard facts, we have roughly 20 million new cases a year. Half are poorly healed, which is much more than the 3 million put forward. I sincerely believe that we have the means to go further, we must not skimp on these programs.

Today Nanobiotix has three subsidiaries: in Europe (Germany, Spain) but also in the United States, do you have any expansion projects in preparation?

Cancer is not a local disease, but a global public health emergency. Our expansion projects are linked to our desire to make our treatments and our innovations accessible to the world population ...

more than to open subsidiaries in all countries.

Some leaders, thinkers, entrepreneurs or public figures believe that after a crisis like the one of the coronavirus, it becomes essential to rethink the world of tomorrow. Do you have any new projects that have emerged since this virus?

COVID-19 is a major public health challenge. But cancer remains the second cause of death in France, with more than 150,000 deaths per year, which is far ahead of COVID-19. Despite this crisis, our ambition has not changed. We want to help more cancer patients. This is the step we are currently taking by regularly publishing scientific studies with promising results. Tomorrow we could tackle other pathologies such as neurodegenerative diseases.

Our mission is simple: to help people live better, longer lives.

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'Healing people is good, improving their life is better', Laurent Levy from Nanobiotix - Blasting News United States

Nanotechnology in Medical Applications Market Investigation Highlights Growth Trends in COVID-19 the Coming Years – The Daily Philadelphian

The global nanomedical market was valued at $134.4 billion in 2016. This market is projected to grow at a compound annual growth rate (CAGR) of 14.0% from 2017-2022, and should reach $293.1 billion by 2022 from $151.9 billion in 2017.

Report Scope:

This report discusses the implications of technology and commercial trends in the context of the current size and growth of the pharmaceutical market, both in global terms and analyzed by the most important national markets. The important technologies supporting nanomedicine are reviewed, and the nature and structure of the nanomedicine industry are discussed with profiles of the leading 60+ companies, including recent merger and acquisition (M&A) activity. Five-year sales forecasts are provided for the national markets including the major therapeutic categories of products involved. Specific product categories quantified include diagnostics, cancer, CNS, anti-infective agents, cardiovasculars and anti-inflammatories.

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Report Includes:

An overview of the global markets for nanotechnology used in medical applications Analyses of global market trends, with data from 2016, estimates for 2017, and projections of compound annual growth rates (CAGRs) through 2022 A review of technologies involved, in-depth analysis of applications in practice, and evaluation of future or potential applications Information on many significant products in which the nano dimension has made a significant contribution to product effectiveness A look at the regulatory environment, healthcare policies, demographics, and other factors that directly affect nanotechnology used in medicine Analysis of the markets dynamics, specifically growth drivers, inhibitors, and opportunities Coverage of strategies employed by companies specializing in nanomedicine to meet the challenges of this highly competitive market

Summary

Nano-enabled medical products began appearing on the market over a decade ago, and some have become best-sellers in their therapeutic categories. The principal areas in which nanomedical products have made an impact are cancer, CNS diseases, cardiovascular disease and infection control. The Summary Table gives estimates of the historical and current markets for these nanomedicine areas with a forecast through 2022.

The U.S. market is by far the largest in the global nanomedicine market and is set to continue to dominate the world marketplace; however, other national markets are expected to increase their shares over the next five years.

Reasons for Doing the Study

Nanomedicine is already an established market. Unlike some other potential applications of nanotechnology, which are still largely experimental, nanomedicine has already produced some significant products in which the nano dimension has made a significant contribution to product effectiveness. Now that aspects of the nanomedicine market are established, it is appropriate to review the technology, see its practical applications so far, evaluate the participating companies and look to its future.

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Nanotechnology in Medical Applications Market Investigation Highlights Growth Trends in COVID-19 the Coming Years - The Daily Philadelphian

Global Nanorobots Market Research Report Covers (COVID-19 Analysis) Industry Research, Drivers, Top Trends, Global Analysis And Forecast to 2027 -…

Global Nanorobots Market Report Provides Detailed Study Of Industry Players, Business Strategies, Latest Developmental Trends, And Market Growth Rate

The global Nanorobots market report offers a thorough study of the market in the estimated period. The important players Bruker, Jeol, Thermo Fisher, Ginkgo Bioworks, Oxford Instruments, Ev Group, Imina Technologies, Toronto Nano Instrumentation, Klocke Nanotechnik, Kleindiek Nanotechnik, Xidex, Synthace, Park Systems, Smaract, Nanonics Imaging, Novascan Technologies, Angstrom Advanced, Hummingbird Scientific, Nt-Mdt Spectrum Instruments, Witecin the global Nanorobots market are mentioned along with their strong points as well as weak points in this report. It covers almost all aspects of the global Nanorobots market including challenges, demand, drivers, and opportunities. The report reviews the impact of these aspects on every market region as well. The value chain analysis and vendor list are also included in the global Nanorobots market report.

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The global Nanorobots market research report emphasizes the presentation of the in-depth market segments {Nanomanipulator, Bio-Nanorobotics, Magnetically Guided, Bacteria-Based}; {Nanomedicine, Biomedical}. The Nanorobots market is assessed on the basis of revenue (USD Million) as well. The performance of the important players, vendors, and suppliers influencing the market is also incorporated in the global Nanorobots market research report. The majority of the information, together with projected statistics, is presented in the report with the help of tables and graphics. This presentation technique helps the user to understand the market scenario in an easy way.

Various practical tools are used for assessing the development of the global Nanorobots market in the future period. The global Nanorobots market report offers an outline of the market on a global level. It helps users to decide their next business move and propel their businesses. The index growth and competitive framework of the global Nanorobots market over the projected period is involved while reviewing the Nanorobots market. The global Nanorobots market is also bifurcated regionally North America (the U.S., Canada, and Mexico), South America (Brazil, Argentina, Chile, Colombia), Europe (Spain, Russia, Germany, Italy, France, and UK), Asia-Pacific (Japan, Korea, India, China, Australia, and South-east Asia), The Middle East and Africa (Egypt, South Africa, GCC Countries) as well.

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Major Questions Answered in Report:1. Which are the growth factors likely to help the market reach to the next level?2. What is the expected growth rate during the forecast period?3. What are the latest opportunities and challenges for Nanorobots market in the future?4. Which are the key market players?

The global Nanorobots market is studied in terms of technology, topography, and consumers. The report also covers the market volume during the estimated period. The distinctiveness of the global Nanorobots market research report is the representation of the Nanorobots market at both the global and regional level.

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New approaches and latest development trend that describe the structure of the market Advanced market breakdown structure Historical data and future market scope In-depth market analysis based on statistics, growth stimulators, and market developments Statistical data representation through figurative, numerical, and theoretical elaboration Report provides insight of the business and sales activities Key competitive players and regional distribution will help find prospective market analytics Report will strengthen the investors decision-making processes

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Global Nanorobots Market Research Report Covers (COVID-19 Analysis) Industry Research, Drivers, Top Trends, Global Analysis And Forecast to 2027 -...

Nanorobots Market Outlook by Drivers, Forecast and Covid-19 Impact by 2026 | Bruker, Jeol, Thermo Fisher and Others – KYT24

An innovative research study has been offered by Futuristic Reports, offering a comprehensive analysis of the Global Nanorobots Market where users can get an advantage from the comprehensive market research report with all the essential useful information. This is the newest report, covering the existing COVID-19 impact on the Nanorobots market. It has fetched along with numerous changes in market conditions. This segment also provides the Nanorobots scope of different applications and types that can potentially influence the future market. The comprehensive statistics are based on current trends and historical milestones.

This report also delivers an analysis of production volume about the global Nanorobots market and each type from 2020 to 2026. The Nanorobots report explicitly features the market share, company profiles, regional viewpoint, product portfolio, recent developments, newest strategic analysis, key players in the market, deals, circulation chain, manufacturing, production, and newest market entrants. The existing Nanorobots market players, brand value, popular products, demand and supply, and other significant factors identified with the market help players will better understand the market scenario.

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Impact of COVID-19 on Nanorobots Market

The report also contains the effect of the ongoing worldwide pandemic, i.e., COVID-19, on the Nanorobots Market and what the future holds for it. It offers an analysis of the impacts of the epidemic on the international market. The epidemic has immediately interrupted the requirement and supply series. The Nanorobots report also assesses the economic effect on firms and economic demands. Futuristic Reports has accumulated advice from several delegates of this Nanorobots business and has engaged from the secondary and primary research to extend the customers with strategies and data to combat industry struggles throughout and after the COVID-19 pandemic.

Some of the key players operating in this market include:

(Bruker, Jeol, Thermo Fisher, Ginkgo Bioworks, Oxford Instruments, Ev Group, Imina Technologies, Toronto Nano Instrumentation, Klocke Nanotechnik, Kleindiek Nanotechnik, Xidex, Synthace, Park Systems, Smaract, Nanonics Imaging, Novascan Technologies, Angstrom Advanced, Hummingbird Scientific, Nt-Mdt Spectrum Instruments, Witec, Nanorobots)

Based on Product Type, Nanorobots market report displays the production, profits, cost, and market segment and growth rate of each type, covers:

Nanomanipulator Bio-Nanorobotics Magnetically Guided Bacteria-Based Nanorobots Industry Vertical

Based on end users/applications, the Nanorobots market report focuses on the status and viewpoint for major applications/end users, sales volume, market share, and growth rate for each application. This can be divided into:

Nanomedicine Biomedical Others

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The report offers a comprehensive assessment of the progression and other Nanorobots market features in significant regions, including South Korea, Taiwan, North America, Europe, Canada, Germany, France, Southeast Asia, Mexico, and Brazil, Pacific, and Latin America. U.S., U.K., Italy, Russia, China, Japan, etc.

Features the following key factors:

Some of the Key Questions Answered in this Report:

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Earthling Ed To Give Virtual Lecture At Harvard University On Veganism – Plant Based News

Reading Time: < 1 minute

Prominent vegan advocate Earthling Ed is to give a virtual lecture at Harvard University next week.

Why Should We Care About Animals? will take place on Zoom due to the ongoing coronavirus pandemic. There is a limit of 10,000 spaces.

Im so excited to announce Ive been invited back by Harvard University to give a lecture about animal rights and veganism, Ed wrote on Instagram.

Other universities such as Yale have also been invited to join which is really exciting!????????

We have also decided to make the event public so that you guys can also join and watch the lecture and the Q&A that will be taking place afterward.?

Earthling Ed was invited to teach a class at the ivy-league university as a guest lecturer last year.

He wrote on social media: Im beyond honored to say that Im currently in the U.S as I was invited by professors at Harvard University to teach a class entitled animals as commodities as a guest lecturer.

Im excited to be here Im hugely looking forward to spreading the vegan message at college campuses on the East Coast.

Eds lecture will take place at 12-1pm (EST) onTuesday, November 10. You can register to join here.

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Earthling Ed To Give Virtual Lecture At Harvard University On Veganism - Plant Based News

Why gendered meat eating has passed its expiry date – The Mancunion

Hell have the steak and shell get the salad

How many outdated romcoms have you watched where the typical date night scene portrays the food order with the man ordering a steak and the woman getting a salad?

Dont get me wrong, people can order whatever they want. However, meat consumption stereotypes are so perpetuated by society that the steak for him and salad for her clich is something we can and will continue to witness in our day to day lives.

Dieting and femininity unfortunately go hand in hand. Society tells women that to fulfil their true potential, they must order a salad. As a result of this, the woman who is always encouraged to diet is much more likely to be making health-conscious choices. Womens diets have for a long time been expected to be thin and lacking meat, much like their bodies.

This aggressive and damaging stereotype is equally damning for men as it encourages notions of toxic masculinity. It echoes Neanderthal ideas of men as the hunter-gatherer, suggesting men need their meat to grow big and strong, men need their meat to be alpha.

These habits create a metaphorical food chain of men and women. Men, the meat-eaters, are the top predator with the most strength, the greater the muscle mass, the greater protein consumption. Women, much like rabbits, should nibble on nakd bars, and pick at their meals.

Mother nature eats natural

Theres a huge emphasis on eco-friendly choices being feminine choices, even anti-masculine choices. The media suggests that its emasculating to make environmentally friendly decisions. Consumer culture heavily suggests that meat loaded meals are made for men.

Prominent females in popular culture are linked to this idea. The first woman ever created (according to the Bible) was named Eve because in the same breath she was created in, she was labelled the mother of all living. Similarly, when you picture Mother Nature you dont exactly picture a big steak in her hands The women of popular culture are eco-friendly, and if they existed in 2020 they would be front of the queue for a Greggs vegan sausage roll.

An articleby Kate Stewart and Matthew Cole explores how food advertising perpetuates harmful gender stereotypes. This looks at a 2015 ALDI Fathers Day advert, in which a girl says that her favourite thing is cooking her father roast dinner. Following this, a boys voiceover reflects his favourite thing is watching his father eat a juicy steak. The authors of the article suggest that this communicates a subtle message- girls aspire to prepare and serve cooked animals and sons aspire to share the adult male pleasure of consuming those animals.

The Soy Boys

You dont have to look far to find evidence of negative perceptions of vegetarian men- and this is a big problem.

The term soy boy is defined by Urban Dictionary as Slang used to describe males who completely and utterly lack all necessary masculine qualities.

View post on imgur.com

A video by highly influential YouTuber PewDiePie titled Soyboys looks into what the Soy Boy stereotype really means.The YouTuber satirically explains that the categorisation is based on the idea that Soy contains oestrogen, meaning that consuming soy products turns men into women.

The consumption of soy supposedly leads to Gynaecomastia which is the enlargement of a mans breasts, usually due to hormone imbalance or hormone therapy. He explains Soy Boys are beta males and physical degenerates.

PewDiePies video on the concept generated a whopping 1.5M views, and the idea of the soy boy took meme culture by storm.

In right-wing politics, the term is used by the Alt-Right as a means of insulting liberals based on the scientifically dubious idea that soy products feminize men and presupposes that eating soy will corrode manliness.

This powerful political tool fetishizes meat-eating as a means of defending masculinity. This perpetuates the damaging stereotype that making eco-conscious choices marks an end to masculinity. Its a trend which has gained a lot of attention.

Plant pioneers for quorn-clusivity

I spoke with a vegetarian student from the University of Manchester, Matthew Suddart, about his thoughts on stigma for vegetarian males. In his seven years being veggie he said: Maybe a couple of years ago there was a stigma around vegetarianism and veganism. However, I think you can point to the success of Veganuary and the huge increase in those adopting vegetarianism and veganism.

He concluded: I personally havent found a stigma, the vast majority of people are really supportive and interested to find out more.

As the student observed, it really seems that the industry has moved on. In 2020, Quornadvertisements feature a man feeding his children. In 2020, restaurants which dont serve vegan food are seen as out of touch and behind the times. Veganism is borderline mainstream, and certainly celebrated, as this year has shown us with a huge influx of plant-based products in supermarkets and Veganuary taking the nation by storm.

Without this turning into an ad for veganism, I think its safe to hope that these gendered dieting roles in society are now coming to the end of their shelf life.

