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Censorship over Palestine: Holocaust Survivor Decries Repression After Talks in Germany Are Canceled – Democracy Now!
Posted: January 21, 2024 at 11:51 pm
This is a rush transcript. Copy may not be in its final form.
AMY GOODMAN: This is Democracy Now!, democracynow.org, The War and Peace Report. Im Amy Goodman, with Nermeen Shaikh.
NERMEEN SHAIKH: We turn now to Marione Ingram. Shes an 88-year-old German American Holocaust survivor whos been protesting for months outside the White House calling for a ceasefire in Gaza. She was scheduled to speak this month at eight different schools in her native Hamburg, Germany. She was planning to address students receiving awards recognizing their commitment to social justice activism. Then, in December, she was told by an event organizer that her appearances were canceled. The trip was eventually postponed until May.
AMY GOODMAN: Marione Ingram is author of The Hands of War: A Tale of Endurance and Hope from a Survivor of the Holocaust and also the book The Hands of Peace: A Holocaust Survivors Fight for Civil Rights in the American South. Shes joining us from Washington, D.C.
Marione, Im sorry you had to leave the studio because there was an alarm in the building and everyone had to evacuate, but youre back now. And you have heard the previous guests, two Palestinian American esteemed artists, talking about having been canceled, like you, Samia Halaby by Indiana University, and Emily Jacir was about to give a talk in Berlin. Talk about the reason you were given for going back to Hamburg, Germany, where youve gone a number of times to speak to young people, but the reason why your talks were canceled this month.
MARIONE INGRAM: Good morning, Amy. Yes, a bit of excitement, so I missed I heard Samias explanation of her cancellation Im really sorry about that and missed the other, because we were evacuated.
The reasons for my cancellation have been extremely vague, given a climate in Germany right now of a lot of antisemitic events, apparently. And the only concrete explanation I got from someone was that I, as a Holocaust survivor, would be used by the AfD, which is the Alternative for Deutschland, the Alternative for Germany, which is a neo-Nazi and a primarily antisemitic group. But I was told that they would use my picture and my protest sign in a propaganda I cant even figure out what kind of propaganda that would be used for, since they are basically Nazis and would be a destruction of
AMY GOODMAN: The sign youre talking about is, standing outside the White House, Survivor says peace not war?
MARIONE INGRAM: Yes, yes. But on the flip side, it says Stop genocide in Gaza. And that has upset the powers that be, politicians who decide what can be said and what cannot be said.
I have been speaking to students for years, and I was also told by several teachers that right now my presence, talking to students, is of the utmost importance, because the schools in Hamburg are so diverse and there are many students who come from countries where there is war, oppression, poverty, and students in really terrible positions of trying to manage what is going on, conflict with each other. And I was told that my presence is so important because I have a rapport with students, and they were looking forward to expressing their thoughts, because they know that in talking to me and with me that they can say everything that is on their minds without being criticized or ostracized.
I find it extremely I understand Germanys sensitivity because of their gruesome history. But Germany has also been the only country, maybe other than Rwanda, that has acknowledged its horrific history, and it has taught this history as a never again thing. We must face our history so we can learn from it. So it is surprising to me that Germany has chosen to silence me.
But I think the worst part of it is that they are silencing young people who are experiencing especially in Germany, they are close to the war in Ukraine. They are troubled by what is going on by the war in the Mideast and the horrific slaughter of innocent people. It should be an absolute standstill of all governments when you are told that over 10,000 children are being murdered. There is no excuse for that.
And then to turn around America and Germanys support of Israels politics is extremely disturbing and, to me, frightening, because any time any government decides to silence the voices of people who oppose government policies, whatever they may be, this reminds me so much of my childhood. My childhood was spent in the first 10 years much the same way as the children of Gaza. I know exactly what they are going through. I know exactly what they are thinking. And this, apparently, has upset the Ministry of Culture, because I have compared the onset
AMY GOODMAN: We have less than a minute to go.
MARIONE INGRAM: The silencing of the last survivor of all three major events in Hamburg the firestorm, the worst bombing in the European war, and the Holocaust, where I lost almost all of my family and the silencing of voices like all of our voices when they are most needed is indicative of something more frightening, because I believe when governments decide to silence voices in opposition to the stance that they are taking, then we have to really question very deeply why are they doing it and for what reason.
AMY GOODMAN: Marione Ingram, were going to have to leave it there, but we thank you so much for being with us, 88-year-old Jewish German Holocaust survivor, has been protesting, calling for Biden to support a Gaza ceasefire.
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As Legacy Media Continues in Decline, It Espouses Censorship More – Walter Bradley Center for Natural and Artificial Intelligence
Posted: at 11:51 pm
Amid the continuing layoffs and plummeting public trust, traditional mainstream media have tended to favor censorship far more than they used to. As John Lloyd, co-founder of the Reuters Institute for the Study of Journalism, put it recently at Quillette,
The US media enjoys the worlds strongest protections of speech and publication, so it might have been counted on to oppose this movement in the name of those freedoms. But instances of journalists being fired or forced to resign for writing or saying the wrong thing have been growing, and these cases tend to follow a similar pattern. First, a writer or editor publishes a piece that is deemed offensive to one or more groups of marginalised individuals. Second, activists, influencers, celebrities, and not infrequently the writers/editors own colleagues informally collaborate in a sustained social-media mobbing of the publication in question and any staffers unwise enough to defend the article at issue. Third, following a period of agonised indecision, the writer/editor is pushed out and the publication releases a craven apology detailing the hurt caused and the lessons learned. Upshot? The mob is greatly empowered and the spectrum of permissible opinion shrinks.
For what its worth, even as late as the turn of the millennium, media people tended to be reflexively against censorship. Thats partly because most treasured the hope of discovering an embarrassing or unspeakable truth. Bluntly, that made a journalists career. But today, major media no longer exist to inform the public so much as to convey to the public the values that the mediums key personnel believe they should have. So censorship feels much more comfortable now.
