ASHG and ESHG issue position statement on non-invasive prenatal screening

BETHESDA, MD, USA and VIENNA, AUSTRIA - Two of the world's largest professional societies of human geneticists have issued a joint position statement on the promise and challenges of non-invasive prenatal testing (NIPT), a new procedure to test blood drawn from pregnant mothers for Down syndrome and other chromosomal disorders in the fetus. The document addresses the current scope of and likely future improvements in NIPT technology, ways it may best fit with existing prenatal screening tools and protocols, options and priorities in its implementation, and associated social and ethical issues.

The statement, drafted by the Social Issues Committee of the American Society of Human Genetics (ASHG) and the Public and Professional Policy Committee of the European Society of Human Genetics (ESHG), was published online March 18 in the European Journal of Human Genetics.

Current prenatal screening protocols for common structural abnormalities in the chromosomes vary among countries and medical practices. Generally, though, pregnant women are offered a combined first-trimester screening (cFTS), a risk assessment test based on blood and ultrasound markers. Women who receive abnormal cFTS results undergo a second step of testing to confirm or deny whether the fetus has an abnormality such as Down syndrome. This second step involves invasive procedures, such as amniocentesis, that in 0.5-1% of cases may lead to a miscarriage.

One important drawback of cFTS is the high rate of false alarms that lead to invasive procedures that put pregnancies at risk when the fetus is actually chromosomally normal. The main benefit of NIPT, apart from a significantly higher detection rate, is that it dramatically lowers the false alarm rate from about 5% to about 0.2%, making prenatal screening more accurate and safe. This is achieved by analyzing fragments of DNA in maternal blood, some of which provides information about the fetus. The fact that this 'fetal DNA' actually derives from the placenta is one reason why NIPT is not fully reliable. An important implication of this is that women who receive an abnormal NIPT result should still be advised to confirm this result through a second step of testing if they are considering a termination of pregnancy, the statement authors write.

The authors explored the benefits and drawbacks of various ways to implement NIPT, such as adding it to the current two-step process or using it to replace cFTS. As NIPT is significantly more expensive, the cost per test would need to be reduced considerably for the latter option to be feasible in fully funded prenatal screening programs, they noted. They also considered implications of the technology, including pressures on women to undergo the test and act upon the results, and the loss of ultrasound data that would indicate fetal problems if that step is removed from the screening process.

"Throughout our discussion, we kept in mind that the goal of prenatal screening is to enable autonomous, informed reproductive choices by pregnant women and their partners, not to prevent the birth of children with specific abnormalities," said Yvonne Bombard, PhD, 2014 chair of the ASHG Social Issues Committee.

The two committees also addressed emerging advances in NIPT technology that would allow testing for additional genetic conditions, such as rare microdeletion syndromes and syndromes that interfere with sexual development. They noted that as NIPT grows to include more conditions - producing results of varying certainty - pre-test genetic counseling will become significantly more complex.

"Although there is no convincing ethical reason to limit NIPT to Down syndrome and a few other chromosomal abnormalities, we are concerned about prematurely expanding NIPT to include rare conditions for which the test may not be sufficiently validated, or of which the clinical implications may not be fully understood. For example, parents-to-be will have to make difficult choices about how to act upon abnormal results for such conditions," said Wybo Dondorp, PhD, first author of the statement.

"A related concern about prematurely expanding the scope of the test is that it will reverse the significant decrease in false alarms and subsequent need for follow-up diagnostic procedures, which has been regarded as the main gain of NIPT in prenatal screening", said Diana Bianchi, MD, a member of the ASHG Social Issues Committee and co-author on the statement.

The statement authors also considered the longer-term question of how extensive prenatal genetic screening should be, and emphasized the role of infrastructure in enabling responsible use of NIPT. Priorities included educating health professionals and the public about its benefits and limitations, promoting equal access despite cost issues, controlling the quality of pre-test counseling and laboratory practices, and systematically evaluating the whole process. In all, the two committees published ten recommendations for the broader implementation of NIPT, including suggested next steps.

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ASHG and ESHG issue position statement on non-invasive prenatal screening

Icelandic genome offers clues to human diversity, gene-disease links

Scientists who sequenced the entire genomes of 2,636 people in Iceland have produced a trove of information about the nature, location, and frequency of human genetic variations.