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Why gendered meat eating has passed its expiry date - The Mancunion

Why adopting Vegan lifestyle should be on your to-do list! – Times of India

India is culturally inclined to vegetarianism. Many are turning to veganism by excluding the dairy element of their diet. The growing inclination towards conscious eating habits, backed by health benefits, will drive veganism as a way of life in the days to come."Veganism as a lifestyle can go a long way in bringing back the joy of taste and experience along with health and safety. Adopting a vegan lifestyle not only has personal health benefits, it also helps the environment in many ways. It has been found that cutting meat and dairy products from your diet could reduce an individual's carbon footprint," says Chef David Edward Raj.There are a lot of ways to innovate with our food. "If you are looking to substitute the meat-based protein in your food, soya and paneer are the best options. With legumes as well there are a lot of innovations that are possible, where we can make it taste like meat. It also depends on peoples mentality. Here in India, we have not gone in-depth into innovation like the US and other countries, where they have made a replica of beef with the texture and looks closely resembling beef. Of course, they have done it with GMO (Genetically Modified Organism) products so it has not come out in other markets. When it comes to meat replacement, we primarily look at protein-rich vegetables where legumes and soya play a big role, especially in India. This is because they are widely used by thevegetarian population since these foods are rich in proteins and are often used as substitutes for thenutrition that we get from meat or eggs," says Chef DavidFor meat lovers too, there are interesting menus with legumes. "We have made a replica of a liver dish with green moong, where the latter ingredient is pureed, made into a batter and steamed. Then, it is cut into small pieces and mixed with herbs and spices till it looks like an actual liver," says Chef David.

Not just this, veganism also contributes to nature in terms of reducing emissions into the environment. According to the Food and Agriculture Organization of the United Nations, after beef production, cattle milk is responsible for the most emissions on a commodity basis. Methane and nitrous oxide are the two major greenhouse gases that are emitting due to animal agriculture, because of manure storage and the use of fertilizers, respectively.Hence, veganism as a lifestyle is not just caring for oneself but caring for nature as well.

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Why adopting Vegan lifestyle should be on your to-do list! - Times of India

Chef Reina Steps Out of the Shadow Of Nick’s on Grand – KQED

Understanding that people are looking for more delivery services and ways to cook at home, Chef Reina is an online storefront working out of a ghost kitchen. Delivery drivers around Daly City and the peninsula provide her customers with vegan Filipino takeout, delivery and care packages. In a couple of months, she plans to launch a delivery service for vegan meats nationwide.

It was important for Montenegro to keep her menu focused on vegan Filipino food. I think its a bolder approach and more honest, she says. Im excited to share more of me and my food without the question Who is Nick?

Montenegros goal has always been to reach the Filipino community in the Bay Area, which she says is super heavy on meat-eating.

Theres absolutely no dish out there that doesnt have meat, she says. Filipinos have very high cholesterol. [My] people are dying of diseases, and I created all of these mock meat dishes to mimic these heavy meat dishes as we used to eat. Im changing tradition here, and people used to get upset. Im not afraid of that. Im not trying to do anything but save your life; [Im] not trying to do anything other than save the planet and animals.

She also hopes to have her own commissary kitchen by the end of the year. Theres freedom to do what I want finally, and not hesitate or worry about what a partner or partners will think, says Montenegro.

One of her new dishes is vegan beef bulgogi. Its one Montenegro says no one has made, and she thinks it will be one of her bestsellers. Using meat alternatives, shes working on a beef torta and holiday dishes scheduled to launch this month. Also to come: a dessert menu with leche flan.

Montenegro sees these alternative dishes as gateways for people who want to transition to vegetarianism and veganism. Because of the pandemic, shes had a lot of time to play with textures and tastes while d developing the dishes for Chef Reina. Its almost like I turned into this crazy mad scientist during Covid, she says.

For Montenegro, the most Reina dish on the menu is the tocino, which is traditionally cured pork made from the belly of the pig. It was a dish she grew up eating, and its her absolute favorite. Its also one that took a long time to perfect as a vegan version.

Montenegro wants Chef Reina to be the place where people think the vegan version tastes as good as or better than the original. Its my form of culinary activism, through my food, she says. For her, this new iteration is welcome changea new beginning on her own terms.

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Chef Reina Steps Out of the Shadow Of Nick's on Grand - KQED

Discover aspects of the Asia-Pacific Vegan Ice Cream Market size, share & forecast period (2020-2026) – WhaTech

Asia-Pacific Vegan Ice Cream Market Size, Share & Trends Analysis Report by Source (Almond Milk, Cashew Milk, Coconut Milk, Soy Milk, and Others (Oat Milk, Rice Milk)), by Flavor (Caramel, Chocolate, Coconut, Coffee, Fruit, Vanilla, and Others), and by Distribution Channel (Convenience Stores, Supermarkets/Hypermarkets, and Online Stores) Forecast Period (2020-2026)

The Asia-Pacific vegan ice cream market is anticipated to grow at a CAGR of 9.8% during the forecast period. The increasing vegetarian and vegan population, disposable income, growing economy, among others are some of the key factors that have contributed to remarkable growth in the Asia-Pacific vegan ice cream market in the last few years.

A widespread move away from meat is witnessed not only in the US and the UK but in Asia-Pacific countries as well. While still in the early stages, the trend is infiltrating almost every country in the region, including meat-loving China.

The outburst of the vegan population in developing economies has been a major factor in upsurging the vegan ice cream market in the region.

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The effects of the COVID-19 pandemic on the vegan ice cream sector in the Asia-Pacific have been mixed. Due to the pandemic, a large portion of the population has moved away from meat, however, the lockdown norms and regulations have caused a severe decline in the sales of vegan ice cream.

Although, it can be estimated that the long-term effects of the pandemic will be positive for the Asia-Pacific vegan ice cream market.

Browse for Full Report Description@ http://www.omrglobal.com/industream-market

The Asia-Pacific vegan ice cream market is segmented based on source, flavor, and distribution channel. Based on the source, the vegan ice cream market is segmented into almond milk, cashew milk, coconut milk, soy milk, and others (oat milk, rice milk).

Based on flavor, the market is classified into caramel, chocolate, coconut, coffee, fruit, vanilla, and others. Based on the distribution channel, the market is segmented into convenience stores, supermarkets/hypermarkets, and online stores.

Due to the increasing internet penetration, the exposure of relevant data, promoting veganism and vegetarianism have been vital for the growth of all the distribution channels. The online stores category is significantly trivial at present and is not expected to witness much change during the forecast period.

Country-wise, the market is segmented into China, Japan, India, ASEAN, South Korea, and the Rest of Asia-Pacific. China is anticipated to lead the way with increasing veganism and vegetarianism.

The consumption of meat in China is abundant due to agricultural inadequacy, which creates a headwind for the market. India is expected to record quite a fast CAGR during the forecast period as an increasing number of individuals are turning vegan.

However, the nation is predominantly a dairy consuming nation, which could see fewer individuals going for vegan ice cream in the country.

Ben & Jerry's Homemade Holdings Inc (Unilever), DREAM, Hangyo Ice Creams Pvt. Ltd.; Papacream, Sugalight, Urban Platter, and WaHiki Limited are some of the major vendors running the Asia-Pacific vegan ice cream market.

Ice cream giants such as Magnum, Breyers, and more are expected to make moves in this tremendously growing segment during the forecast period.

Market Segmentation

Asia-Pacific Vegan Ice Cream Industry Market by Source

Asia-Pacific Vegan Ice Cream Market by Flavor

Asia-Pacific Vegan Ice Cream Market by Distribution Channel

Regional Analysis

Company Profiles

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Discover aspects of the Asia-Pacific Vegan Ice Cream Market size, share & forecast period (2020-2026) - WhaTech

Chronicling the Jewish vegan revolution – The Jerusalem Post

Chicken soup on Shabbat, lox and bagels on Sundays, pickled tongue on Purim, eggs on Passover, cheesecake on Shavuot, brisket with tzimmes for Rosh Hashanah, pastrami on rye for any occasion.

Animal products are as deeply ingrained in the cultural rituals of Judaism as a schmear of schmaltz on matzah.

The faith-based Jewish public, in Israel and elsewhere, has been far less receptive to such a change. And why should they be?

For the past decade or so, a rising chorus of voices has endeavored to answer that question definitively.

In fervently Orthodox Israeli circles, Rabbi Asa Keisar often referred to as the religious version of American vegan activist Gary Yourofsky uses classical sources to make the case that modern methods of preparing animals for the dinner plate clearly violate Jewish law.

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For many Jews in the US and Israel, the voice of veganism belongs to Prof. Richard H. Schwartz. The retired college professor with a doctorate in applied mechanics has dedicated the past 42 of his 86 years to the challenging task of bringing vegetarianism/veganism, animal rights, health and environmental sustainability into the global Jewish conversation as a Jewish issue.

His newest book, Vegan Revolution: Saving Our World, Revitalizing Judaism, aims to spotlight issues about animal-based diets and agriculture that most people seem to prefer to stay in the dark about.

This work, says the author, reflects forty years of growing consensus about the dire consequences of ignoring climate change, and the urgency of doing something about it now rather than wait another four decades to act. Indeed, given the outsized role that animal-based agriculture plays in greenhouse gas production, habitat loss, and food insecurity, the issue of veganism has never been more urgent. The book, in fact, is part of a larger campaign that the soft-spoken but passionate octogenarian is waging through Zoom and podcast appearances, social media and other means.

The campaign will respectfully challenge rabbis and other religious leaders, environmentalists, doctors, politicians, and the media to stop ignoring or downplaying the many extremely negative, sometimes devastating realities related to animal-centered diets, Schwartz says. The campaign must not fail, because the future of humanity and a more vital Judaism depend on its success. About 25 organizations have signed on to support Schwartzs campaign, including, for example, the Coalition on the Environment and Jewish Life, Hazon: The Jewish Lab for Sustainability, Bread and Torah Project and the umbrella group, Aytzim: Ecological Judaism. David Krantz, president of Aytzim, calls Schwartz a modern-day prophet [who] sees Jews straying from biblical edicts for Earth stewardship and prods us to embrace divinely ordained and inspired environmental action. From his first book, Judaism and Vegetarianism (1982) and on through other books, articles, lectures, visual presentations (he was associate producer of the 2007 documentary A Sacred Duty : Applying Jewish Values to Help Heal the World) and countless letters to editors, Schwartz always organizes his data in a straightforward bullet-point fashion. He doesnt bog down readers, viewers or listeners in academic language or esoteric concepts.

Schwartz summarizes Vegan Revolution as a major effort to increase awareness that shifts to veganism are (1) a societal imperative, essential to efforts to help avert a climate catastrophe and other environmental threats to humanity, and to help sharply reduce the current epidemic of life threatening diseases afflicting Jews and others, the massive horrendous mistreatment of animals, and the very wasteful use of land, water, energy, and other resources, and (2) a religious imperative, since animal-based diets and agriculture seriously violate basic religious teachings on compassion, health, sharing, justice, environmental sustainability, and other issues. He shares that he, too, was once a meat-and-potatoes guy. Preparing to teach a Mathematics and the Environment course at the College of Staten Island in 1973, Schwartz became aware of the tremendous waste of grain associated with the production of beef, at a time when hundreds of millions of people were chronically malnourished. So he stopped eating red meat. And by 1978, after learning about the many health benefits of vegetarianism and about the horrible conditions for animals raised on factory farms and how cruelly fish were killed, he gave up animal flesh entirely.

Growing awareness of the negative effects of producing and eating dairy products and eggs led to his going vegan in 2000. Meanwhile, he had started investigating the connections between Judaism and a plant-based diet.

With an emphasis on Torah precepts such as preserving human health and natural resources, not causing pain to animals, and feeding the hungry as well as an understanding of widespread corruption and other serious issues in todays kosher slaughter and supervision industry he came to conclude that veganism is the diet most consistent with basic Jewish teachings. All well and good, but questions will remain in the mind of the ritually observant Jew. Much of the book is devoted to answering these questions alongside evidence-based science that debunks nutritional myths related to animal vs. vegetable protein, the role of dairy in the diet, and the like.

Didnt our forefathers eat meat, and werent animals offered as sacrifices in the Temple? Yes and yes.

However, Schwartz points out, farmed animals ran free in pastures or open country, grazed on grass, and were slaughtered only for special occasions, such as when Abraham slaughtered a calf for his angelic guests. Chickens were hatched naturally under mother hens and Jews generally ate them only on Shabbat and holidays... There was nothing remotely resembling the year-round factory farm conditions under which food animals are raised today. In response to the oft-cited Talmudic adage that meat and wine are necessary components of a festive meal, he points out that respected rabbinic authorities, including Yeshiva University Torah scholar Rabbi J. David Bleich, cite many sources indicating meat has not been a required dish on the festival and Sabbath menu since the destruction of the Second Temple.

One section of the book imagines a dialogue between a vegan Jew and his or her rabbi tackling tough questions, such as animal sacrifices, and answering them based on Jewish sources.

For example, Rav [Abraham Isaac] Kook and others believed that in the Messianic period, human conduct will have improved to such a degree that animal sacrifices will not be necessary to atone for sins. There will be only non-animal sacrifices to express thanks to God. The book also presents Schwartzs efforts to restore the ancient and largely forgotten Jewish holiday of Rosh Hashanah Lmaaser Beheimot the New Years Day for tithing animals for sacrifices in effect, when the First and Second temples stood in Jerusalem and transform it into a day devoted to increase awareness of Judaisms beautiful teachings on compassion to animals and how far current realities for animals diverge from these teachings. While an increasing number of Jewish religious leaders have gotten behind Schwartzs initiatives of late for example, 37 Israeli Orthodox rabbis signed the statement on climate change that he drafted in 2017 few Orthodox rabbis fully endorse his views on veganism. This will have to change if Schwartz and others are to make any inroads in the faith-based population.

Among the Orthodox figures who warmly support his efforts are Rabbi David Rosen, former chief rabbi of Ireland and president for Israel of the International Jewish Vegetarian Society, and Rabbi Yonatan Neril, founder and executive director of the Interfaith Center for Sustainable Development and of Jewish Eco Seminars.

I applaud Richard Schwartzs valiant efforts to raise the issue of a plant-based diet within the Jewish community, writes Neril, who is based in Jerusalem. He taps into a millennia-old Jewish tradition supporting compassion toward animals, and does so at a time when all life on Earth depends on wise human action. He thoughtfully examines what type of food consumption fits with the ethics of kosher, which means appropriate. May God bless his holy efforts! Schwartz maintains that in view of the horrible conditions under which almost all animals are raised today, Jews who eat meat are in effect supporting a system contrary to basic Jewish principles and obligations.

Richard H. Schwartz

Lantern Media, 2020

266 pages, $20

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Chronicling the Jewish vegan revolution - The Jerusalem Post

Plant-Based Meat Market Size Is Projected to Reach $35.4 Billion By 2027 | CAGR: 15.8%: Polaris Market Research – PRNewswire

NEW YORK, Nov. 4, 2020 /PRNewswire/ -- The globalplant-based meat marketsize is expected to reach USD 35.4 billion by 2027 according to a new study conducted by Polaris Market Research. the market is anticipated to register a CAGR of15.8% from 2020 to 2027 Increasing awareness among consumers for healthy food products, a continuously growing global population, and a major shift towards food production and consumption are some of the major factors anticipated to drive the growth of the global market. Increasing demand for rich protein-based food for having nutritional benefits coupled with consumer's preference for cost-effective products, further fueling the demand for plant-based meat products. In addition to this, the growing trend of vegetarianism and veganism is offering enormous growth potential to the global plant-based meat market.

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Key Points from the Report:

Increasing demand for plant-based meatcan benefit financially stable global players such as Conagra and Nestle. Attractive moves such as faster delivery and effective cost-cutting can enable them to strengthen their foothold in the market.