One factor that probably helps media personnel feel that way is the sense of belonging to an academic elite. Far more journalists today have degrees:
Masters degrees in journalism now dominate the hiring at newspapers. Newspapers prefer degrees from prestigious schools, which always made me smirk because if you have a degree from Harvard, why are you working for peanuts at the Charleston Gazettein West Virginia?
Some are trying to fight back though
Filmmaker and former network news producer Ted Balaker points out, that The New York Times stood its ground when confronted by GLAAD, and execs at HBO (now Max) ever-so-cautiously announced a partnership with the formerly untouchable J.K. Rowling.
If Cancel culture finally expires some day, its obituary should recognize these profiles in courage (or profit seekingunder normal conditions, it wouldnt take courage to partner with the worlds most successful author).
But fighting back will mean acknowledging that the publication exists for the readers, not for Cancel Culture and yes, that will take courage.
James Bennet, one of the journalists fired in the same New York Times purge that claimed Bari Weiss, offered a key observation late last month at The Economist: Courage is what media dont have any more.
The Timess problem has metastasised from liberal bias to illiberal bias, from an inclination to favour one side of the national debate to an impulse to shut debate down altogether. All the empathy and humility in the world will not mean much against the pressures of intolerance and tribalism without an invaluable quality that [his former boss publisher, A.G.] Sulzberger did not emphasise: courage.
The reality is that journalism schools do not even value debate any more; they deride it as bothsidesism.
Government-funded news media?
Employment firm Challenger, Gray & Christmas reports that broadcast, print and digital outlets all together experienced 2,681 journalism job cuts in 2023, up 48% from 1,808 in 2022 and 77% from 1,511 in 2021. Media analysts now warn of news deserts to come, as a result. But that, of course, is nonsense. People are largely curating their own news now, as they often must.
However, the Canadian solution the government funds the legacy media is starting to be spoken of in the United States in veiled terms:
All available evidence suggests that the commercial future for journalism is especially dire, Victor Pickard, a professor of media policy and political economy at the University of Pennsylvanias Annenberg School for Communication, told The Wrap. We cannot simply let the market drive local journalism into the ground. I expect to see more legislative efforts, especially at state government levels, aimed at shoring up and even expanding local journalism.
For that, read: The government subsidizes the legacy media to stay in business and they act thereafter as public relations outlets for the governments that fund them. Expect to see such proposals floated more often in the United States in the next few years.
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As Legacy Media Continues in Decline, It Espouses Censorship More - Walter Bradley Center for Natural and Artificial Intelligence
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Trump Nomination: Pundit Expects Censorship, Calls for Riots – The Dallas Express
Posted: at 11:51 pm
Commentator Dan Bongino says that censorship and left-wing riots will increase as former President Donald Trump gains momentum on the campaign trail.
Bongino issued the warning on his Rumble broadcast this week and referenced two articles that he claimed serve as a guidebook to stopping Trump from reassuming the presidency.
The first article is a piece in Time published in February 2021 titled The Secret History of the Shadow Campaign That Saved the 2020 Election. The article details the alleged efforts of left-wing activists to pressure platforms to enforce their rules, both by removing content or accounts that spread disinformation and by more aggressively policing it in the first place. Another section refers to a national mobilization network that purportedly prepared to hit the streets if Trump remained president after inauguration day in 2021.
The other article Bongino mentioned in his broadcast was a January 2017 piece in Foreign Policy titled 3 Ways to Get Rid of President Trump Before 2020.
The fourth possibility is one that until recently I would have said was unthinkable in the United States of America: a military coup, or at least a refusal by military leaders to obey certain orders, wrote Rosa Brooks, the author of the article.
Bongino claimed his Facebook account has been throttled recently, and he suggested social media companies may further suppress or inhibit certain voices.
As Trump closes in on the nomination, you are going to see two things ramp up: censorship under the guise of, hey, were just trying to get free and fair elections and prevent misinformation, so we need to censor people. And youre going to see an increase in calls for riots and coups, Bongino said.
This is going to get worse, Bongino added. Censorship number one. Number two, get ready for their calls for riots and calls for coups.
As previously reported byThe Dallas Express, Trump won the Iowa caucus by a wide margin after maintaining his front-runner status among those vying for the Republican nomination.
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Transhumanism: billionaires want to use tech to enhance our abilities the outcomes could change what it means to … – The Conversation
Posted: January 18, 2024 at 6:10 pm
Many prominent people in the tech industry have talked about the increasing convergence between humans and machines in coming decades. For example, Elon Musk has reportedly said he wants humans to merge with AI to achieve a symbiosis with artificial intelligence.
His company Neuralink aims to facilitate this convergence so that humans wont be left behind as technology advances in the future. While people with disabilities would be near-term recipients of these innovations, some believe technologies like this could be used to enhance abilities in everyone.
These aims are inspired by an idea called transhumanism, the belief that we should use science and technology to radically enhance human capabilities and seek to direct our own evolutionary path. Disease, aging and death are all realities transhumanists wish to end, alongside dramatically increasing our cognitive, emotional and physical capacities.
Transhumanists often advocate for the three supers of superintelligence, superlongevity and superhappiness, the last referring to ways of achieving lasting happiness. There are many different views among the transhumanist community of what our ongoing evolution should look like.
For example, some advocate uploading the mind into digital form and settling the cosmos. Others think we should remain organic beings but rewire or upgrade our biology through genetic engineering and other methods. A future of designer babies, artificial wombs and anti-aging therapies appeal to these thinkers.
This may all sound futuristic and fantastical, but rapid developments in artificial intelligence (AI) and synthetic biology have led some to argue we are on the cusp of creating such possibilities.