The new research not only sheds light on the range of human genetic variability; it helps equip researchers to draw more direct lines between genes and diseases.

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FOR THE RECORD

A previous version of this story said the director of the Genetic Variation Program at the National Human Genome Research Institute was Linda D. Brooks. She is Lisa D. Brooks.

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In a package of articles published Wednesday in the journal Nature Genetics, a private consortium of researchers found genetic abnormalities long thought to doom their host to early death to be more common than has been believed. They also discovered new genetic contributors to such varied afflictions as Alzheimer's disease, liver disease and atrial fibrillation.

The effort, underwritten by Amgen's DeCode Genetics, a biopharmaceutical company based in Reykjavik, Iceland, offers scientists insight to the human genome that will expand their ability to investigate the genetic bases of human diseases.

By sequencing the full genomes of more than 2,500 Icelanders and comparing the results with less extensive genotype data from more than 104,000 other Icelanders, the teams identified more than 20 million genetic variants in the Icelandic population.

They then cross-checked that information against Iceland's extensive genealogical and healthcare information records, which would document diagnoses, chronicle treatment response and allow researchers to see how a single disease might run through generations of a given family.

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Icelandic genome offers clues to human diversity, gene-disease links

Position statement on non-invasive prenatal screening issued

Two of the world's largest professional societies of human geneticists have issued a joint position statement on the promise and challenges of non-invasive prenatal testing (NIPT), a new procedure to test blood drawn from pregnant mothers for Down syndrome and other chromosomal disorders in the fetus. The document addresses the current scope of and likely future improvements in NIPT technology, ways it may best fit with existing prenatal screening tools and protocols, options and priorities in its implementation, and associated social and ethical issues.

The statement, drafted by the Social Issues Committee of the American Society of Human Genetics (ASHG) and the Public and Professional Policy Committee of the European Society of Human Genetics (ESHG), was published online March 18 in the European Journal of Human Genetics.

Current prenatal screening protocols for common structural abnormalities in the chromosomes vary among countries and medical practices. Generally, though, pregnant women are offered a combined first-trimester screening (cFTS), a risk assessment test based on blood and ultrasound markers. Women who receive abnormal cFTS results undergo a second step of testing to confirm or deny whether the fetus has an abnormality such as Down syndrome. This second step involves invasive procedures, such as amniocentesis, that in 0.5-1% of cases may lead to a miscarriage.

One important drawback of cFTS is the high rate of false alarms that lead to invasive procedures that put pregnancies at risk when the fetus is actually chromosomally normal. The main benefit of NIPT, apart from a significantly higher detection rate, is that it dramatically lowers the false alarm rate from about 5% to about 0.2%, making prenatal screening more accurate and safe. This is achieved by analyzing fragments of DNA in maternal blood, some of which provides information about the fetus. The fact that this 'fetal DNA' actually derives from the placenta is one reason why NIPT is not fully reliable. An important implication of this is that women who receive an abnormal NIPT result should still be advised to confirm this result through a second step of testing if they are considering a termination of pregnancy, the statement authors write.

The authors explored the benefits and drawbacks of various ways to implement NIPT, such as adding it to the current two-step process or using it to replace cFTS. As NIPT is significantly more expensive, the cost per test would need to be reduced considerably for the latter option to be feasible in fully funded prenatal screening programs, they noted. They also considered implications of the technology, including pressures on women to undergo the test and act upon the results, and the loss of ultrasound data that would indicate fetal problems if that step is removed from the screening process.

"Throughout our discussion, we kept in mind that the goal of prenatal screening is to enable autonomous, informed reproductive choices by pregnant women and their partners, not to prevent the birth of children with specific abnormalities," said Yvonne Bombard, PhD, 2014 chair of the ASHG Social Issues Committee.

The two committees also addressed emerging advances in NIPT technology that would allow testing for additional genetic conditions, such as rare microdeletion syndromes and syndromes that interfere with sexual development. They noted that as NIPT grows to include more conditions -- producing results of varying certainty -- pre-test genetic counseling will become significantly more complex.

"Although there is no convincing ethical reason to limit NIPT to Down syndrome and a few other chromosomal abnormalities, we are concerned about prematurely expanding NIPT to include rare conditions for which the test may not be sufficiently validated, or of which the clinical implications may not be fully understood. For example, parents-to-be will have to make difficult choices about how to act upon abnormal results for such conditions," said Wybo Dondorp, PhD, first author of the statement.