Get Full Research Summary on plant-based meat market : https://www.polarismarketresearch.com/industry-analysis/plant-based-meat-market

The global plant-based meat market is driven by growing concern towards animal based meat owing to global narrative that COVID-19 originated from wild animals. The growing vegan population in Europe, consumer awareness towards nutritional benefits, and innovations in food technology coupled with funding support from investment firms. Recently, in June 2020, Veganuary, the UK based non-profit organization introduced Veg Capital, funding solutions plant-based food companies. It will provide fund of around EUR 50,000 to 2,50,000 to the plant-based food startups.

Leading players present in the global plant-based meat market are : Amy's Kitchen, Greenwise, Beyond Meat, Impossible Foods Gold & Green Foods, Garden Protein International, Maple Leaf Foods, The Vegetarian Butcher, Quorn Foods, VBites, Morningstar Farms, Omnipork, Novameat, Tofurky, Zikooin, Sunfed, Zhenmeat, and V2food. The lucrative opportunities present in the market have attracted major companies as well as new ventures to invest in the market. The global market is turning out to be highly competitive as leading global players started expanding their business operations in different regions of the world.

Companies are involved in new product launches and increasing geographic reach to increase their consumer base. The global plant-based meat market is becoming even more competitive as Asian companies such as Whole Perfect Foods Co., Ltd, and GoodDot investing in the market.

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Polaris Market research has segmented the plant-based meat market report on the basis of source, product, distribution channel, and region

Plant-based Meat Source Outlook (Revenue USD Million, 2016 2027)

Plant-based Meat Product Outlook (Revenue USD Million, 2016 2027)

Plant-based Meat Distribution Channel Outlook (Revenue USD Million, 2016 2027)

Plant-based Meat Regional Outlook (Revenue USD Million, 2016 2027)

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Are Proteins Attracted to Function? – Discovery Institute

Photo: Douglas Axe.

Doug Axe showed that functional space is a tiny fraction of sequence space in proteins. Evolutionists think they found a shortcut as simple as dropping down a funnel. Proteins dont have to search all of sequence space at random; a ring attractor pulls them down the thermodynamic funnel into functional glory land.

Richard Dawkins has been criticized for years now for his Weasel analogy (see Jonathan Witts critique). And yet the myth lives on. Miracles happen with the words, It evolves! while waving the magic wand, Natural Selection. Heres a new instance involving protein folds.

Dawkinss main error was with setting a target sequence for random letters (the Hamlet sequence Methinks it is like a weasel), and then preserving the randomly changing letters that matched the target. Natural selection as Darwin envisioned it has no target sequence. Each step must be functional, or it is not selected. All the intermediate phrases in Dawkinss computer simulation were gibberish. They had no function in language. They would never converge on the target phrase by unguided natural processes.

The same is true with random sequences of amino acids, called polypeptides. They have no function and are not called proteins or enzymes unless and until they fold into a functional shape. Before considering the following hypothesis by two chemists, remember that without guidance from genes, polypeptides fall into the vast neverland called sequence space where nothing happens (the amino acids, furthermore, must be left-handed, or homochiral). Functional space is but a tiny fraction of sequence space. Doug Axe discussed this in his book Undeniable, based on his own research at Cambridge. He experimentally determined how much change was necessary to break a functional protein with mutations. It led to his estimate that a random polypeptide 150 amino acids in length, which is modest for a protein, has only a 1 in 1074 chance of arriving at a functional fold. That probability drops to an impossible 1 in 10148 chance if the sequence must be homochiral, and even lower if the sequence also has to consist of only peptide bonds. In short, it would be a miracle.

In their paper in PNAS, Funneled energy landscape unifies principles of protein binding and evolution, Zhiqiang Yan and Jin Wang think they have found a shortcut to the miraculous. Natural selection will push the polypeptide down a thermodynamic funnel, like a golfer putting a ball into the cup. Why? Because, clearly, proteins have evolved. Anything that has evolved would have had the magic wand of natural selection to do the magic.

Most proteins have evolved to spontaneously fold into native structure and specifically bind with their partners for the purpose of fulfilling biological functions. According to Darwin, protein sequences evolve through random mutations, and only the fittest survives. The understanding of how the evolutionary selection sculpts the interaction patterns for both biomolecular folding and binding is still challenging. In this study, we incorporated the constraint of functional binding into the selection fitness based on the principle of minimal frustration for the underlying biomolecular interactions. Thermodynamic stability and kinetic accessibility were derived and quantified from a global funneled energy landscape that satisfies the requirements of both the folding into the stable structure and binding with the specific partner. The evolution proceeds via a bowl-like evolution energy landscape in the sequence space with a closed-ring attractor at the bottom. The sequence space is increasingly reduced until this ring attractor is reached. The molecular-interaction patterns responsible for folding and binding are identified from the evolved sequences, respectively. The residual positions participating in the interactions responsible for folding are highly conserved and maintain the hydrophobic core under additional evolutionary constraints of functional binding. The positions responsible for binding constitute a distributed network via coupling conservations that determine the specificity of binding with the partner. This work unifies the principles of protein binding and evolution under minimal frustration and sheds light on the evolutionary design of proteins for functions. [Emphasis added.]

Methinks these are weasel words. This is like the following syllogism. Major premise: Everything evolves by natural selection. Minor premise: Proteins occupy a tiny fraction of sequence space that permits folding and binding to specific partners. Conclusion: Natural selection pushed proteins to fulfill these constraints. Anything circular here? What if one does not accept the major premise?

To make their point, Yan and Wang know that they have to satisfy the laws of thermodynamics, which militate against functional folds by accident. Sure enough, the paper has lovely equations. But if the premise is wrong, equations only provide window dressing on a fake storefront. Here is the weasel-like target sequence:

To realize the principle of minimal frustration in protein evolution, one of the typical naturally occurring protein domains (WW domain) and its binding complex were chosen as the evolution model. WW domains preferably bind Pro-rich peptide. The native structure of the binding complex was considered as the evolved and functional structures (SI Appendix, Fig. S2). The evolution simulation is to mimic how nature selects and optimizes the sequences of the WW domain, which can spontaneously fold and preferably bind to the specific Pro-rich peptide.

Their principle of minimal frustration refers to optimization of protein sequences. The principle is useful for analyzing proteins, but not for accounting how they became optimized.

The principle of minimal frustration has been fruitful in illustrating how the global pattern of interactions determines thermodynamic stability and kinetic accessibility of protein folding and binding. The principle requires that energetic conflicts are minimized in folded native states, so that a sequence can spontaneously fold. Because of the functional necessity, naturally occurring sequences are actually in the tradeoff for coding the capacity to simultaneously satisfy stable folding and functional binding. From the view of localized frustration, naturally occurring proteins maintain a conserved network of minimally frustrated interactions at the hydrophobic core. In contrast, highly frustrated interactions tend to be clustered on the surface, often near binding sites that become less frustrated upon binding. A natural question is how the evolution sculpts the interaction patterns that conflict with the overall folding of minimal frustration but are specific for protein binding.

This principle is an ID principle: proteins are sculpted to have stable cores, but flexible surfaces. They are optimized for this. To make evolution the sculptor begs the question. Its like saying, proteins must fulfill requirements for thermodynamic stability and kinetic accessibility; therefore, evolution fulfilled these requirements. Its like saying, We take minimal frustration to be a measure of fitness, and since natural selection always moves toward higher fitness, proteins evolved the observed optimization. How do they not recognize the circular reasoning here? They are following a principle of maximal frustration for critical thinkers! Its incredible that this kind of circular argument was published in the premiere journal of the National Academy of Sciences and survived the editing scrutiny of David A. Weitz of Harvard.

Protein function is the ultimate goal of protein evolution via mutagenesis for survival. This work has proposed and quantified the selection fitness of protein evolution with the principle of minimal frustration. The selection fitness of thermodynamic stability and kinetic accessibility incorporates both folding and binding requirements. Driven by the selection fitness, the evolution dynamics in sequence space can be depicted and visualized as a bowl-like energy landscape where the sequence space is increasingly reduced until the closed-ring attractor is reached at the bottom. The evolved sequences located in the basin of the attractor faithfully reproduce the interaction patterns as those extracted from naturally occurring sequences. The consistency validates the principle of minimal frustration as the selection fitness of protein evolution. To fulfill the folding and function, evolution sculpts the interaction patterns with the minimal-frustration principle to develop the hydrophobic core for folding and the coupling network for functional binding.

Comparing this to Dawkins Weaselology, this is like saying, The goal of sentences is to express meaning. Driven by this selection fitness, evolution dynamics guarantee that random letters will fall through a bowl-like semantics landscape where the randomness is reduced until a closed ring of meaningful sentences naturally occurs. The fact that natural sentences convey meaning validates this principle. Evolution sculpts meaning from random letters because it must, and lo and behold, it does. Aaagggh! How does this notion pass peer review?

To make their circularity seem practical, they show what else could be done by reasoning in a circle in the wide-angle view:

In addition, the evolution of a protein binding/assembling system generally involves the evolution of each binding/assembling partner. Therefore, the evolution of one partner is constrained or coupled to the evolution of its partners, i.e., coevolution of the partners, such as a toxinantitoxin system. In this case, the selection fitness of protein evolution involves the constraints not only from its own folding and binding but also from those of its partners. The study of this more complex issue would bridge the evolution of a single protein to the evolution of a protein network.

The whole world is circular. Isnt that a useful idea!

This kind of reasoning is not limited to this paper. Five authors, including Joseph W. Thornton (whom Michael Behe says threw a monkey wrench into Darwinian evolution), wrote a preprint on bioRxiv with similar fallacies. In Chance, contingency, and necessity in the experimental evolution of ancestral proteins, they assert that varieties of BCL-2 (an anti-apoptosis protein) arrived at their optimum fitness by convergent evolution, even though they recognize that there was no way to expect that because of the inevitability of chance and contingency in unguided natural processes:

Finally, our observations suggest that the sequence-structure-function associations apparent in sequence alignments are, to a significant degree, the result of shared but contingent constraints that were produced by chance events during history. Present-day proteins are physical anecdotes of a particular history: they reflect the interaction of accumulated chance events during descent from common ancestors with necessity imposed by physics, chemistry and natural selection. Apparent design principles in extant or evolved proteins express not how things must be or even how they would be best but rather the contingent legacy of the constraints and opportunities that those molecules just happen to have inherited.

Once again, they treat natural selection as a sculptor with a guiding hand. The constraints to get sequences that work must have chosen working products out of the vast sea of possibilities. They evolved because they evolved. They look designed, but the design principles are only apparent.

Dawkins would be pleased that his fallacy continues to be fruitful. His critics worry about the overpopulation of weasels in science. Hawks, flying overhead the infested area, casting a wide view over the creatures running in circles, make good weasel predators.

Link:
Are Proteins Attracted to Function? - Discovery Institute

The 3.2- resolution structure of human mTORC2 – Science Advances

RESULTSStructure determination of mTORC2 by cryo-EM

To investigate the structure of mTORC2 and the mechanism of its regulation, we coexpressed recombinant components of human mTORC2 (mTOR, mLST8, Rictor, and SIN1) in Spodoptera frugiperda cells. The assembled complex, purified using tag-directed antibody affinity followed by size exclusion chromatography, was analyzed by cryo-EM (Fig. 1B and figs. S1, A to C, and S2) in the presence of ATPS and either the full-length substrate Akt1 (fig. S1, D and E) or an Akt1 variant missing the PH domain (PH-Akt1), or in the absence of Akt1 with and without ATPS (fig. S2). The sample prepared in the presence of ATPS and PH-Akt1 yielded the highest overall resolution of 3.2 (density A in fig. S2).

mTORC2 forms a rhomboid-shaped dimer (Fig. 1C) as observed in lower-resolution mTORC2 reconstructions (2022). The mTOR kinase consists of the N-terminal Horn and Bridge domains followed by the FAT, FRB, and kinase domains (Fig. 1A). mTOR forms the core of mTORC2 with mLST8 on the periphery, close to the active site cleft, similar to mTOR-mLST8 in mTORC1 (16, 23). In the overall reconstruction, as a consequence of EM refinement of a flexible molecule, one-half of the dimer showed better local resolution (Fig. 1B, fig. S3, A to C, and movie S1). Therefore, focused refinement on a unique half of the assembly improved the resolution to 3.0 (density C in fig. S2), and these maps were used for structural modeling (fig. S3, D to F). Previous mTORC2 and yeast TORC2 reconstructions (2022) revealed that the two mTOR FAT domains are in closer proximity to each other than observed in mTORC1 (16, 23, 27), and in the current structure, the distance between the mTOR FAT domains is further reduced (fig. S3G). Irrespective of these structural differences between the two mTORCs, the catalytic site in mTORC2 closely resembles the catalytic site in mTORC1 without Rheb-mediated activation (23), suggesting that mTORC2 may be activated by a yet to be defined mechanism.

Previous studies of mTORC2 subunits Rictor and SIN1 or their yeast orthologs were not of sufficient resolution to allow de novo model building, resulting in ambiguous or inconsistent interpretations (20, 22, 28). Here, we unambiguously model all structured regions of Rictor and the N-terminal region of SIN1 (Fig. 2, A to C), whereas the middle and C-terminal part of SIN1 retain high flexibility and are not resolved. The fold of Rictor differs substantially from previous interpretations (fig. S3, H and I) (20). Rictor is composed of three interacting stacks of -helical repeats, here referred to as the ARM domain (AD), the HEAT-like domain (HD), and the C-terminal domain (CD) (Fig. 2, A to C). The N-terminal AD (residues 26 to 487) forms a large superhelical arrangement of nine ARM repeats (Fig. 2, A and B) that structurally separates the HD and CD. The HD (residues 526 to 1007), interpreted as two separate domains in previous lower-resolution studies (20, 22), is composed of 10 HEAT-like repeats. In sequence space, the HD and CD of Rictor are separated by an extended stretch of residues (1008 to 1559) that are predicted to be disordered and are not resolved in our reconstruction. We refer to this region as the phosphorylation site region (PR) because it contains most of Rictors phosphorylation sites (29). The two ends of the PR are anchored by a two-stranded -sheet at the top of the HD, which is thus termed the PR anchor (Fig. 2, B and C, and fig. S4A). From here, a partially flexible linker wraps around the AD and the mTOR FRB domain extending toward the CD (Fig. 2B and fig. S4C).

(A) Sequence-level domain organization of Rictor. Flexible and unresolved regions are indicated as dotted lines. Interactions with other proteins in the complex are highlighted below the sequences. Asterisks indicate residues interacting with the N-terminal region of SIN1. (B) Two views of Rictor, colored by domains. The structured part of Rictor forms three domains: an N-terminal Armadillo repeat domain (AD, magenta), a HEAT-like repeat domain (HD, dark magenta), and a C-terminal domain (CD, light red); the phosphorylation site region (PR) remains disordered. The sequences flanking the nonresolved PR are highlighted in red, and the PR anchor is colored in gold. Bound ligands are shown as cyan spheres. (C) Schematic representation of Rictor and SIN1 domain topology. (D) The Rictor CD occupies the FRB domain and sterically blocks FKBP-rapamycin binding (26).

The structured parts of the CD form a four-helix bundle and a zinc finger, with bound Zn2+, in the vicinity of the Rictor N terminus (Fig. 2A and fig. S4, B and C). Residues coordinating the zinc ion are highly conserved in metazoan Rictor (fig. S4F). In earlier work, this domain had been interpreted as representing the SIN1 domain (20). The complete CD is absent in sequences of fungal Rictor orthologs, but other large extensions in yeast Rictor and SIN1 sequences may occupy the equivalent location in yeast TORC2, as observed in an intermediate-resolution reconstruction of budding yeast TORC2 (fig. S4, D and E) (21). Increased levels of Zn2+ have been reported to stimulate Akt1 S473 phosphorylation in cells (30, 31), but no direct involvement of mTORC2 activation has been demonstrated.