Tech billionaires are among the biggest promoters of transhumanist thinking. It is not hard to understand why: they could be the central protagonists in the most important moment in history.
Creating so-called artificial general intelligence (AGI) that is, an AI system that can do all the cognitive tasks a human can do and more is a current focus within Silicon Valley. AGI is seen as vital to enabling us to take on the God-like role of designing our own evolutionary futures.
That is why companies like OpenAI, DeepMind and Anthropic are racing towards the development of AGI, despite some experts warning that it could lead to human extinction.
In the short term, the promises and the perils are probably overstated. After all, these companies have a lot to gain by making us think they are on the verge of engineering a divine power that can create utopia or destroy the world. Meanwhile, AI has played a role in fuelling our polarised political landscape, with disinformation and more complex forms of manipulation made more effective by generative AI.
Indeed, AI systems are already causing many other forms of social and environmental harm. AI companies rarely wish to address these harms though. If they can make governments focus on long-term potential safety issues relating to possible existential risks instead of actual social and environmental injustices, they stand to benefit from the resulting regulatory framework.
But if we lack the capacity and determination to address these real world harms, its hard to believe that we will be able to mitigate larger-scale risks that AI may hypothetically enable. If there really is a threat that AGI could pose an existential risk, for example, everyone would shoulder that cost, but the profits would be very much private.
This issue within AI development can be seen as a microcosm of why the wider transhumanist imagination may appeal to billionaire elites in an age of multiple crises. It speaks to the refusal to engage in grounded ethics, injustices and challenges and offers a grandiose narrative of a resplendent future to distract from the current moment.
Our misuse of the planets resources has set in train a sixth mass extinction of species and a climate crisis. In addition, ongoing wars with increasingly potent weapons remain a part of our technological evolution.
Theres also the pressing question of whose future will be transhuman. We currently live in a very unequal world. Transhumanism, if developed in anything like our existing context, is likely to greatly increase inequality, and may have catastrophic consequences for the majority of humans.
Perhaps transhumanism itself is a symptom of the kind of thinking that has created our parlous social reality. It is a narrative that encourages us to hit the gas, expropriate nature even more, keep growing and not look back at the devastation in the rear-view mirror.
If were really on the verge of creating an enhanced version of humanity, we should start to ask some big questions about what being human should mean, and therefore what an enhancement of humanity should entail.
If the human is an aspiring God, then it lays claim to dominion over nature and the body, making all amenable to its desires. But if the human is an animal embedded in complex relations with other species and nature at large, then enhancement is contingent on the health and sustainability of its relations.
If the human is conceived of as an environmental threat, then enhancement is surely that which redirects its exploitative lifeways. Perhaps becoming more-than-human should constitute a much more responsible humanity.
One that shows compassion to and awareness of other forms of life in this rich and wondrous planet. That would be preferable to colonising and extending ourselves, with great hubris, at the expense of everything, and everyone, else.
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Transhumanism: billionaires want to use tech to enhance our abilities the outcomes could change what it means to ... - The Conversation
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Scientists gather bobcat DNA from paw prints – KJZZ
Posted: January 16, 2024 at 9:18 pm
National Park Service
A bobcat at Tonto National Monument.
Scientists can now extract genetic information about bobcats from their paw prints.
The DNA can offer clues about the animals ancestry and even their microbes vital information for monitoring one of Arizonas most common predators.
As reported in a paper published the journal Biological Conservation, the technique is precise enough to distinguish a bobcat from a Canada lynx (a close cousin species with an overlapping distribution range), which would be impossible using tracks alone.
Climate change, habitat loss and biodiversity declines underscore the need for better species monitoring.
But historically that has meant in-person surveys, live traps or recordings.
Through the emerging field of environmental DNA, or eDNA, scientists are learning to gather genetic material from oil, water or even air.
In this case, a happenstance sighting of bobcats in Florida led a scientist to sample soils from their paw prints and calibrate his findings with samples from the Jacksonville Zoo and Gardens.
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Scientists gather bobcat DNA from paw prints - KJZZ
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Discovering Fusions Requires More Than DNA Testing in GI Cancers – OncLive
Posted: at 9:18 pm
As targeted therapies in colorectal, gastroesophageal, biliary tract, and other gastrointestinal (GI) cancers continue to gain traction, and as additional therapeutic targets for novel agents emerge, consistently testing for biomarkers will be key to identifying more targetable alterations for novel therapeutics and determining which patients will benefit most from these therapies, according to E. Gabriela Chiorean, MD.
With the November 16, 2023, FDA approval of pembrolizumab (Keytruda) plus fluoropyrimidine- and platinum-based chemotherapy for the first-line treatment of adult patients with locally advanced unresectable or metastatic HER2-negative gastric or gastroesophageal junction (GEJ) adenocarcinoma,1 another immunotherapy option has joined nivolumab (Opdivo) in the treatment paradigm.2
When considering how to best incorporate recently approved agents into care, Chiorean explained that pembrolizumab plus fluoropyrimidine- and platinum-based chemotherapy adds to the immune checkpoint inhibitor data that investigators already have with nivolumab. The 2021 approval of nivolumab in combination with fluoropyrimidine- and platinum-containing chemotherapy for patients with advanced or metastatic gastric cancer, GEJ cancer, and esophageal adenocarcinoma was supported by findings from the phase 3 CheckMate 649 study (NCT02872116). Patients with a combined positive score (CPS) of at least 5 who received the combination experienced a statistically significant improvement vs chemotherapy alone in progression-free survival (HR, 0.68; 95% CI, 0.58-0.79; P< .0001) and overall survival (OS; HR 0.71; 95% CI, 0.61-0.83; P< .0001). Irrespective of CPS score, all patients receiving the combination achieved a statistically significant improvement vs chemotherapy alone in OS (HR, 0.80; 95% CI, 0.71-0.90; P=.0002).2
Nivolumab has been approved [by the FDA] for patients with HER2-negative gastroesophageal cancer [and its] mostly used for patients with [a] CPS of more than 5, Chiorean said in an interview with OncologyLive. Chiorean is a full professor of medicine at the University of Washington, clinical director of the GI Medical Oncology Program at Fred Hutchinson Cancer Center, and director of the Clinical Research GI Oncology Program at the University of Washington/Fred Hutchinson Cancer Center in Seattle.
Pembrolizumab has been approved irrespective of CPS, but we are very aware that the benefit is mostly for patients with a CPS higher than 1 or even higher than 10, she explained. Immunotherapies for advanced gastroesophageal cancers do apply for those with positive PD-L1 expression, whether its a CPS score more than 1, more than 5, or more than 10, depending on what immune checkpoint inhibitors we use.
As gene alterations become more prevalent therapeutic targets, DNA and RNA testing is of the upmost importance. Findings from a diagnostic study published in JAMA Oncology examining paired DNA and RNA sequencing of 43,524 individuals who underwent germline testing for hereditary cancer revealed that RNA evidence was necessary for the classification of 17.1% of pathogenic or likely pathogenic splicing variants. Additionally, 71.1% of existing splicing variants of uncertain significance were resolved by evidence from RNA tests. Investigators concluded that concurrent RNA and DNA sequencing improves detection of novel variants and classification of existing ones.3
Its exciting to apply these new therapeutics based on the targeted alterations that we findwe just have to test everybody, Chiorean said. We also have to be very careful to include both DNA testing as well as RNA testing because we may miss certain genetic alterations if we exclusively use DNA tests. There are RNA-based tests that can be more effective in finding genetic fusions, such as NRG1 fusions and RET fusions. These fusions are important because now we have agents targeting them.
Pralsetinib (Gavreto) and selpercatinib (Retevmo) are both targeted agents included in the National Comprehensive Cancer Network guidelines for the treatment of patients with unresectable and metastatic biliary tract cancers with RET fusions.4 Additionally, selpercatinib holds an indication for patients with locally advanced or metastatic solid tumors with RET fusions who have progressed on or following prior systemic treatment or who have no satisfactory alternative treatment options.5
We need to make sure we test [for] everythingmicrosatellite instability[MSI] status, tumor mutational burden, DNA, and RNAin order to discover all the possible targetable alterations of our patients, because there are more and more treatments available, both in clinical trials and with FDA approvals.... Every tumor needs to be sequenced and when its not available we need to test [for] these molecular abnormalities with liquid biopsies [and] with circulating tumor [ct]DNA, Chiorean said.
Approximately 50% of patients with colorectal cancer (CRC) will develop colorectal liver metastasesclinically heterogeneous lesions associated with poor prognosis.6,7 In a retrospective study conducted in China that examined the genomic alterations of CRC liver metastases in 144 patients using next-generation sequencing, investigators found that the most prevalent alterations were TP53 (83%), APC (69%), KRAS (43%), and SMAD4 (17%).7
We know that certain cancers are more likely to shed ctDNA in the bloodpancreatic cancer tends to be a cancer [that is] less positive [for] ctDNA, but in CRCs, especially in those with liver metastases, liquid biopsies are very useful, Chiorean said.
Shooting For The Stars With Biomarkers
Moreover, we are trying to conduct more tests regarding how we can declare whether the patient is immune competent vs not. How do we determine the immune microenvironment that could be more amenable to be targeted with immunotherapies or not? Chiorean asked. These are very new biomarkers, which are not genetic based; they are more [representative of] a profile having to do with a tumor microenvironment and the host that the patient represents. We are doing a lot of research in this arena in terms of finding new markers for immune therapeutics [and] for stroma-targeted therapies.
In addition to the GI biomarkers of HER2 overexpression, MSI-high status, and PD-L1 expression, emerging biomarkers include CLDN18.2, which is present in approximately 30% of gastric/GEJ cancers, and FGFR2, which is rarer and reported in approximately less than 10% of gastric cancers.8
In July 2023, the FDA granted priority review to the biologics license application seeking the approval of the first-in-class monoclonal antibody zolbetuximab for the first-line treatment of patients with locally advanced unresectable or metastatic HER2-negative gastric or GEJ adenocarcinoma and CLDN18.2-positive tumors.9
Additionally, in April 2021, the novel FGFR2 inhibitor bemarituzumab plus modified fluoropyrimidine, leucovorin, and oxaliplatin (mFOLFOX6) received breakthrough therapy designation from the FDA for the frontline treatment of patients withFGFR2b-overexpressing, HER2-negative metastatic and locally advanced gastric and GEJ adenocarcinoma following positive results from the phase 2 FIGHT study (NCT03694522).10 Bemarituzumab is currently under investigation with mFOLFOX6 in the phase 3 FORTITUDE-101 trial (NCT05052801) and with mFOLFOX6 and nivolumab in the phase 3 FORTITUDE-102 trial (NCT05111626).10
In addition, because [we can make] adoptive immunotherapies more active and reactive against the patients cancer using the patients human leukocyte antigen [HLA] testing, HLA testing is becoming more important. Knowing the proteins that present an antigen to the immune system such that patients may become able to participate in adoptive immunotherapy trials [is important]. Biomarkers are being extended beyond next-generation sequencing, Chiorean noted.
Chiorean noted that upcoming presentations at the 9th Annual School of Gastrointestinal Oncology (SOGO), which is scheduled to take place on February 24, 2024, in Los Angeles, California, will address these novel treatment options in addition to various aspects of multidisciplinary care, ranging from the nonoperative or operative management of stage IV CRC to using targeted [therapy] and/or immunotherapy in early-stage gastroesophageal as well as hepatobiliary cancers. [The treatment of patients with] hepatobiliary cancers is typically very multidisciplinary because it involves surgery, interventional radiology, radiation oncology, and medical oncology.