Contacts between Rictor and mTOR are made by the Rictor AD, which sits between the Horn domain of the proximal mTOR subunit and the Bridge domain of the distal mTOR subunit (Fig. 2B). With its positioning on top of the mTOR FRB domain, the CD of Rictor blocks the binding space of FKBP12-rapamycin in mTORC1, thereby explaining the absence of an mTORC1-like mode of sensitivity to rapamycin for mTORC2 (Fig. 2D) (5, 8, 28).

The SIN1 subunit of mTORC2 exhibits an unexpected structural organization. The N-terminal region (residues 2 to 137), contrary to earlier interpretations, does not form an independently folding domain but interacts tightly with Rictor and mLST8 in an extended conformation (Figs. 2, A to C, and 3, A to E). The CRIM, Ras-binding domain (RBD), and PH domains of SIN1, however, remain flexibly disposed. The N terminus of SIN1 is inserted into a deep cleft at the interface of the AD and HD of Rictor. The N-terminal Ala2 with a structurally resolved acetylated N terminus and Phe3 of SIN1 are buried in a hydrophobic pocket of Rictor (Fig. 3, C and D, and fig. S5A). The anchored N-terminal region of SIN1 forms two short helices (residues 6 to 33) inserted into grooves on the surface of the Rictor AD (Fig. 3D) and then continues with a flexible sequence segment toward the Rictor CD (Figs. 2, B and C, and 3C and fig. S5B). Protruding from the Rictor CD, SIN1 forms a helical segment, referred to as the traverse, that spans the distance to mLST8 across the mTORC2 kinase cleft (Fig. 3C and fig. S5, B and C). The next region of SIN1 interacts with the fourth strand of the second blade of the mLST8 propeller by -strand complementation, leading to displacement of an mLST8 loop relative to the structure of mLST8 in mTORC1 (Fig. 3, C and E, and fig. S5D). SIN1 then follows the surface of the mLST8 propeller, finally forming an -helix anchored between the first and seventh blades of mLST8.

(A) Sequence-level domain organization of SIN1. Flexible and unresolved regions are shown above each domain representation as dotted lines in two colors as indicated. Interactions with other proteins in the complex are indicated below the domain representation. (B) Extension of the processed SIN1 N terminus disrupts assembly of Rictor and SIN1 with mTOR/mLST8 into mTORC2. SDS-polyacrylamide gel of a FLAG bead pulldown from lysates of insect cells expressing mTORC2 comprising SIN1 variants. Levels of Rictor are drastically reduced in the mTOR-based pulldown for mTORC2 carrying variants of SIN1 N-terminally extended by a tryptophan (mTORC2 SIN1_W), two consecutive arginines (mTORC2 SIN1_2R), and three consecutive arginines (mTORC2 SIN1_3R). (C) Surface representation of mTORC2. SIN1 (shown as green cartoon) interacts via two N-terminal helices with Rictor, winds around Rictor, traverses the catalytic site cleft, and winds around mLST8. The field of view of subpanel D is indicated. (D) Close-up view of the SIN1 N-terminal residues, which are deeply inserted between Rictor AD and HD. Acetylated Ala2 and Phe3 are bound in a hydrophobic pocket, while Asp5 interacts via salt bridges (yellow dashes). (E) Top view of mLST8 -propeller (orange) and the interaction regions with SIN1 (green). The nomenclature for WD40 -propeller repeats is indicated. (F) Top view of the catalytic site with the structure shown as surface together with the density of a subclass (light gray). The lower-resolution extra density is consistent with a placement of the SIN1 CRIM domain, here shown in dark green (PDB: 2RVK). Unassigned extra density protrudes from the CRIM domain to the mTOR active site and Rictor.

SIN1 integrates into the Rictor fold and connects Rictor with mLST8, suggesting a direct role in stabilizing mTORC2. To test the relevance of the anchoring of the N terminus of SIN1 on Rictor, we extended the N terminus of SIN1 using tryptophan or arginine residues to exploit steric hindrance or charge-charge repulsion to prevent the insertion into the Rictor pocket. Insertion of residues impairs critical interactions observed for the acetylated N terminus of SIN1 and prevents Rictor integration into mTORC2, as observed in baculovirus-mediated expression of mTOR components followed by pull-down assays (Fig. 3B and fig. S5E). Therefore, SIN1 acts as an integral part of the Rictor structure that critically stabilizes interdomain interactions, explaining the difficulties observed in purifying isolated Rictor (20).

These observations are also consistent with the locations of posttranslational modifications or mutations that affect mTORC2 activity. SIN1 phosphorylation at Thr86 and Thr398 has been reported to reduce mTORC2 integrity and kinase activity toward Akt1 Ser473 (32). Thr86 in SIN1, which is a target for phosphorylation by S6 kinase (32), is bound to a negatively charged pocket of the Rictor CD (Fig. 3C and fig. S5C). Phosphorylation of Thr86 would lead to repulsion from this pocket, destabilizing the interaction between Rictor and mTOR-mLST8 and presumably the entire mTORC2 assembly, in agreement with earlier in vivo and in vitro observations (32). The importance of SIN1 in connecting Rictor to mLST8, and therefore also indirectly to mTOR, is also consistent with the requirement of mLST8 for mTORC2 integrity (33, 34).

A poorly resolved density linked to the SIN1 helix anchored to mLST8 is observed in all reconstructions. In previous structural studies of yeast TORC2, a similar region of density was associated with the CRIM domain of Avo1, the yeast SIN1 ortholog (21, 28). Most likely, it represents the mobile substrate-binding CRIM domain that directly follows the helix in the SIN1 sequence and has a matching shape based on the solution structure of the Schizosaccharomyces pombe SIN1 CRIM domain (Fig. 3F and fig. S6, A to C) (25, 26). The positions of the SIN1 RBD and PH domains remain unresolved. In the dataset collected for samples with added full-length Akt1 (dataset 2 in fig. S2), we observed additional low-resolution density (Fig. 3F and fig. S6, B and C) between the hypothetic CRIM domain and Rictor AD and CD in the vicinity of the mTOR active site. This density, not of sufficient resolution to assign specific interactions, may represent parts of bound Akt1 or SIN1 domains (fig. S6C).

A proposed regulatory mechanism for mTORC2 involves ubiquitylation of mLST8 on Lys305 and Lys313 (35). Loss of ubiquitylation by K305R and/or K313R mutation, or truncation of mLST8 at Tyr297, leads to mTORC2 hyperactivation and increased AKT phosphorylation (35). mLST8 Lys305 is proximal to the SIN1 helix anchoring the CRIM domain. Ubiquitylation of Lys305 would prevent association of the SIN1 helix, leading to dislocation of the SIN1 CRIM domain required for substrate recruitment (Figs. 3C and 4A). Ubiquitylation of Lys313, which is found on the lower face of mLST8 (Figs. 3C and 4A), presumably also interferes with positioning of the CRIM domain (fig. S6A).

(A) Overview of mTORC2 architecture and ligand interaction sites. Each half of the dimeric mTORC2 has three small-molecule binding sites. The kinase active site and the A-site, which is located in the peripheral region of Rictor, bind to ATP (or ATP analogs). The I-site in the middle of the FAT domain of mTOR binds InsP6. The indicated modifications on SIN1 and mLST8 affect mTORC2 assembly. Extra-density region following the CRIM domain is indicated as a gray outline. (B). Close-up view of the A-site on the periphery of the Rictor HD with bound ATPS. A hydrogen bond between ATPS and Asn543 is shown as dashed yellow lines. (C) Close-up view of the I-site in the FAT domain of mTOR. InsP6 is surrounded by a cluster of positively charged amino acids. It only directly interacts with residues of the FAT domain.

We observed two previously uncharacterized, small-molecule binding sites outside the mTOR catalytic site, which is itself occupied by ATPS. The first (A-site) (Fig. 4B and fig. S7, A and B) is located in the HD of Rictor and is thus specific to mTORC2. The second (I-site) (Fig. 4C and fig. S7C) is located in the FAT domain of mTOR and is thus common to mTORC1 and mTORC2.

The density of the small molecule in the A-site matched that of an ATP molecule and was confirmed to be ATP (or ATPS) through a comparison of cryo-EM reconstructions of mTORC2 with and without ATPS added at a near physiological concentration of 2 mM (datasets 1 and 4, figs. S2 and S7A). The A-site does not resemble any known ATP-binding site. Positively charged amino acids (Lys541, Arg575, Arg576, and Arg572) of the A-site are conserved in Rictor orthologs from yeast to human (figs. S4E and S8). Other residues are not conserved, hinting at the possibility for interactions with alternative negatively charged ligands. The A-site is located approximately 100 from the mTOR catalytic site. Ligand binding to the A-site caused neither long-range allosteric change affecting the kinase site nor local structural perturbations (fig. S9, I to L).

To investigate the effect of ligand binding to the A-site, we generated a series of Rictor variants with a mutated A-site (table S1). Variants with three or four mutated residues (A3 and A4) assembled into mTORC2 (fig. S10B), while variant A5 was defective in assembly (fig. S10, B to D). Cryo-EM reconstructions of variants A3 and A4 in the presence of ATPS (fig. S9, I to L) confirmed that the chosen mutations abolish ligand binding under near physiological conditions (figs. S7A and S9, J and L). Purified mTORC2 containing Rictor variant A3 or A4 exhibited thermal stability and kinase activity, in an Akt1 in vitro phosphorylation assay, comparable to wild-type (WT) mTORC2 (fig. S10, F to H). Complementation of a Rictor knockout (KO) in human embryonic kidney (HEK) 293T cells by transfected Rictor-WT, or Rictor variant A3 yielded comparable levels of Akt1-S473 phosphorylation (table S1 and fig. S11). Together, the above analyses indicate that ligand binding to the A-site does not directly influence mTORC2 kinase activity, suggesting rather a role in the interaction with other, yet unidentified, partner proteins of mTORC2.

The I-site is formed entirely by the FAT domain of mTOR, where a large, positively charged, pocket is lined by six lysine and two arginine residues to bind an extended ligand (Fig. 4C and fig. S7C). The I-site was still partially occupied in our reconstruction of mTORC2 prepared without addition of exogenous ATPS or other relevant ligands (fig. S7A). The copurified molecule was identified by map appearance and by ion mobility spectrometrymass spectrometry (IMS-MS) as inositol hexakisphosphate (InsP6) (figs. S7, D to F, and S12). InsP6 binds in a region, which is incomplete in related PI3Ks (36), but is generally conserved in members of the PIKK family of kinases (37). InsP6 was previously reported to associate with DNA-PKcs (38). Recently, structure determination of the PIKK family kinase SMG1 revealed InsP6 binding in a region corresponding to the I-site and led the authors to postulate a corresponding binding site in mTOR but involving both the kinase domain and FAT domain (37). InsP6 has previously been observed as a structural component of multi-subunit assemblies, including the spliceosome (39) and proteasome activator complex (40), and helical repeat regions have been identified as InsP6 interaction sites (41).

To investigate the function of InsP6 interaction, we purified recombinant mTORC2 containing mTOR I-site mutations (table S1). mTOR variants with two and three mutations, I2 and I3, yielded intact mTORC2 complexes (fig. S10A), while a variant with five mutations, I5, failed to assemble into mTORC2 (fig. S10, A and D). mTORC2 containing mTOR variants I2 and I3 displayed normal kinase activity toward Akt1 in vitro (fig. S10E). Notably, the mutations in I2 are equivalent to those reported previously to abolish completely the kinase activity of an N-terminally truncated naked mTOR fragment toward a C-terminal peptide of Akt1 (37). A possible explanation for this apparent discrepancy is provided by a reduced stability of mTORC2 assembled using the I2 variant (but not the I3 variant) (fig. S10G). This destabilizing effect might be more pronounced in an mTOR fragment than in the context of an assembled mTORC2 (fig. S10G).

To investigate a possible role of InsP6 metabolism on mTORC2 activity in HEK293T cells, we knocked down (KD) and knocked out (KO) inositol-pentakisphosphate 2-kinase (IPPK) and multiple inositol polyphosphate phosphatase 1 (MINPP1), respectively. The former enzyme generates InsP6, whereas the latter degrades it (fig. S13). These manipulations of InsP6-metabolizing enzymes did not alter mTORC2 kinase activity in nonstimulated cells or in cells stimulated with fetal calf serum (FCS) and insulin (fig. S13). These biochemical results are consistent with the observed stable binding of InsP6 to mTORC2 and suggest a role of InsP6 in mTOR folding or mTOR complex assembly, rather than as an acute transient metabolic input signal to mTORC1 or mTORC2.

Insect cell vectors from the MultiBac Baculovirus expression system (42) (Geneva Biotech, Geneva, Switzerland) have been used to clone internally FLAG-tagged pAceBAC-mTOR (FLAG after Asp258), pIDK-Rictor, pIDC-mLST8, and pAceBAC1-SIN1 using Gateway Cloning (Thermo Fisher Scientific, USA). Rictor was originally amplified from myc-Rictor, which was a gift from D. Sabatini (8) (Addgene plasmid no. 11367). Site-directed mutagenesis was used to generate mTORC2 A- and I-site variants. The following set of A-site mutants with pIDK-Rictor as template was created: Rictor_R572E_R575E_R576E (A3), Rictor_R572E_R575E_R576E_Y579A (A4), and Rictor_R572E_R575E_R576E_Y579A_L587W (A5). The following I-site mutants with FLAG-tagged pAceBAC-mTOR were generated: mTOR_K1753E_K1788E (I2), mTOR_R1628E_K1655E_K1662E (I3), and mTOR_R1628E_K1655E_K1662E_K1706E_K1735E (I5). WT Rictor and mutants A3 and A5 were subcloned into plasmid MX01 (Addgene plasmid no. 158624). SIN1 N-terminal variants were generated by inserting a tryptophan (SIN1_W), two consecutive arginines (SIN1_2R), or three consecutive arginines (SIN1_3R) using site-directed mutagenesis and pAceBAC1-SIN1 as template. Plasmids encoding FLAG-tagged mTOR, Rictor, and mLST8 were fused to a MultiBac expression plasmid using Cre-recombinase (New England Biolabs, Ipswich, USA) and transposed into a bacmid for baculovirus production. Baculovirus encoding untagged SIN1 was produced separately.

Sf21 insect cells (Expression Systems) were grown in HyClone insect cell media (GE Life Sciences), and baculovirus was generated according to Fitzgerald et al. (42). For the expression of recombinant human WT mTORC2, A- and I-site mTORC2 mutants, and mTORC2 carrying SIN1 N-terminal variants, Sf21 cells were infected at a cell density of 1 Mio/ml. Cells were coinfected with 1:100 (v/v) ratio of two undiluted supernatants from cells previously infected with baculovirus encoding FLAG-mTOR, Rictor, and mLST8 or infected with baculovirus encoding untagged SIN1, respectively. WT mTORC2, A-site mutants A3, A4, and A5, and I-site mutants I2, I3, and I5 were purified as follows: Insect cells were harvested 72 hours after infection by centrifugation at 800g for 25 min and stored at 80C until further use. Cell pellets were lysed in 50 mM bicine (pH 8.5), 200 mM NaCl, and 2 mM MgCl2 by sonication, and the lysate was cleared by ultracentrifugation. Soluble protein was incubated with 10 ml of anti-DYKDDDDK agarose beads (Genscript, Piscataway, USA) for 1 hour at 4C. The beads were transferred to a 50-ml gravity flow column (Bio-Rad) and washed four times with 200 ml of wash buffer containing 50 mM bicine (pH 8.5), 200 mM NaCl, and 2 mM EDTA. Protein was eluted by incubating beads for 30 min with 10 ml of wash buffer supplemented with synthetic DYKDDDDK peptide (0.6 mg/ml) (Genscript, Piscataway, USA). The eluate was combined with three additional elution steps using synthetic DYKDDDDK peptide (0.1 mg/ml) and 5-min incubation time. The eluted protein was concentrated using a 100,000-Da molecular mass cutoff centrifugal concentrator (Amicon) of regenerated cellulose membrane and purified by size exclusion chromatography on a custom-made Superose 6 Increase 10/600 GL gel filtration column equilibrated with 10 mM bicine (pH 8.5), 150 mM NaCl, 0.5 mM EDTA, and 2 mM tris(2-carboxyethyl)phosphine (TCEP). Purified WT mTORC2 was concentrated in gel filtration buffer to a final concentration of 3 to 3.5 mg/ml determined by A280 absorption using NanoDrop 2000 (Thermo Fisher Scientific). Sample was supplemented with 5% (v/v) glycerol and stored at 80C for later cryo-EM use. Purified mTORC2 variants with A- and I-site mutants were concentrated in gel filtration buffer to a final concentration of 0.4 to 2 mg/ml as determined by absorption at 280-nm wavelength using NanoDrop 2000 (Thermo Fisher Scientific). The resulting samples were supplemented with 5% (v/v) glycerol and stored at 80C for later use.

The coding sequence for Akt1 (43) was cloned into a pAceBAC1 expression vector (Geneva Biotech, Geneva, Switzerland) with an N-terminal His10-Myc-FLAG tag by Gateway cloning. Baculovirus was produced as described for mTORC2. Akt1 was purified with anti-DYKDDDDK agarose beads as described for mTORC2. The eluted protein was concentrated using a 10,000-Da molecular mass cutoff centrifugal concentrator (Amicon) of regenerated cellulose membrane and further purified by size exclusion chromatography with a Superdex 75 Increase column equilibrated with 10 mM bicine (pH 8.5), 150 mM NaCl, 0.5 mM EDTA, and 2 mM TCEP. Purified Akt1 was concentrated in gel filtration buffer, supplemented with 5% (v/v) glycerol, and stored at 80C for further experiments. Dephosphorylated Akt1 was obtained after overnight incubation of 4.5 mg of protein with 6 g of -protein phosphatase (New England Biolabs) in the presence of PMP buffer (New England Biolabs) and 1 mM MnCl2 before size exclusion chromatography. Successful Akt1 dephosphorylation was confirmed by Western blot with antibodies against phosphoAKT-Ser473 (no. 4060; Cell Signaling Technology, Beverly, USA) and phosphoAKT-Thr450 (no. 9267; Cell Signaling Technology, Beverly, USA) at a dilution of 1:1000 in 5 ml of Tris-buffered saline with 0.1% Tween20 (TBST). Human (Delta-PH) Akt1 protein (residues 144 to 480, mono-phosphorylated on T450), as described by Lui et al. (44) (therein referred to as Akt1KD), was provided by T. Leonard (Max-Perutz Labs, Vienna).

A-site mutants A3, A4, and A5 and I-site mutants I2, I3, and I5, and mTORC2 carrying SIN1 N-terminal variants extended by a tryptophan (SIN1_W), two consecutive arginines (SIN1_2R), and three consecutive arginines (SIN1_3R) inserted between the processed Met1 and Ala2, were immunoprecipitated in small scale using FLAG beads. Five-gram wet weight of pellets from insect cells expressing A- and I-site mutants and SIN1 N-terminal variants was lysed in 50 mM bicine (pH 8.5), 200 mM NaCl, and 2 mM MgCl2 using a Dounce homogenizer. The lysate was cleared by ultracentrifugation for 45 min at 35,000g. Soluble protein was incubated with 125 l of anti-DYKDDDDK agarose beads (Genscript, Piscataway, USA) for 1 hour at 4C. The beads were transferred to a 5-ml gravity flow column (Pierce Centrifuge Columns, Thermo Fisher Scientific) and washed with 50 ml of buffer containing 50 mM bicine (pH 8.5), 200 mM NaCl, and 2 mM EDTA. Protein was eluted by 30-min incubation of the beads with 400-l wash buffer supplemented with synthetic DYKDDDDK peptide (0.6 mg/ml) (Genscript, Piscataway, USA). Total lysate, soluble supernatant after ultracentrifugation, flow through from FLAG column, buffer wash, and elution fraction were loaded onto a 4 to 15% SDS polyacrylamide gel (Bio-Rad Laboratories). In addition, total lysate, supernatant after ultracentrifugation, and elution fraction of mTORC2 WT, SIN1 N-terminal variants, and mutants A5 and I5 were analyzed by immunoblotting using antibodies against mTOR (no. 2972; Cell Signaling Technology, Beverly, USA), SIN1 (A300-910A; Bethyl), Rictor (A300-458A; Bethyl), and actin (MAB1501; Merck Millipore) at a dilution of 1:1000 in 5 ml of TBST. A goat anti-rabbit horseradish peroxidase (HRP)labeled antibody (ab6721; Abcam, Cambridge, UK) was used as the secondary antibody at a dilution of 1:3000 in 5 ml of TBST.

mTORC2 kinase activity assays were conducted in 100 mM Hepes (pH 7.4), 1 mM EGTA, 1 mM TCEP, 0.0025% Tween 20, and 10 mM MnCl2 using dephosphorylated Akt1 as a substrate. In a 60-l reaction volume, 0.05 M of either WT or A- and I-site mutant mTORC2 was mixed with 1 M Akt1 and, where indicated, either dimethyl sulfoxide or 25 M Torin1. The mixture was preincubated for 5 min at room temperature, and the reaction was initiated by the addition of 10 M ATP. After 20 min at 37C, the reaction was terminated by the addition of 60 l of 2 Laemmli sample buffer. The reactions were analyzed by Western blotting using primary antibodies against phosphoAKT-Ser473 (no. 4060; Cell Signaling Technology, Beverly, USA), phosphoAKT-Thr450 (no. 9267; Cell Signaling Technology, Beverly, USA), AKT (no. 4685), and mTOR (no. 2972; Cell Signaling Technology, Beverly, USA), anti-FLAG antibodies (Sigma-Aldrich, F1804), SIN1 (Bethyl, A300-910A), and Rictor (Bethyl, A300-458A) at a dilution of 1:1000 in 5 ml of TBST. A goat anti-rabbit HRP-labeled antibody (ab6721; Abcam, Cambridge, UK) was used as the secondary antibody at a dilution of 1:3000 in 5 ml of TBST. Signals were detected using the Enhanced Chemiluminescence (ECL) Kit SuperSignal West Femto Maximum Sensitivity Substrate (Thermo Fisher Scientific). Images were acquired using a Fusion FX (Vilber) imaging system.

Thermal unfolding was monitored by differential scanning fluorimetry (DSF) based on internal tryptophane fluorescence on a Prometheus NT.48 instrument (NanoTemper Technologies). Purified WT mTORC2 or mTORC2 containing mutations in A- or I-site was diluted to 0.1 mg/ml in 10 mM bicine (pH 8.5), 150 mM NaCl, 0.5 mM EDTA, and 2 mM TCEP. High-precision capillaries (NanoTemper Technologies) were filled with 10-l sample and placed on the sample holder. A temperature gradient of 0.1C/min from 22 to 65C was applied, and fluorescence intensity at 330 and 350 nm was recorded. A plot of the ratio of fluorescence intensities at those wavelengths (F350/F330) was generated using a Python script. The experiment was repeated two times with five replicates per sample run each time. Melting points were calculated using PR.ThermControl software version 2.1.2. Data were analyzed using GraphPad Prism version 8.0.0 (GraphPad Software, San Diego, CA, USA) to generate the mean and SD of the melting points. One outlier, likely resulting from capillary handling, for sample A4 was excluded from data analysis.

HEK293T cells were cultured and maintained in Dulbeccos modified Eagles medium (DMEM) high glucose with 10% FCS, 4 mM glutamine, 1 mM sodium pyruvate, and 1 penicillin/streptomycin. RICTOR KO cells were generated as described by Bossler et al. (45). Four micrograms of plasmids harboring RICTOR-WT, RICTOR-A_3, and RICTOR-A_5 was transfected with jetPRIME (Polyplus). Twenty-four hours after transfection, cells were starved for serum for overnight and stimulated with 10% FCS and 100 nM insulin for 15 min. Total cell lysates were prepared in lysis buffer containing 100 mM tris-HCl (pH 7.5), 2 mM EDTA, 2 mM EGTA, 150 mM NaCl, 1% Triton X-100, complete inhibitor cocktail (Roche), and PhosSTOP (Roche). Protein concentration was determined by a Bradford assay, and equal amounts of protein were separated by SDSpolyacrylamide gel electrophoresis (SDS-PAGE) and transferred onto nitrocellulose membranes (GE Healthcare). Antibodies used were as follows: AKT (1:1000 dilution, catalog no. 2920, Cell Signaling Technology), AKT-pS473 (1:1000, catalog no. 4060, Cell Signaling Technology), RICTOR (1:1000, catalog no. 2040, Cell Signaling Technology), ACTIN (1:2000, catalog no. MAB1501, Millipore), IRDye 800CW goat anti-rabbit immunoglobulin G (IgG) (1:20,000, catalog no. 926-32211, LI-COR), and IRDye 680RD goat anti-mouse IgG (1:20,000, catalog no. 926-68070). All antibodies were diluted in 10 ml of TBST and Licor intercept (TBS) blocking buffer (1:1). Signals were detected by LI-COR Fc (LI-COR Biosciences).

HEK293T cells were cultured and maintained in DMEM high glucose with 10% FCS, 4 mM glutamine, 1 mM sodium pyruvate, and 1 penicillin/streptomycin. For KD of IPPK and MINPP1, 0.1 106 cells per well were seeded in a six-well plate and transfected with 100 nM small interfering RNA (siRNA) using the jetPRIME (Polyplus) system. After 32 hours, cells were washed twice with phosphate-buffered saline (PBS) (/) and starved for serum for 16 hours. Forty-eight hours after transfection, cells were incubated at 37C with PBS (+/+) for 10 min followed by stimulation with 10% FCS and 100 nM insulin for 15 min at 37C. Cells were washed with ice-cold PBS (/) and harvested for SDS-PAGE or RNA isolation for quantitative polymerase chain reaction (qPCR) analysis. KO experiments were conducted as described above, using generated KO cells instead of transfection with siRNA. Total cell lysates were prepared in M-PER lysis buffer (Thermo Fisher Scientific) containing complete inhibitor cocktail (Roche) and PhosSTOP (Roche), and protein concentrations were determined by Bradford assay. Equal amounts of protein were separated by SDS-PAGE and transferred onto nitrocellulose membranes (GE Healthcare), and signals were detected by LI-COR Fc (LI-COR Biosciences). Antibodies used were as follows: AKT (1:1000, catalog no. 2920, Cell Signaling Technology), AKT-pS473 (1:1000, catalog no. 4060, Cell Signaling Technology), ACTIN (1:5000, catalog no. MAB1501, Millipore), IRDye 800CW goat anti-rabbit IgG (1:20,000, catalog no. 926-32211, LI-COR), and IRDye 680RD goat anti-mouse IgG (1:20,000, catalog no. 926-68070). All antibodies were diluted in 10 ml of TBST and Licor intercept (TBS) blocking buffer (1:1).

For qPCR, total RNA was isolated using the RNeasy Kit (Qiagen). RNA was reverse-transcribed to complementary DNA (cDNA) using the iScript cDNA Synthesis Kit (Bio-Rad). Semiquantitative real-time PCR analysis was performed using Fast SYBR Green (Applied Biosystems). Relative expression levels were determined by normalizing each CT values to POLR2A using the CT method. The sequence for the primers used in this study was as follows: IPPK-fw, 5-AATGAATGGGGGTACCACGG-3; IPPK-rv, 5-AACTTCAGAAACCGCAGCAC-3; MINPP1-fw, 5-AGCTACTTTGCAAGTGCCAG-3; MINPP1-rv, 5-TGCATGACCAAACTGGAGGA-3.

KO cells were generated using the LentiCRISPR system as described by Sanjana et al. (46). Guide RNAs (gRNAs) against IPPK and MINPP1 were expressed from LentiCRISPRv2 (gifts from F. Zhang; Addgene plasmid nos. 49535 and 52961) by transfection of HEK293T cells with 1 g of DNA using jetPRIME. The following gRNA target sequences were used: IPPK gRNA, 5-TCGGCCGGTGCTCTGCAAAG-3; MINPP1 gRNA, 5-ATCCAGTCCGCGTACCACAA-3. Following transfection, cells were selected with puromycin, propagated, and screened for loss of target protein by qPCR. DNA sequencing of PCR products confirmed insertions or deletions leading to interrupted sequencing reactions. Pools of KO cells were used to avoid clonal variation. HEK293T cells transfected with empty vector were used as control.

Ten micrograms of mTORC2 I-site mutants I2 and I3 and A-site mutants A3, A4, and A5 was dissolved in 50 l of digestion buffer [1% sodium deoxycholate (SDC), 0.1 M tris, 10 mM TCEP, 15 mM chloroacetamide (CAA) (pH 8.5)] using vortexing for trypsin digestion. For endoproteinase GluC and chymotrypsin digestion, the same protein aliquots were dissolved in 20 l of a digestion buffer consisting of 1 M urea, 0.1 M ammonium bicarbonate, 10 mM TCEP, and 15 mM CAA. Samples were either incubated for 10 min at 95C (trypsin) or 1 hour at 37C (GluC and chymotrypsin) to reduce and alkylate disulfide bonds. Protein aliquots were digested overnight at 37C by incubation with sequencing-grade modified trypsin, GluC, and chymotrypsin (all 1:50, w/w; Promega). Then, the peptides were cleaned up using iST cartridges (PreOmics, Munich) according to the manufacturers instructions. Samples were dried under vacuum and dissolved in LC-buffer A (0.1% formic acid) at a concentration of 0.05 g/l.

To enhance the sensitivity of the liquid chromatographyMS (LC-MS) analysis, a label-free targeted LC-MS approach was carried out. Therefore, three lists of peptides considering the cleavage specificity of the three proteases used and containing all mutation sites were generated. The peptide sequences were imported into Skyline (version 20.1; https://brendanx-uw1.gs.washington.edu/labkey/project/home/software/Skyline/begin.view) to generate a mass isolation list of all doubly and triply charged precursor ions for each protease. These were then loaded into a Q Exactive plus LC-MS platform and analyzed using the following settings: The setup of the RPLC-MS system was as described previously (47). Chromatographic separation of peptides was carried out using an EASY nano-LC 1000 system (Thermo Fisher Scientific), equipped with a heated RP-HPLC column (75 m by 30 cm) packed in-house with 1.9-m C18 resin (Reprosil-AQ Pur, Maisch). Peptides were analyzed per LC-MS/MS run using a linear gradient ranging from 95% solvent A (0.15% formic acid and 2% acetonitrile) and 5% solvent B (98% acetonitrile, 2% water, and 0.15% formic acid) to 45% solvent B over 60 min at a flow rate of 200 nl/min. MS analysis was performed on a Q Exactive plus mass spectrometer equipped with a nano-electrospray ion source (both Thermo Fisher Scientific). Each MS cycle consisted of one MS1 scan followed by high-collision dissociation of the selected precursor ions in the isolation mass lists. Total cycle time was approximately 2 s. For MS1, 3 106 ions were accumulated in the Orbitrap cell over a maximum time of 50 ms and scanned at a resolution of 35,000 FWHM [at 200 mass/charge ratio (m/z)]. MS2 scans were acquired at a target setting of 3 106 ions, accumulation time of 110 ms, and a resolution of 35,000 FWHM (at 200 m/z). The normalized collision energy was set to 27%, the mass isolation window was set to 0.4 m/z, and one microscan was acquired for each spectrum.