The American Cancer Society listed 11 regimens used to treat stage IV colon cancer in August 2023, noting that these were only some of the most commonly used regimens. Radiation and surgery were also cited as options in certain cases.11
A lot of debate exists in terms of managing stage IV CRC that has been resected, oligometastatic disease that has been resected, [and] the role of ctDNA. These sessions will be of huge interest [at SOGO 2024] in order to understand the players that have to be engaged in making treatment decisions for our patients, Chiorean said.
At SOGO 2024, sessions will include The Role of ctDNA in Colon Tumor Management presented by Sidharth R. Anand, MD, MBA, who is a medical oncologist and hematologist at UCLA Health in Los Angeles, California, and Management of Stage IV no evidence of disease [NED] CRC presented by Marwan G. Fakih, MD, who is a medical oncologist, professor in the Department of Medical Oncology & Therapeutics Research, associate director for Clinical Sciences, medical director of the Briskin Center for Clinical Research, division chief of GI Medical Oncology, and co-director of the Gastrointestinal Cancer Program, all at City of Hope in Duarte, California.
[We] are looking at the RAS inhibitors, pan-RAS inhibitors, [and] KRAS G12C inhibitors, both as monotherapy as well as in combination therapies, Chiorean noted. Certainly, were also looking at cancer vaccines [and] at oncolytic viruses. These are very exciting agents that may [become a part of] combination therapeutics with immune checkpoint inhibitors or even chemotherapies. Indeed, there are several classes of agents, both targeted as well as immune-based therapies, that are very exciting and I look forward to 2024 [to see] more, hopefully positive results.
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Discovering Fusions Requires More Than DNA Testing in GI Cancers - OncLive
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Largest-ever ocean DNA study uncovers mysteries of marine life – Earth.com
Posted: at 9:18 pm
The ocean, Earths largest habitat, remains largely unexplored, holding secrets to numerous unidentified species and microorganisms. Recent advancements in ocean DNA research have brought us closer to uncovering these mysteries.
The latest landmark in this journey is the creation of the KMAP Global Ocean Gene Catalog 1.0, a comprehensive database of marine microbial biodiversity.
Elisa Laiolo of the King Abdullah University of Science and Technology (KAUST) in Saudi Arabia, the lead author of the study, shares her excitement.
With over 317 million gene groups from marine organisms globally, the KMAP catalog represents a significant step towards understanding the oceans full diversity. Focusing on marine microbes, this catalog is pivotal for comprehending their influence on ocean health and Earths climate, Laiolo said.
This catalog is a gateway to endless possibilities. Prof Carlos Duarte, KAUST faculty member and the studys senior author, elaborates on its potential.
Hosted on the KAUST Metagenomic Analysis Platform (KMAP), this freely accessible catalog enables scientists to explore diverse ocean ecosystems, assess the effects of pollution and global warming, and even discover biotechnological applications like new antibiotics or methods to degrade plastics.
The quest to map marine biodiversity is centuries old, fraught with challenges, primarily due to the inability to study most marine organisms in a lab setting.
The advent of DNA sequencing technologies revolutionized this field, allowing for direct identification of organisms from ocean water and sediments.
Laiolo simplifies the process, saying, Each species has a unique gene set, enabling us to determine the organisms present in an ocean sample by analyzing its genetic material.
She credits two technological advancements for this large-scale achievement: the rapid development and reduced cost of DNA sequencing technologies, and the emergence of powerful computational and AI technologies.
The research team utilized KMAP to analyze DNA sequences from 2,102 ocean samples collected worldwide.
This cutting-edge computational effort identified 317.5 million gene groups, with over half classified by organism type and gene function.
By correlating this information with sample locations and habitat types, the catalog offers unprecedented insights into the distribution and roles of marine microbes.
This achievement underscores the essence of open science, Duarte remarks. The catalogs creation was possible due to global sailing expeditions for sample collection and the open-access sharing of DNA data. He emphasizes the ongoing collaborative efforts to keep this catalog freely available.
The KMAP catalog has already uncovered significant findings, like differences in microbial activity between the water column and ocean floor, and a notable presence of fungi in the mesopelagic twilight zone.
These discoveries aid in understanding how different habitats microbes shape ecosystems, contribute to ocean health, and affect the climate.
This catalog also serves as a crucial baseline for monitoring the impact of human activities, like pollution and global warming, on marine life. Its a treasure trove of genetic material, ripe for exploration in drug development, energy, and agriculture.
Laiolo highlights the need for continued ocean sampling, especially in under-studied areas like the deep sea. She points out that due to the oceans dynamic nature, the catalog will require regular updates.
However, Duarte warns of the catalogs uncertain future, citing international legislation on benefit-sharing from discoveries in international waters as a major hurdle.
The 2023 Treaty of the High Seas offers some solutions, but it might also hinder research by diminishing investment incentives. Resolving this uncertainty is crucial now that we have the tools for groundbreaking innovation in blue biotechnology, he concludes.
The KMAP Ocean Gene Catalog 1.0 is just the beginning. Its a first step towards developing a comprehensive atlas documenting every gene from every marine species worldwide, from bacteria and fungi to plants and animals.
In summary, as we continue to explore and understand the vast and complex ocean ecosystem, this catalog will be an indispensable resource, guiding us towards a deeper appreciation and better stewardship of our planets greatest natural resource.
The full study was published in the journal Frontiers in Science.
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1st-ever ancient case of Turner syndrome, with just 1 X chromosome instead of 2, found in ancient DNA – Livescience.com
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Roughly 2,500-year-old DNA has revealed the first ancient person on record with Turner syndrome, a genetic condition in which a person has just a single X chromosome rather than two, a new study finds.