The acquired raw files were converted to the mascot generic file (mgf) format using the msconvert tool [part of ProteoWizard, version 3.0.4624 (2013-6-3)]. Using the MASCOT algorithm (Matrix Science, version 2.4.1), the mgf files were searched against a decoy database containing normal and reverse sequences of the predicted SwissProt entries of Homo sapiens (www.ebi.ac.uk, release date 9 December 2019), the mTOR and Rictor mutations, and commonly observed contaminants (in total 41,556 sequences for H. sapiens) generated using the SequenceReverser tool from the MaxQuant software (version 1.0.13.13). The precursor ion tolerance was set to 10 ppm, and fragment ion tolerance was set to 0.02 Da. The search criteria were set as follows: Full tryptic specificity was required (cleavage after lysine or arginine residues unless followed by proline), three missed cleavages were allowed, carbamidomethylation (C) was set as a fixed modification, and oxidation (M) was set as a variable modification. Next, the database search results were imported to the Scaffold Q+ software (version 4.3.2, Proteome Software Inc., Portland, OR), and the protein false identification rate was set to 1% based on the number of decoy hits. Specifically, peptide identifications were accepted if they could be established at greater than 97.0% probability to achieve a false discovery rate less than 1.0% by the scaffold local FDR algorithm. Protein identifications were accepted if they could be established at greater than 65.0% probability to achieve an FDR less than 1.0% and contained at least one identified peptide. Protein probabilities were assigned by the Protein Prophet program (48). Proteins that contained similar peptides and could not be differentiated based on MS/MS analysis alone were grouped to satisfy the principles of parsimony. Proteins sharing significant peptide evidence were grouped into clusters. Last, a spectral library (*.blib) was generated from the assigned MS/MS spectra and imported to Skyline together with the acquired raw data files. Only precursor ions confidently identified by database searching and present in the spectral library were used for quantitative analysis. Quantitative result reports were further analyzed by Microsoft Excel and PRISM (GraphPad Software, San Diego, USA).

Different conditions were screened for mTORC2 in the presence and absence of substrates (fig. S2). For all conditions, freshly thawed mTORC2 aliquots were used to prepare samples with an mTORC2 concentration of 0.37 mg/ml. Shortly before grid preparation, the samples were diluted to reach a final mTORC2 concentration of 0.12 mg/ml.

For each grid, a small piece of continuous carbon was floated on top of the sample for 1 min. The carbon was then picked with a Quantifoil R2/2 holey carbon copper grid (Quantifoil Micro Tools), which was swiftly mounted in a Vitrobot (Thermo Fischer Scientific) whose chamber was set to 4C and 100% humidity. Five microliters of buffer was then added on top of the grid on the side showing the carbon covered with particles, which was immediately blotted with a setting of 0- to 6-s blotting time and rapidly plunge-frozen in a mixture 2:1 of propane:ethane (Carbagas).

Data were collected using a Titan Krios (Thermo Fisher Scientific) transmission electron microscope equipped with either a K2 Summit direct electron detector (Gatan), a K3 direct electron detector (Gatan), or a Falcon 3EC direct electron detector (Thermo Fisher Scientific) using either EPU (Thermo Fisher Scientific) or SerialEM (fig. S2) (49). Cameras were used in counting and/or super-resolution mode. During data collection, the defocus was varied between 1 and 3 m and four exposures were collected per holes. Stacks of frames were collected with a pixel size of 0.84 /pixel and a total dose of about 70 e/2.

For all datasets, the initial processing was done in similar fashion. First, the stacks of frames were aligned and dose-weighted using Motioncor2 (50). GCTF (51) was used to estimate the contrast transfer function (CTF) of the nondose-weighted micrographs. After a selection of good micrographs using both the quality of the power spectra and the quality of the micrographs themselves as criteria, particles were picked using batchboxer from the EMAN1.9 package (52) using particle averages from manually picked particles as references. Particles were extracted using Relion3.0 (53), followed by two rounds of two-dimensional (2D) classification using cryoSPARCv2 (Structura Biotechnology Inc.) (table S2) (54). The first reference was generated by ab initio reconstruction using cryoSPARCv2. Good particles from 2D classification were then used for a homogeneous 3D refinement followed by nonuniform refinement using cryoSPARCv2. Two masks were then generated manually around each half of the pseudo-dimeric mTORC2 using UCSF Chimera (55), and two focused refinements around each half of the complex using cryoSPARCv2 were performed using those masks. For dataset 1, which contained PH-Akt1, the resolution was further improved by performing Bayesian particle polishing (53) followed by CTF refinement using Relion3.1. Those particles were again subjected to a round of nonuniform refinement and local refinement using cryoSPARC v2. For each reconstruction, the maps were sharpened using phenix.auto_sharpen (56) or were transformed to structure factors using phenix.map_to_structure_factors (56) and sharpened in COOT (57).

Further 3D classifications without alignment for local structural variability close to the catalytic center were performed using the particles from the datasets containing the purified Akt1 and, independently, the ones from the dataset with PH-Akt1 using Relion3.0 (53) and using a mask manually created in UCSF Chimera (55). After classification, the particles were used for refinement using cryoSPARCv2 (Structura Biotechnology Inc.). To compare the density of the sample with and without ATPS, the final density (volume A) was filtered to 4.2 and compared to the density without ATPS (volume F). Difference density was calculated using UCSF ChimeraX (58).

First, mTOR and mLST8 models were taken from the EM structure of mTORC2 [Protein Data Bank (PDB): 5ZCS (20)] and each fold was rigid bodyfitted into the better half of the density. Minor changes in mTOR conformation were done manually to fit the density, and then Rictor and SIN1 were manually built de novo using COOT (57). Map quality enabled direct model building for structured regions, and lower-resolution density provided connectivity information for assigning and linking regions of Sin1 and Rictor as shown in figs. S4C and S5B. The second half of mTORC2 was made by copying and rigid body fitting each chain of the first half in the second one. Last, the structure of either one- or two-sided mTORC2 was refined using phenix.real_space_refine (table S2) (56), using Ramachandran and secondary structure restraints. As the horns of mTOR were flexible and their local resolutions were considerably lower, additional reference restraints were applied, using PDB: 6BCX (23) as reference. The model was then validated by comparing the Fourier Shell Correlations (FSC) calculated for the experimental density and the models (fig. S3). In addition, both the half and full structure were also refined in their respective half map (half map 1) and the FSCs of this structure against the same half map (half map 1), the other half (half map 2), and the full map were compared. The similarity of the curves shows that the structure was not overfitted.

InsP6 (Sigma-Aldrich) was directly dissolved in 10 mM ammonium acetate (pH 8.5) and diluted to 50 M. mTORC2 in cryo-EM buffer was buffer-exchanged and concentrated in 10 mM ammonium acetate (pH 8.5) using an Amicon Ultra-0.5 mLMWCO 100kDa. The concentrated complex was mixed with an equal volume of Phenol at pH 8, thoroughly vortexed for 30 s, and incubated at room temperature for 30 min. The tube was then centrifuged for 5 min at 15,000g. The aqueous phase was then used for MS. A sample containing only buffer and no protein was subjected to the same treatment for reference. The samples were then mixed with four volumes of injection buffer [90% acetonitrile, 9% methanol, 50 mM ammonium acetate (pH 7)] and directly injected using a Hamilton syringe in Synapt G2-SI HDMS (Waters) in negative mode and using the T-Wave IMS.

All density and structure representations were generated using UCSF ChimeraX (58). Difference densities were calculated in ChimeraX using the volume subtract command. Local resolutions were estimated using cryoSPARC v2 (Structura Biotechnology Inc.). The electrostatic surface representation of Rictor was generated using APBS [Adaptive Poisson-Boltzmann Solver (59)]. Multiple sequence alignment was performed using Clustal Omega (60) and visualized with Espript (61). Conservation analysis was done with AL2CO (62) and visualized in UCSF ChimeraX (58).

Acknowledgments: We thank T. Sharpe at the Biophysics facility and A. Schmidt at the Proteomics Core Facility of Biozentrum and the sciCORE scientific computing facility, all from University of Basel. We thank M. Leibundgut for advice with model building, A. Jomaa and S. Mattei for advice on cryo-EM data processing, the ETH scientific center for optical and electron microscopy (ScopeM), and, in particular, M. Peterek and P. Tittmann for technical support. We are indebted to E. Laczko and J. Hu of the Functional Genomics Center Zrich for the help with mass spectrometry. We thank I. Lui and T. Leonard (Max F. Perutz Laboratories, Vienna) for providing (Delta-PH) Akt1 protein. Funding: F.M. and K.B. are recipients of a fellowship from the Biozentrum International PhD program. This work was supported by the Swiss National Science Foundation (SNSF) via the National Center of Excellence in RNA and Disease (project funding 138262) to N.B. and M.N.H. and SNSF project funding 179323 and 177084 to T.M. Author contributions: A.S. designed the experiments, prepared the sample for cryo-EM, and carried out data processing and structure modeling. A.S. and D.B. performed data collection. F.M. designed the experiments; cloned Akt1, mTORC2 mutants, and Rictor mutants; expressed and purified proteins; and performed the activity assays and the nano-DSF measurements. E.S. established the mTORC2 purification procedure. S.I. cloned mTORC2 and contributed to data analysis and manuscript preparation. M.S. performed the in-cell analysis of mTORC2 activity. K.B. and M.S. performed the KO/KD of MINPP1 and IPPK. A.S., F.M., D.B., S.I., N.B., M.N.H., and T.M. participated in the writing of the manuscript. Competing interests: The authors declare that they have no competing interests. Data and materials availability: All data needed to evaluate the conclusions in the paper are present in the paper and/or the Supplementary Materials. The high-resolution cryo-EM map of the half-mTORC2 (density C) and full-mTORC2 (density A) has been deposited in the Electron Microscopy Data Bank as EMD-11492 and EMD-11488, respectively, while the corresponding models are in the Protein Data Bank as PDB ID 6ZWO and 6ZWM. In addition, the density of mTORC2 in the absence of ATPS (density F), as well as the densities showing extra density (densities G and H) were deposited in the Electron Microscopy Data Bank as EMD-11489, EMD-11491, and EMD-11490, respectively. Plasmid MX01 is available from Addgene. Requests for materials should be addressed to T.M.

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The 3.2- resolution structure of human mTORC2 - Science Advances

Cross-reactive neutralization of SARS-CoV-2 by serum antibodies from recovered SARS patients and immunized animals – Science Advances

Abstract

The current coronavirus disease 2019 (COVID-19) pandemic is caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), a novel coronavirus genetically close to SARS-CoV. To investigate the effects of previous SARS-CoV infection on the ability to recognize and neutralize SARS-CoV-2, we analyzed 20 convalescent serum samples collected from individuals infected with SARS-CoV during the 2003 SARS outbreak. All patient sera reacted strongly with the S1 subunit and receptor binding domain (RBD) of SARS-CoV; cross-reacted with the S ectodomain, S1, RBD, and S2 proteins of SARS-CoV-2; and neutralized both SARS-CoV and SARS-CoV-2 S proteindriven infections. Analysis of antisera from mice and rabbits immunized with a full-length S and RBD immunogens of SARS-CoV verified cross-reactive neutralization against SARS-CoV-2. A SARS-CoVderived RBD from palm civets elicited more potent cross-neutralizing responses in immunized animals than the RBD from a human SARS-CoV strain, informing strategies for development of universal vaccines against emerging coronaviruses.

The global outbreak of the coronavirus disease 2019 (COVID-19) was caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), which is a new coronavirus (CoV) genetically close to SARS-CoV that emerged in 2002 (13). As of 25 May 2020, a total of 5,307,298 confirmed COVID-19 cases, including 342,070 deaths, have been reported from 216 countries or regions, and the numbers are still growing rapidly (https://who.int). Unfortunately, even though 17 years passed, we have not developed effective prophylactics and therapeutics in preparedness for the reemergence of SARS or SARS-like CoVs. A vaccine is urgently needed to prevent the human-to-human transmission of SARS-CoV-2.

Like SARS-CoV and many other CoVs, SARS-CoV-2 uses its surface spike (S) glycoprotein to gain entry into host cells (46). Typically, the S protein forms a homotrimer with each protomer consisting of S1 and S2 subunits. The N-terminal S1 subunit is responsible for virus binding to the cellular receptor angiotensin-converting enzyme 2 (ACE2) through an internal receptor binding domain (RBD) that is capable of functional folding independently, whereas the membrane-proximal S2 subunit mediates membrane fusion events. While SARS-CoV-2 and SARS-CoV share about 80% homology in full-length genome sequences, their S proteins have about 76% amino acid identity (2, 3). The RBD sequences of the two viruses are only about 74% identical, with most mutations occurring in the receptor-binding motifs (RBMs) (~50% amino acid identity). It was found that the ACE2-binding affinity of the SARS-CoV-2 RBD is 10- to 20-fold higher than that of the SARS-CoV RBD, which may contribute to the higher transmissibility of SARS-CoV-2 (7). Very recently, the prefusion structure of the SARS-CoV-2 S protein was determined by cryoelectron microscopy, which revealed an overall similarity to that of SARS-CoV (5, 7); the crystal structure of the SARS-CoV-2 RBD in complex with ACE2 was also determined by several independent groups, and the residues or motifs critical for the higher-affinity RBD-ACE2 interaction were identified (810). As seen, the SARS-CoV-2 RBD binds ACE2 in the same orientation with the SARS-CoV RBD and relies on conserved, mostly aromatic, residues. The structures have also provided evidence to support a mechanism of infection triggering that is thought to be conserved among the Coronaviridae, wherein the S protein undergoes distinct conformational states with the RBD closed (receptor-inaccessible) or opened (receptor-accessible).

The S protein of CoVs is also a main target of neutralizing antibodies (nAbs), thus being considered an immunogen for vaccine development (5, 11). During the SARS-CoV outbreak in 2002, we took immediate actions to characterize the immune responses in infected SARS patients and in inactivated virus vaccine- or S proteinimmunized animals (1220). We demonstrated that the S protein RBD dominates the nAb response against SARS-CoV infection and thus proposed an RBD-based vaccine strategy (11, 1522). Our follow-up studies verified a potent and persistent anti-RBD response in recovered SARS patients (2325). Although SARS-CoV-2 and SARS-CoV share substantial genetic and functional similarities, their S proteins, especially in the RBD sequences, display relatively larger divergences. Toward developing vaccines and immunotherapeutics against emerging CoVs, it is fundamentally important to characterize the antigenic cross-reactivity between SARS-CoV-2 and SARS-CoV.