The individual, who died when they were 18 to 22 years old, likely hadn't gone through puberty, an analysis of the bones revealed. A further investigation of the remains revealed that the individual had mosaic Turner syndrome, as some cells had just one X chromosome while others had two.
The research looked at historical DNA gathered in the Thousand Ancient British Genomes project a database of DNA being collected from skeletons in the U.K. The team identified a total of six people with sex chromosomal conditions, according to a study published Jan. 11 in the journal Communications Biology.
The researchers made the discoveries after developing a computational method to find atypical numbers of chromosomes in DNA from skeletons.
Related: Europeans' ancient ancestors passed down genes tied to multiple sclerosis, Alzheimer's risk
The individual with Turner syndrome, who died in the early Iron Age (750 to 400 B.C.) likely had a partially missing second X chromosome. This condition can often lead to symptoms and characteristics such as shorter-than-average height, cardiac defects and small or absent ovaries, leading to fertility issues.
Of the other five people with aneuploidies, or genetic disorders in which a person doesn't have 46 chromosomes,three individuals showed signs of Klinefelter syndrome a genetic condition in which a person has an XXY set of sex chromosomes. Of these three individuals, one died in the Iron Age (circa 750 B.C. to A.D. 43), one in the high Middle Ages (around A.D. 1050 to 1290) and one in the early 19th century. Klinefelter syndrome often stunts the growth of a person's testicles, leading to lower testosterone levels, lower muscle mass, less body hair and larger breast tissue than typical XY individuals.
The three skeletons identified with this condition were buried in ways typical for their times, according to the study, showing that "their burials did not reveal any differences in how they were perceived by their contemporaries," the researchers wrote.
Another male individual from the early medieval period (eighth century) had an extra Y sex chromosome, known as XYY syndrome. Most people who have XYY chromosomes have no physical features that are different than people with XY chromosomes, other than often being taller than average.
The researchers also identified a male infant from Iron Age Britain who had Down syndrome. This condition can result in neurodevelopmental problems, and identifying skeletons with the syndrome "can provide insights into care within ancient societies, as well as how people with these conditions, which have characteristic physical manifestations, were perceived by their peers," the researchers wrote in the study.
Although the number of people with chromosomal differences revealed in this study is small, the researchers' new method gives them the opportunity to observe genetic diversity to "provide another layer of information that can contribute to a more detailed reconstruction of the human past," they wrote in the study.
In particular, making it easier to study variations in sex chromosomes in ancient DNA can help move the field of skeletal analysis beyond binary sex estimations and into a more complex understanding of social gender.
"It is difficult to know an ancient individual's conception of their own gender identity, and gender norms in the past may not align with those of the present day," the researchers wrote in their study. "It is possible that an elevated proportion would have been seen to transgress gender boundaries."
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DNA Didn’t Match Marcellus Williams. Missouri May Fast-Track Execution Anyway. – The Intercept
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Felicia Anne Gayle Picus was found dead in her home, the victim of a vicious murder that devastated her family and rattled her neighbors in the gated community of University City, Missouri, just outside St. Louis. Police suspected a burglary gone wrong. The scene was replete with forensic evidence: There were bloody footprints and fingerprints, and the murder weapon a kitchen knife used to stab Picus was left lodged in her neck.
That detail caught the medical examiners attention. Weeks earlier, another woman had been stabbed to death just a couple of miles away, and the weapon was left in the victims body. Days after Picuss murder, the University City police chief told the St. Louis Post-Dispatch that investigators had identified a prime suspect, someone they said had been spotted in the area in recent weeks, whom they believed had killed before.
But whatever became of that lead is unclear. After Picuss family posted a $10,000 reward for information leading to the arrest and conviction of her killer, a jailhouse informant named Henry Cole came forward with a story about how his former cellmate, Marcellus Williams, had confessed to murdering Picus. Soon, police secured a second informant: Laura Asaro, Williamss former girlfriend, also told the cops that Williams was responsible for the killing. There were reasons to be wary of their stories. Both informants were facing prison time for unrelated crimes and stood to benefit. Many of the details they offered shifted over the course of questioning, while others did not match the crime. Nonetheless, Williams was charged with Picuss murder, convicted, and sentenced to death.
Questions about the investigation and Williamss guilt have only mounted in the years since the August 1998 crime. DNA testing on the murder weapon done years after his conviction revealed a partial male profile that could not have come from Williams. On the eve of Williamss scheduled execution in 2017, then-Missouri Gov. Eric Greitens intervened. He issued an executive order that triggered a rarely used provision of Missouri law, empaneling a board to review the evidence, including DNA, that jurors never heard about at trial.
While that review was ongoing for most of the last six years, the board never submitted a final report or recommendation to the governor, as the law requires. Instead, last June, Gov. Mike Parson announced that he was rescinding his predecessors order, effectively dissolving the panel that had been reinvestigating the case.
The question now is whether Missouri law allows the governor to simply disappear an ongoing investigation. Because the law has so rarely been used, its contours have never been fully litigated, prompting the Midwest Innocence Project, which represents Williams, to file a civil lawsuit seeking to invalidate Parsons order. The states attorney general balked, arguing that Williams was trying to usurp the governors independent clemency powers. The AG has asked the Missouri Supreme Court to toss the lawsuit and clear the way for Williamss execution.
Picus spent a decade as a reporter for the St. Louis Post-Dispatch, including on the crime beat, before leaving to focus on philanthropic endeavors. She was an ardent environmentalist and feminist: She persuaded the newspaper to adopt its first recycling program, and a former colleague recalled how shed advocated for using the term personhole instead of manhole in stories.
Diminutive in stature with long hair and a reported fondness for Birkenstocks, Picus was also a dedicated friend. She wrote hundreds of birthday and holiday cards each year the day she was killed, she had more than 30 handmade cards ready to mail. She was like a central switching system on the telephone company of life, a childhood friend and fellow journalist wrote in the Chicago Tribune.
The Post-Dispatch covered the search for Picuss killer as the months without an arrest wore on, publishing a detailed list of items police said had been stolen from her home, among them an old Apple laptop belonging to Picuss husband, Dan. But it wasnt until the $10,000 reward was posted that police secured statements from the informants, Cole and Asaro, claiming that Williams had confessed to the murder. Although the reward was supposed to be paid upon conviction, prosecutors encouraged Dan to pay Cole $5,000 upfront when it appeared that his cooperation might be flagging.
Cole and Asaro were the backbone of the prosecutions case at Williamss trial in the summer of 2001. The state painted a harrowing picture of the attack on Picus and cast Williams as a ruthless killer. There was no physical evidence, however, to back up the informants claims. Asaro claimed that Williams had scratches on his face the day of the murder, yet no foreign DNA was recovered from under Picuss fingernails. Cole said Williamss clothes were bloody and that hed stolen a shirt to cover the stains when he left Picuss house, yet no clothes were missing from the home. Bloody shoeprints found at the scene were a different size than Williamss feet. Fingerprints lifted by investigators were deemed unusable by the state and then destroyed before the defense had a chance to analyze them.
There was, however, the Apple laptop, which police ultimately recovered. According to Asaro, Williams gave his grandfathers neighbor the computer in exchange for crack cocaine. At trial, the man denied that account. Hed paid Williams for the laptop, he said. Williams told him that hed gotten the computer from Asaro and was selling it for her. Prosecutors objected to this testimony, so the jury never heard it. Asaro and the man who received the computer have since died.
Like Cole and Asaro, Williams had a rap sheet. Hed been sentenced to decades in prison for robbery and burglary by the time of the murder trial. According to the Post-Dispatch, the jury deliberated for less than 90 minutes, including lunch, before deciding that Williams should be sentenced to die for Picuss murder.
Marcellus Williams in an undated photo.
Attorneys for Williams sought to conduct DNA testing prior to his trial, but the circuit court judge refused. It wasnt until 2015 that Williams was granted permission to test the murder weapon, which revealed a male DNA profile that did not match Williams. Nonetheless, the Missouri Supreme Court dismissed the new evidence and set Williamss execution for August 22, 2017.
The Midwest Innocence Project turned to Greitens, asking that he halt the execution and convene a board of inquiry to investigate the case. On the day Williams was set to die, Greitens issued an executive order granting the request.
A five-member board would be set up to assess the credibility and weight of all evidence in the case, Greitenss order read. The board was given subpoena power and tasked with keeping the information it collected in strict confidence. The order required the board to make a final report and recommendation to the governor as to whether or not Williams should be executed or his sentence of death commuted.
Greitens appointed five retired judges to the investigation, and they got to work. In the years that followed, the Midwest Innocence Project provided the board with a host of information and suggestions for lines of inquiry continuing well after Greitens resigned amid a swirl of controversies the following year and Parson assumed office.
That is until Parson issued his own executive order on June 29, 2023, rescinding Greitenss order. While Parson acknowledged that his predecessor had required a report from the board of inquiry regarding its investigation, the governor made no mention of any findings.
This board was established nearly six years ago, and it is time to move forward, he said. We could stall and delay for another six years, deferring justice, leaving a victims family in limbo, and solving nothing. This administration wont do that.
In 1963, the Missouri legislature passed several criminal justice reforms, including one aimed at avoiding wrongful executions. The states constitution already empowered the governor to grant reprieves, commutations, and pardons, but lawmakers added new authorities, allowing the governor, in his discretion, to appoint a board of inquiry tasked with gathering information bearing on whether a person condemned to death should in fact be executed. Lawmakers set several specific parameters, including that the board shall issue a final report. The law passed that summer and has never been amended.
Although it has been on the books for 60 years, the provision has only been invoked three times, including in the Marcellus Williams case. In 1997, then-Gov. Mel Carnahan stayed the execution of William Boliek, who had been sentenced to die for murdering a witness to a robbery in Kansas City, and ordered a board of inquiry to look into the case. The board submitted its report to Carnahan, but the governor did not act on it before he was killed in a plane crash meaning the case was never resolved. The Missouri Supreme Court subsequently ruled that Carnahan was the only one who could lift the stay, meaning Boliek could never be executed. He remains on Missouris death row.
In an August 2023 civil lawsuit filed in Cole County, where the state capital is located, the Midwest Innocence Project drew on this history to argue that Parson had violated the law by dissolving Greitenss board before it had fulfilled its statutory duty to provide a report and recommendation in Williamss case.
Once the statute was triggered, the governor was bound to uphold its provisions. Parsons order prematurely dissolving the board exceeded the power granted to his office by the legislature some 60 years ago, the lawyers argued. All Mr. Williams is asking is for the board of inquiry to be able to complete its work and issue a report and recommendation, ensuring that at least one government entity finally hears all the evidence of his innocence, said Tricia Rojo Bushnell, the Midwest Innocence Projects executive director. Once the process is complete, Parson can do what he wants, she added. But until that time, Mr. Williams has a right to this process that was started by Gov. Greitens precisely out of the concern that Missouri may execute an innocent person.
Missouri Attorney General Andrew Bailey during a House Homeland Security Committee hearing on Jan. 10, 2024.
Attorney General Andrew Bailey sought to have the lawsuit dismissed outright, but in November, Circuit Court Judge S. Cotton Walker concluded that it should proceed. The statute didnt expressly give Parson the authority to dissolve the board, and Williams had an interest in the process playing out according to the law, he wrote. There is a fundamental difference between the governors authority to appoint a board in his discretion and the boards ongoing existence being discretionary.