A panel of serum samples collected from 20 patients who recovered from SARS-CoV infection was analyzed for the antigenic cross-reactivity with SARS-CoV-2. First, we examined the convalescent sera by a commercial diagnostic enzyme-linked immunosorbent assay (ELISA) kit, which uses a recombinant nucleocapsid (N) protein of SARS-CoV-2 as detection antigen. As shown in Fig. 1A, all the serum samples at a 1:100 dilution displayed high reactivity, verifying that the N antigen is highly conserved between SARS-CoV and SARS-CoV-2. As tested by ELISA, each of the patient sera also reacted with the SARS-CoV S1 subunit and its RBD strongly (Fig. 1B). Then, we determined the cross-reactivity of the patient sera with four recombinant protein antigens derived from the S protein of SARS-CoV-2, including S ectodomain (designated S), S1 subunit, RBD, and S2 subunit. As shown in Fig. 1C, all the serum samples also reacted strongly with the S and S2 proteins, but they were less reactive with the S1 and RBD proteins.

(A) Reactivity of sera from 20 recovered patients with SARS-CoV (P01 to P20) with the nucleoprotein (N) of SARS-CoV-2 was measured by a commercial ELISA kit. The positive (pos) or negative (neg) control serum sample provided in the kit was collected from a convalescent SARS-CoV-2infected individual or healthy donor. (B) Reactivity of convalescent SARS sera with the recombinant S1 and RBD proteins of SARS-CoV. (C) Reactivity of convalescent SARS sera with the S ectodomain (designated S), S1, RBD, and S2 proteins of SARS-CoV-2. Serum samples from two healthy donors were used as negative control (Ctrl-1 and Ctrl-2). The experiments were performed with duplicate samples and repeated three times, and data are shown as means with SDs. OD450, optical density at 450 nm.

Limited by facility that can handle authentic viruses, we developed a pseudovirus-based single-cycle infection assay to determine the cross-neutralizing activity of the convalescent SARS sera on SARS-CoV and SARS-CoV-2. A control lentivirus was pseudotyped with vesicular stomatitis virus G protein (VSV-G). Initially, the serum samples were analyzed at a 1:20 dilution. As shown in Fig. 2A, all the sera efficiently neutralized both the SARS-CoV and SARS-CoV-2 pseudoviruses to infect 293T/ACE2 cells, and in comparison, each serum had lower efficiency in inhibiting SARS-CoV-2 as compared to SARS-CoV. None of the immune sera showed appreciable neutralizing activity on VSV-G pseudovirus. The neutralizing titer for each patient serum was then determined. As shown in Fig. 2B, the patient sera could neutralize SARS-CoV with titers ranging from 1:120 to 1:3240 and could cross-neutralized SARS-CoV-2 with titers ranging from 1:20 to 1:360. In a highlight, the patient P08 serum had the highest titer to neutralize SARS-CoV (1:3240) when it neutralized SARS-CoV-2 with a titer of 1:120; the patient P13 serum showed the highest titer on SARS-CoV-2 (1:360) when it had a 1:1080 titer to efficiently neutralize SARS-CoV.

(A) Neutralizing activities of convalescent patient sera (1:20 dilution) against SARS-CoV, SARS-CoV-2, and VSV-G control were tested by a single-cycle infection assay. (B) Neutralizing titers of each of the convalescent patient sera on the three pseudotypes were measured. The experiments were performed with triplicate samples and repeated three times, and data are shown as means with SDs.

To comprehensively characterize the cross-reactivity between the S proteins of SARS-CoV and SARS-CoV-2, we generated mouse antisera against the S protein of SARS-CoV by immunization. Here, three mice (M-1, M-2, and M-3) were immunized with a recombinant full-length S protein in the presence of MPL-TDM adjuvant (monophosphoryl lipid A plus trehalose dicorynomycolate), while two mice (M-4 and M-5) were immunized with the S protein plus alum adjuvant (fig. S1). Binding of antisera to diverse S antigens were initially examined by ELISA. As shown in Fig. 3A, the mice immunized by the S protein with the MPL-TDM adjuvant developed relatively higher titers of antibody responses as compared to the two mice with the alum adjuvant. It was expected that the adjuvanticity of alum formulation was weaker than that of MPL-TDM. Apparently, each of the mouse antisera had high cross-reactivity with the SARS-CoV-2 S and S2 proteins, but the cross-reactive antibodies specific for the SARS-CoV-2 S1 and RBD were relatively lower except that in mouse M-3. Subsequently, the neutralizing capacity of mouse anti-S sera was measured with pseudoviruses. As shown in Fig. 3 (B to F), all the antisera, diluted at 1:40, 1:160, or 1:640, potently neutralized SARS-CoV, and consistently, they were able to cross-neutralize SARS-CoV-2 although with reduced capacity relative to SARS-CoV.

(A) Binding activity of mouse anti-S sera at a 1:100 dilution to SARS-CoV (S1 and RBD) and SARS-CoV-2 (S, S1, RBD, and S2) antigens was determined by ELISA. A healthy mouse serum was tested as control. (B to F) Neutralizing activity of mouse anti-S sera at indicated dilutions against SARS-CoV, SARS-CoV-2, and VSV-G pseudoviruses was determined by a single-cycle infection assay. The experiments were performed in triplicate and repeated three times, and data are shown as means with SDs. Statistical significance was tested by two-way ANOVA with Dunnett posttest. **P 0.01 and ***P 0.001.

As the S protein RBD dominates the nAb response to SARS-CoV, we sought to characterize the RBD-mediated cross-reactivity and neutralization on SARS-CoV-2. To this end, we first generated mouse anti-RBD sera by immunization with two RBD-Fc fusion proteins: one encoding the RBD sequence of a palm civet SARS-CoV strain SZ16 (SZ16-RBD) and the second one with the RBD sequence of a human SARS-CoV strain GD03 (GD03-RBD). Both the fusion proteins were expressed in 293T cells and purified to apparent homogenicity (fig. S1). As shown in Fig. 4A, all eight mice developed robust antibody responses against the SARS-CoV S1 and RBD, and in comparison, four mice (M-1 to M-4) immunized with SZ16-RBD exhibited higher titers of antibody responses than the mice (M-5 to M-8) immunized with GD03-RBD. Each of the anti-RBD sera cross-reacted well with the S protein of SARS-CoV-2, suggesting that SARS-CoV and SARS-CoV-2 do share antigenically conserved epitopes in the RBD sites. Noticeably, while the SZ16-RBD immune sera also reacted with the SARS-CoV-2 S1 and RBD antigens, the cross-reactivity of the GD03-RBD immune sera was low. However, while the mouse anti-RBD sera at 1:50 dilutions were measured with increased coating antigens in ELISA, they reacted with the SARS-CoV-2 S1 and RBD efficiently, which verified the cross-reactivity (Fig. 4B). Similarly, the neutralizing activity of mouse antisera was determined by pseudovirus-based single-cycle infection assay. As shown in Fig. 4 (C and D), both the SZ16-RBD and GD03-RBDspecific antisera displayed very potent activities to neutralize SARS-CoV; they also cross-neutralized SARS-CoV-2 with relatively lower efficiencies. As judged by the neutralizing activity at the highest serum dilution, the SZ16-RBD antisera were more potent than the GD03-RBD antisera in neutralizing SARS-CoV; however, the two antisera had no significant difference in neutralizing SARS-CoV-2 (Fig. 4, E and F).

(A) Binding activity of mouse antisera at a 1:100 dilution to SARS-CoV (S1 and RBD) and SARS-CoV-2 (S, S1, and RBD) antigens was determined by ELISA. A healthy mouse serum was tested as control. (B) The cross-reactivity of mouse antisera with the SARS-CoV-2 S1 and RBD proteins. The antisera were diluted at 1:50, and the S1 and RBD antigens were coated at 100 ng per ELISA plate well. (C and D) Neutralizing activities of mouse antisera at indicated dilutions against SARS-CoV, SARS-CoV-2, and VSV-G pseudoviruses were determined by a single-cycle infection assay. The experiments were performed in triplicate and repeated three times, and data are shown as means with SDs. (E and F) Comparison of neutralizing activities of the mouse antiSZ16-RBD and antiGD03-RBD sera. Statistical significance was tested by two-way ANOVA with Dunnett posttest. ns, not significant. *P 0.05, **P 0.01, and ***P 0.001.

We further developed rabbit antisera by immunizations, in which two rabbits were immunized with SZ16-RBD (R-1 and R-2) or with GD03-RBD (R-3 and R-4). Each RBD protein elicited antibodies highly reactive with both the SARS-CoV and SARS-CoV-2 antigens (Fig. 5A), which were different from their immunizations in mice. As expected, all of the rabbit antisera potently neutralized SARS-CoV and SARS-CoV-2 in a similar profile with that of the mouse anti-S and anti-RBD sera (Fig. 5, B and C). Obviously, the neutralizing activity of rabbit antiSZ16-RBD sera against both the viruses was higher than that of the rabbit antiGD03-RBD sera (Fig. 5, D and E). Together, the results verified that the SARS-CoV S protein and its RBD immunogens can induce cross-neutralizing antibodies toward SARS-CoV-2 by vaccination.

(A) Binding activity of rabbit antisera at a 1:100 dilution to SARS-CoV (S1 and RBD) and SARS-CoV-2 (S protein and RBD) antigens was determined by ELISA. A healthy rabbit serum was tested as control. (B and C) Neutralizing activities of rabbit antisera or control serum at indicated dilutions on SARS-CoV, SARS-CoV-2, and VSV-G pseudoviruses were determined by a single-cycle infection assay. The experiments were done in triplicate and repeated three times, and data are shown as means with SDs. (D and E) Comparison of neutralizing activities of the rabbit antiSZ16-RBD and antiGD03-RBD sera. Statistical significance was tested by two-way ANOVA with Dunnett posttest. *P 0.05, **P 0.01, and ***P 0.001.

To validate the observed cross-reactive neutralization and explore the underlying mechanism, we purified anti-RBD antibodies from the rabbit antisera above. As shown in Fig. 6 (A and B), both purified rabbit antiSZ16-RBD and antiGD03-RBD antibodies reacted strongly with the SARS-CoV RBD protein and cross-reacted with the SARS-CoV-2 S and RBD but not S2 proteins in a dose-dependent manner. Moreover, the purified antibodies dose-dependently neutralized SARS-CoV and SARS-CoV-2 but not VSV-G (Fig. 6, C and D). Consistent with their antisera, the rabbit antiSZ16-RBD antibodies were more active than the rabbit antiGD03-RBD antibodies against both SARS-CoV and SARS-CoV-2 (Fig. 6, E and F). Next, we investigated whether the rabbit anti-RBD antibodies block RBD binding to 293T/ACE2 cells by flow cytometry. As expected, both the SARS-CoV and SARS-CoV-2 RBD proteins could bind to 293T/ACE2 cells in a dose-dependent manner and, in line with previous findings, that the RBD of SARS-CoV-2 bound to ACE2 more efficiently (fig. S2). Unexpectedly, the antibodies purified from SZ16-RBDimmunized rabbits (R-1 and R-2) potently blocked the binding of both the RBD proteins, whereas the antibodies from GD03-RBDimmunized rabbits (R-3 and R-4) had no such blocking functionality except a high concentration of the rabbit R-3 antibody on the SARS-CoV RBD binding (Fig. 7).

Binding titers of purified rabbit antiSZ16-RBD (A) and antiGD03-RBD (B) antibodies (Abs) to the SARS-CoV (RBD) and SARS-CoV-2 (S, RBD, and S2) antigens were determined by ELISA. A healthy rabbit serum was tested as control. (C and D) Neutralizing titers of purified rabbit antiSZ16-RBD and antiGD03-RBD antibodies on SARS-CoV, SARS-CoV-2, and VSV-G pseudoviruses were determined by a single-cycle infection assay. The experiments were done in triplicate and repeated three times, and data are shown as means with SDs. (E and F) Comparison of neutralizing activities of the rabbit antiSZ16-RBD and antiGD03-RBD antibodies.

(A) Blocking activity of rabbit anti-RBD antibodies on the binding of SARS-CoV RBD (first two panels) or SARS-CoV-2 RBD (last two panels) to 293T/ACE2 cells was determined by flow cytometry. FITC-A, fluorescein isothiocyanate-labeled concanavalin A. (B) Purified rabbit anti-RBD antibodies inhibited the RBD-ACE2 binding dose-dependently. The experiments were repeated three times, and data are shown as means with SDs. Statistical significance was tested by two-way ANOVA with Dunnett posttest. *P 0.05 and **P 0.01.

To develop effective vaccines and immunotherapeutics against emerging CoVs, the antigenic cross-reactivity between SARS-CoV-2 and SARS-CoV is a key scientific question that needs to be addressed as soon as possible. However, after the SARS-CoV outbreak more than 17 years ago, there are very limited blood samples from SARS-CoVinfected patients available for such studies. At the moment, Hoffmann et al. (26) analyzed three convalescent patient with SARS sera and found that both SARS-CoV-2 and SARS-CoV S protein-driven infections were inhibited by diluted sera, but the inhibition of SARS-CoV-2 was less efficient; Ou et al. (27) detected one patient with SARS serum that was collected at 2 years after recovery, which showed a serum neutralizing titer of >1:80 dilution for SARS-CoV pseudovirus and of 1:40 dilution for SARS-CoV-2 pseudovirus. While these studies supported the cross-neutralizing activity of the convalescent SARS sera on SARS-CoV-2, a just published study with the plasma from seven SARS-CoVinfected patients suggested that cross-reactive antibody binding responses to the SARS-CoV-2 S protein did exist, but cross-neutralizing responses could not be detected (28). In this study, we first investigated the cross-reactivity and neutralization with a panel of precious immune sera collected from 20 recovered SARS patients. As shown, all the patient sera displayed high titers of antibodies against the S1 and RBD proteins of SARS-CoV and cross-reacted strongly with the S protein of SARS-CoV-2. In comparison, the patient sera had higher reactivity with the S2 subunit of SARS-CoV-2 relative to its S1 subunit and RBD protein, consistent with a higher sequence conservation between the S2 subunits of SARS-CoV-2 and SARS-CoV than that of their S1 subunits and RBDs (3, 5). Each of the patient sera could cross-neutralize SARS-CoV-2 with serum titers ranging from 1:20 to 1:360 dilutions, verifying the cross-reactive neutralizing activity of the patient with SARS sera on the S protein of SARS-CoV-2.

Now, two strategies are being explored for developing vaccines against emerging CoVs. The first one is based on a full-length S protein or its ectodomain, while the second uses a minimal but functional RBD protein as vaccine immunogen. Our previous studies revealed that the RBD site contains multiple groups of conformation-dependent neutralizing epitopes: Some epitopes are critically involved in RBD binding to the cell receptor ACE2, whereas other epitopes have a neutralizing function but do not interfere with the RBD-ACE2 interaction (15, 18). Most neutralizing monoclonal antibodies (mAbs) previously developed against SARS-CoV target the RBD epitopes, while a few are directed against the S2 subunit or the S1/S2 cleavage site (29, 30). The cross-reactivity of such mAbs with SARS-CoV-2 has been characterized, and it was found that many SARS-CoVneutralizing mAbs exhibit no cross-neutralizing capacity (8, 31). For example, CR3022, a nAb isolated from a convalescent patient with SARS, cross-reacted with the RBD of SARS-CoV-2 but did not neutralize the virus (31, 32). Nonetheless, a new human anti-RBD mAb, 47D11, has just been isolated from transgenic mice immunized with a SARS-CoV S protein, which neutralizes both SARS-CoV-2 and SARS-CoV (33). The results of polyclonal antisera from immunized animals are quite inconsistent. For example, Walls et al. (5) reported that plasma from four mice immunized with a SARS-CoV S protein could completely inhibit SARS-CoV pseudovirus and reduced SARS-CoV-2 pseudovirus to ~10% of control, thus proposing that immunity against one virus of the sarbecovirus subgenus can potentially provide protection against related viruses; two rabbit antisera raised against the S1 subunit of SARS-CoV also reduced SARS-CoV-2 Sdriven cell entry although with lower efficiency compared to SARS-CoV S (26). Moreover, four mouse antisera against the SARS-CoV RBD cross-reacted efficiently with the SARS-CoV-2 RBD and neutralized SARS-CoV-2, suggesting the potential to develop a SARS-CoV RBDbased vaccine preventing SARS-CoV-2 (34). Differently, it was reported that plasma from mice infected or immunized by SARS-CoV failed to neutralize SARS-CoV-2 infection in Vero E6 cells (28), and mouse antisera raised against the SARS-CoV RBD were even unable to bind to the S protein of SARS-CoV-2 (8). In the present studies, several panels of antisera against the SARS-CoV S and RBD proteins were comprehensively characterized. Although the use of pseudovirus-based neutralization assay might not fully reflect the complexity of authentic SARS-CoV-2 infection, our results, altogether, did provide reliable data to validate the cross-reactivity and cross-neutralization between SARS-CoV and SARS-CoV-2. Meaningfully, this work found that the RBD proteins derived from different SARS-CoV strains can elicit antibodies with unique functionalities: While the RBD from a palm civet SARS-CoV (SZ16) induced potent antibodies capable of blocking the RBD-receptor binding, the antibodies elicited by the RBD derived from a human strain (GD03) had no such effect despite their neutralizing activities. SZ16-RBD shares an overall 74% amino acid sequence identity with the RBD of SARS-CoV-2, when their internal RBMs display more marked substitutions (~50% sequence identity); however, SZ16-RBD and GD03-RBD only differ from three amino acids, all located within the RBM (fig. S3). Further research is needed to determine how these mutations change the antigenicity and immunogenicity of the S protein and RBD immunogens.

Three more questions invite further investigation. First, it would be intriguing to know whether individuals who recovered from previous SARS-CoV infection can direct their acquired SARS-CoV immunity against SARS-CoV-2 infection. To address this question, an epidemiological investigation of populations exposed to SARS-CoV-2 would provide valuable insights. Second, it would be important to determine whether a universal vaccine can be rationally designed by engineering the S protein RBD sequences. Third, although antibody-dependent infection enhancement was not observed during our studies with the human and animal serum antibodies, the possibility of such effects should be carefully addressed in vaccine development.

Two RBD-Fc fusion proteins, which contain the RBD sequence of Himalayan palm civet SARS-CoV strain SZ16 (accession number: AY304488.1) or the RBD sequence of human SARS-CoV strain GD03T0013 (AY525636.1, denoted GD03) linked to the Fc domain of human immunoglobulin G1 (IgG1), were expressed in transfected 293T cells and purified with protein ASepharose 4 Fast Flow in our laboratory as previously described (15). A full-length S protein of SARS-CoV Urbani (AY278741) was expressed in expressSF+ insect cells with recombinant baculovirus D3252 by the Protein Sciences Corporation (Bridgeport, CT, USA) (16). A panel of recombinant proteins with a C-terminal polyhistidine (His) tag, including S1 and RBD of SARS-CoV (AAX16192.1) and S ectodomain (S-ecto), S1, RBD, and S2 of SARS-CoV-2 (YP_009724390.1), were purchased from the Sino Biological Company (Beijing, China) and characterized for quality control by SDSpolyacrylamide gel electrophoresis (fig. S4).

Twenty patients with SARS were enrolled in March 2003 for a follow-up study at the Peking Union Medical College Hospital, Beijing. Serum samples were collected from recovered patients at 3 to 6 months after discharge, with the patients written consent and the approval of the ethics review committee (23, 24). The samples were stored in aliquots at 80C and were heat-inactivated at 56C before performing experiments.

Multiple immunization protocols were conducted in compliance with the Institutional Animal Care and Use Committee guidelines and are summarized in fig. S1B. First, five Balb/c mice (6 weeks old) were subcutaneously immunized with 20 g of full-length S protein resuspended in phosphate-buffered saline (PBS; pH 7.2) in the presence of MPL-TDM adjuvant or alum adjuvant (Sigma-Aldrich). Second, eight Balb/c mice (6 weeks old) were subcutaneously immunized with 20 g of SZ16-RBD or GD03-RBD fusion proteins and MPL-TDM adjuvant. The mice were boosted two times with 10 g of the same antigens and the MPL-TDM adjuvants at 3-week intervals. Third, four New Zealand White rabbits (12 weeks old) were immunized intradermally with 150 g of SZ16-RBD or GD03-RBD resuspended in PBS (pH 7.2) in the presence of Freunds complete adjuvant and boosted two times with 150 g of the same antigens and incomplete Freunds adjuvant at 3-week intervals. Mouse and rabbit antisera were collected and stored at 40C.

Binding activity of serum antibodies with diverse S protein antigens was detected by ELISA. In brief, 50 or 100 ng of a purified recombinant protein (SARS-CoV S1 or RBD and SARS-CoV-2 S-ecto, S1, RBD, or S2) was coated into a 96-well ELISA plate overnight at 4C. Wells were blocked with 5% bovine serum albumin in PBS for 1 hour at 37C, followed by incubation with diluted antisera or purified rabbit antibodies for 1 hour at 37C. A diluted horseradish peroxidaseconjugated goat anti-human, mouse, or rabbit IgG antibody was added for 1 hour at room temperature. Wells were washed five times between each step with 0.1% Tween 20 in PBS. Wells were developed using 3,3,5,5-tetramethylbenzidine and read at 450 nm after termination with 2 M H2SO4.

Neutralizing activity of serum antibodies was measured by pseudovirus-based single-cycle infection assay as previously described (35). The pseudovirus particles were prepared by cotransfecting 293T cells with a backbone plasmid (pNL4-3.luc.RE) that encodes an Env-defective, luciferase reporter-expressing HIV-1 genome and a plasmid expressing the S protein of SARS-CoV-2 (IPBCAMS-WH-01; accession number: QHU36824.1) or SARS-CoV (GD03T0013) or the VSV-G. Cell culture supernatants containing virions were harvested 48 hours after transfection, filtrated, and stored at 80C. To measure the neutralizing activity of serum antibodies, a pseudovirus was mixed with an equal volume of serially diluted sera or purified antibodies and incubated at 37C for 30 min. The mixture was then added to 293T/ACE2 cells at a density of 104 cells/100 l per plate well. After culture at 37C for 48 hours, the cells were harvested and lysed in reporter lysis buffer, and luciferase activity (relative luminescence unit) was measured using luciferase assay reagents and a luminescence counter (Promega, Madison, WI). Percent inhibition of serum antibodies compared to the level of the virus control subtracted from that of the cell control was calculated. The highest dilution of the serum sample that reduced infection by 50% or more was considered to be positive.

Blocking activity of purified rabbit anti-RBD antibodies on the binding of RBD proteins with a His tag to 293T/ACE2 cells was detected by flow cytometry assay. Briefly, SARS-CoV-2 RBD protein (2 g/ml) or SARS-CoV RBD protein (10 g/ml) was added to 4 105 cells and incubated for 30 min at room temperature. After washing two times with PBS, cells were incubated with a 1:500 dilution of Alexa Fluor 488labeled rabbit antiHis tag antibody (Cell Signaling Technology, Danvers, MA) for 30 min at room temperature. After two washes, cells were resuspended in PBS and analyzed by FACSCantoII instrument (Becton Dickinson, Mountain View, CA).

Statistical analyses were carried out using GraphPad Prism 7 Software. One-way or two-way analysis of variance (ANOVA) was used to test for statistical significance. Only P values of 0.05 or lower were considered statistically significant [P > 0.05 (ns, not significant), *P 0.05, **P 0.01, and ***P 0.001].

Acknowledgments: Funding: This work was supported by grants from the National Natural Science Foundation of China (81630061 and 82041006) and the CAMS Innovation Fund for Medical Sciences (2017-I2M-1-014). Author contributions: Conceptualization: Y. He and T.L. Formal analysis: Y.Z., D.Y., and Y. He. Investigation: Y.Z., D.Y., Y. Han, H.Y., H.C., and L.R. Resources: H.C., L.R., J.W., T.L., and Y. He. Writingoriginal draft: Y. He. Writingreview and editing: all authors. Funding acquisition: Y. He and T.L. Competing interests: The authors declare that they have no competing interests. Data and materials availability: All data needed to evaluate the conclusions in the paper are present in the paper and/or the Supplementary Materials. Additional data related to this paper may be requested from the authors.

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Cross-reactive neutralization of SARS-CoV-2 by serum antibodies from recovered SARS patients and immunized animals - Science Advances

Bootcamp allows Oswego researchers to explore fighting COVID-19 – NNY360

OSWEGO - SUNY Oswego students, faculty and recent alumni were part of a research team that spans many institutions and disciplines to research the COVID-19 pandemic resulting from the SARS-CoV-2 virus.

SUNY Oswego students Emily Fingar, Michael Kirsch and Charlotte Labrie-Cleary and recent graduates Ali Khan and Santiago Soto joined Julia Koeppe of the chemistry faculty for the weeklong bootcamp hosted by the Institute for Quantitative Biomedicine at Rutgers University this summer.

Other institutions in Oswegos group included Rochester Institute of Technology, Ursinus College, Hope College, Grand View University and Xavier University. The goal was to bring together teams of interdisciplinary researchers with complementary skills and interests to investigate the virus. Carried out completely remotely, participants interacted with experts and learned how to use various bioinformatics tools to answer pertinent research questions.

Research focused on the SARS-CoV-2 main protease (an enzyme that breaks down proteins into smaller units), which is essential for viral activity and a promising drug target. By understanding the differences in this protease resulting from the rapid evolution, researchers can move closer to developing an antiviral medicine to help COVID-19 patients, Koeppe said.

Students learned to work remotely (in Zoom and Zoom breakout rooms) with a group of their peers and a faculty mentor to study the structure and function of the main protease from the virus, Koeppe said. Students learned about computer programs used to view macromolecules such as proteins and enzymes; key principles of bioinformatics, such as sequence alignments that can show the evolution of proteins; and computer programs that model protein folding to determine three-dimensional structures.

At the end of the boot camp, all of the students gave a short presentation with their group members on some specific questions that they explored when looking at changes in the amino acid sequence of the SARS-CoV-2 protease and how they expected these changes would or would not affect the function of the protease, Koeppe said.

Preparing young researchers

Khan, a May graduate who is starting Ph.D. work in cancer biology at the University of Iowas Carver Medical School, worked in a team with two other students and Koeppe.

We were given daily tasks in which we used various structural visualizing tools to understand different mutations of coronavirus with respect to bond length, change in heat energy, etc., Khan said. There were a couple of mutations assigned per group and we had to analyze those and came up with a conclusion. We then gave a mini-presentation at the end of the week for our group about our findings.

Khan said the knowledge and interactions all were fruitful for his future plans.

This Bootcamp taught me how to interface with a scientist in a different field, Khan said. I also got an opportunity to attend various lectures which taught me the importance of research and how impactful research can be. I was also able to learn how to use visualization softwares and python programming language which will definitely come in handy in my Ph.D.

For Santiago Soto, who earned his biology degree in May and is already working in the field professionally as a clinical laboratory technologist with Acutis Diagnostics, the bootcamp helped with his important everyday work with live SARS-CoV-2 samples.

I really enjoyed the opportunity to observe the mutation and evolution process of SARS-CoV-2s over the past six months and its main protease Nsp5 while comparing it to the original viral isolate to 161 unique sequence/structure variants, Soto said. This was done by analyzing amino acid sequences using 3D atomic level structures using several bioinformatic tools. The research found Nsp5 could be a promising drug target for vaccine development, he added.

This bootcamp allowed me to better understand the use of bioinformatics/biostatistics, Soto noted. Its the base principle on being able to make identifications on the genetic basis of diseases, their desirable properties and unique adaptations. I would like to pursue sometime in the future a graduate degree and career in epidemiology, biomedical engineering or genetics, where the use of bioinformatics is constantly being used to assist in progression.

A member of Koeppes research team, senior biology and health science major Emily Fingar was immediately interested when Koeppe reached out with the opportunity. She learned Foldit, PyRosetta, and Mol visualization software programs so that we could take our assigned mutants, where we had the DNA sequence but not necessarily a structure, and force those mutations into the known protease structure, she said.

My team specifically was assigned 11 mutations in the SARS-CoV-2 main protease to characterize, Fingar said. Our goal was to model, using these programs, how each of the assigned mutations of the SARS-CoV-2 main protease might be changing at the protein level as well as the stability of that protein. We also used this data to examine if there are regions in the protein structure that are mutating more often than other regions.

Fingar said the bootcamp helped her continue to broaden computational skills for research. Ill be the first to admit Im not the best with computers, Fingar said. This opportunity has shown me that I am capable of learning and effectively utilizing them in a meaningful way that is relevant to my research. My next challenge will be to tackle the statistical programming language R.

Senior biochemistry major Charlotte Labrie-Cleary found the opportunity to work in remote teams and gain experience relevant to research were key takeaways.

I learned how to use incredibly powerful bioinformatic tools that I hope to learn more about in the future, Labrie-Cleary said. I learned about the evolution of viruses with a focus on coronaviruses. We learned in depth about the SARS-CoV-2 main protease as well as its spike protein and why theyre important. We learned about testing techniques for COVID-19 and how they work.

For Labrie-Cleary. learning so much at a fast pace was exhilarating and I feel lucky to have been able to participate, she said. It has shed light into the world of bioinformatics, which is something I have always been super interested in. This experience will give me a head start when considering graduate programs, and it excites me to learn more about it. As an undergraduate, I am fortunate to have been offered such a valuable experience, as many students at our level are not offered such during undergraduate studies.

Senior biochemistry major Michael Kirsch appreciated learning about topics such as the evolution of RNA viruses, development of testing for COVID-19, what parts of COVID-19 might be the best to target with medicines that are being developed to treat it, and how phylogenetic trees can be used to help piece together when different mutations in a virus branch off from one another, he said.

His team used Mol and Foldit to examine the protein 6YB7, the COVID-19 main protease, which could lead to research on what affects its ability to do its job as a protease, and future research can then be done on how to disrupt this protein from doing its job, Kirsch said.

Virology, the study of viruses, is among the future fields Kirsch is considering, and the bootcamp has further encouraged him. I now know how to use several new programs to visualize or otherwise analyze proteins, which will be useful in my last semester at Oswego, as the research I do with Dr. Koeppe is focused on determining the function of protein 3DL1, he said. Being able to better visualize it can only help my research efforts, which Im excited about.

The bootcamp will allow Koeppe to provide better lab experiences and topical opportunities for her students.

I am currently modifying some of the bootcamp materials to use them as online lab experiments in our biochemistry lab courses for the fall semester, and I will also create a unit on the novel coronavirus and the main protease for my masters-level enzymes course for the fall semester, Koeppe noted. Students who are interested in further study will be welcome to join my research group where they can begin with computational experiments to study the viral proteins with a goal of identifying a possible drug target.

Koeppe and chemistry faculty member Kestutis Bendinskas have been using tools developed at the boot camp to design experiments for studying SARS-CoV-2 in their biochemistry lab courses.

The experience can help Koeppe develop a unit on computational software for protein folding into our biochemistry lab curriculum that focuses on enzymes of unknown function, she said. The software we used for protein folding in the bootcamp was new to all of us, and we think it will be a good addition to what weve already been using in the lab.

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Bootcamp allows Oswego researchers to explore fighting COVID-19 - NNY360