Bailey appealed to the Missouri Supreme Court, arguing that the circuit court couldnt tell the governor what to do in matters of clemency. Since the board of inquiry statute references the governors constitutional powers over clemency, Bailey argued, interfering with his ability to dissolve the board was the same as interfering with his clemency powers. Williams was trying to use the court to hijack Parsons authority, he wrote.
The Midwest Innocence Project argued that Baileys position was a red herring: Williams was not looking to interfere with Parsons authority on matters of clemency; he was merely asking that the governor be required to follow the statute in his decision-making. To find otherwise would be violating the separation of powers in the other direction: allowing the governor to rewrite a decades-old act of the legislature. The governors position, the lawyers wrote, has it backward.
The governors clemency power exists for the public good, not his own, the defense brief reads. As a result, a board of inquiry serves the public, not the governor, and that board shall make a report and recommendation for the governors consideration before he makes a final clemency decision.
There is no timeline for the Missouri Supreme Court to rule.
Meanwhile, the Conviction and Incident Review Unit at the St. Louis County Prosecuting Attorneys Office has also reached out to the court, asking that it refrain from setting a date for Williamss execution for an initial period of six months. The office has also been investigating Williamss case and needs more time to decide whether it will seek to vacate his sentence on its own a power granted to state prosecutors under a newer, but also rarely used, Missouri law.
Marcellus Williams remains grateful to Greitens for staying his execution and invoking the board of inquiry statute. He told the Kansas City Star that he grew up basically like a typical misguided youth, bouncing in and out of juvenile detention. He had just started serving a 20-year sentence for robbing a doughnut shop when he was charged with Picuss killing. He knew he hadnt done it and said that despite his experience with the criminal justice system, he thought the mistake would be discovered and corrected. You still have this naivete right there that youre not really recognizing who youre up against.
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Ancient DNA From Eurasian Herders Sheds Light on the Origins of Multiple Sclerosis – Smithsonian Magazine
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Genes that significantly increase risk of developing multiple sclerosis were introduced to northwestern Europe by herders who migrated from the east around 5,000 years ago. SayoStudio
More than 1.8 million people around the world have the autoimmune disease multiple sclerosis (MS). The condition, in which a persons immune system attacks their brain and spinal cord, is most common in northern Europe, but researchers havent been entirely sure why.
A new study of ancient DNA, published Wednesday in the journal Nature, sheds light on this trend, suggesting herders who migrated to Europe from western Eurasia around 5,000 years ago carried genetic variants linked to MS. These variants grew in prevalence at the time and contribute to an increased risk for the disease today, the paper authors write.
This is a tour de force, Llus Quintana-Murci, a population geneticist at the Pasteur Institute in Paris who did not contribute to the findings, tells Nature News Sara Reardon.
The study accompanies three othernewpapers in Nature investigating ancient DNA in Europe and Asia. One of those found that genes linked to an increased risk for diabetes and Alzheimers disease were carried by hunter-gatherers.
Processes that were occurring many thousands of years ago are having these really pronounced and profound effects on the health and longevity of people in the present, Evan Irving-Pease, an author of all four of the studies and a population geneticist at the University of Copenhagen in Denmark, tells the Washington Posts Carolyn Y. Johnson.
Researchers explored this history by sequencing ancient genomes and comparing them to modern DNA. The team examined ancient DNA from bones and teeth dating to the Mesolithic period and Bronze Age, as well as new genomes collected from Medieval times. They studied this data against DNA from 410,000 white British people included in the modern U.K. Biobank.
Major migrations had a strong impact on genetic diversity in western Eurasia, the authors write. Hunter-gatherers entered the picture around 45,000 years ago, farmers came from the Middle East around 11,000 years ago and herders migrated from the Pontic Steppe, a grassland region in the Balkans and western Asia, around 5,000 years ago.
These herders, known as the Yamnaya, rode horses and drove ox-drawn carts, writes Science News Bruce Bower. And they buried their dead with gold and jewelry, per the New York Times Carl Zimmer. Most people in northern Europe today can trace their ancestry to this group.
The researchers found that variants linked to MS arose around 5,000 years ago in the Yamnaya, who spread their genes when they got to northern Europe. These variants increased in prevalence for the steppe population, and later, in the European population, which signaled to the scientists that that they might have provided an evolutionary advantage.
These variants that are causing the high risk of multiple sclerosis today must in the past have had a benefit, Eske Willerslev, a geneticist at the University of Copenhagen and a leader of the research, tells the New York Times.
Such variants could have helped ancient people fight off pathogens, the researchers theorize. The overly active immune system associated with multiple sclerosis could have actually been beneficial for surviving plagues, Willerslev tells Nature News. In particular, the MS-associated variants could have protected the Yamnaya herders against diseases carried by their horses, sheep, cattle and goats.
The situation today is different, because the diseases these variants originally provided protection against are no longer as big a problem as they likely were then, Lars Fugger, a co-author on the MS paper who studies the disease at the University of Oxford in the U.K., said at a news briefing, per Medpage Todays Judy George. Because in the intervening millennia, we have antibiotics, vaccinations and far, far higher standards of hygiene than people had thousands of years ago. The risk genes are now miscast in terms of their original biological role.
Previous studies have found a couple hundred common genetic variants that are linked to MS, and 30 percent of the risk for the disease is thought to come from genetic factors, the study authors write.
Samira Asgari, a computational biologist at the Icahn School of Medicine at Mount Sinai who was not involved in the research, tells the Washington Post the theory that the variants identified in the study protect against infection is reasonable. But she notes that its still a hypothesis.
Thats the part more research is needed to prove, Asgari tells the publication.
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Ancient DNA From Eurasian Herders Sheds Light on the Origins of Multiple Sclerosis - Smithsonian Magazine
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