"A related concern about prematurely expanding the scope of the test is that it will reverse the significant decrease in false alarms and subsequent need for follow-up diagnostic procedures, which has been regarded as the main gain of NIPT in prenatal screening," said Diana Bianchi, MD, a member of the ASHG Social Issues Committee and co-author on the statement.

The statement authors also considered the longer-term question of how extensive prenatal genetic screening should be, and emphasized the role of infrastructure in enabling responsible use of NIPT. Priorities included educating health professionals and the public about its benefits and limitations, promoting equal access despite cost issues, controlling the quality of pre-test counseling and laboratory practices, and systematically evaluating the whole process. In all, the two committees published ten recommendations for the broader implementation of NIPT, including suggested next steps.

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Position statement on non-invasive prenatal screening issued

Landmark DNA study in Iceland reveals new insights into evolution and disease

Scientists sequenced largest ever set of genomes from a single nation The data reveals some surprising genetic mutations in Icelandic people Data also revealed that the father of humanity is older than first thought Eight per cent of the population has a gene that doesn't function at all Study found genes that increase the risk of Alzheimer's and liver disease Scientists say data will help them develop better treatments for disease

By Ellie Zolfagharifard For Dailymail.com

Published: 17:09 EST, 25 March 2015 | Updated: 03:19 EST, 26 March 2015

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In a genetic first, scientists have sequenced the largest ever set of human genomes from a single population.

The epic undertaking involved sequencing the DNA of 2,636 Icelanders and comparing them with the partial sequences of another 104,000.

Among several key finds, the data set suggests that the 'father of humanity' - our most recent common male ancestor - lived between 174,000 and 321,000 years ago.

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Landmark DNA study in Iceland reveals new insights into evolution and disease

Researchers find link between genetic variation and alcohol dependence

The discovery could help scientists develop more effective drugs to combat alcoholism

Virginia Commonwealth University School of Medicine researchers have discovered a biological clue that could help explain why some drinkers develop a dependence on alcohol and others do not.

The findings move researchers closer to identifying those at risk for addiction early and designing better drug treatments to help people stop drinking.

About 18 million people in the United States have an alcohol use disorder, according to National Institutes of Health statistics. The vast majority go untreated.

"There are few and inadequate pharmacological treatments to help people who want to stop drinking, because this is a terrifically difficult human genetics problem," said Jill C. Bettinger, Ph.D., associate professor in the Department of Pharmacology and Toxicology, VCU School of Medicine. "If we can better understand the molecular effects of alcohol, we can design more rational treatments and even warn people who are more susceptible to developing a dependence."

Bettinger is the senior author of a paper, "SWI/SNF Chromatin Remodeling Regulates Alcohol Response Behaviors in Caenorhabditis Elegans and is Associated With Alcohol Dependence in Humans," published Feb. 23 in the journal Proceedings of the National Academy of Sciences.

The paper describes how researchers examined the role of a protein complex -- called switching defective/sucrose nonfermenting (SWI/SNF) -- in determining the behavioral response of roundworms to alcohol.

Researchers watched through microscopes as the tiny worms became drunk on ethanol, studying how their initial sensitivity to the alcohol and tolerance changed based on which genes were expressed within the SWI/SNF complex.

Because humans and worms have a similar genetic makeup, Bettinger then turned to Brien P. Riley, Ph.D., associate professor in the Departments of Psychiatry and Human and Molecular Genetics at VCU School of Medicine and co-author of the recently published paper. Riley is director of the Molecular Genetics Lab at the Virginia Institute for Psychiatric and Behavioral Genetics, where researchers have been studying the human genome and its relationship to the risk of illness or other traits.

Riley found that naturally occurring genetic variations in the same SWI/SNF complex so crucial to a worm's tolerance were also associated with alcohol dependence in humans. Unlike Huntington's and other diseases, which can be linked to a mutation in a single gene, the evidence suggests that the likelihood to develop alcoholism is the product of mutations in many genes, each with small effect. The SWI/SNF complex genes represent a piece of that puzzle.

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Researchers find link between genetic variation and alcohol dependence

Dr. Luria, Mori and Robak receive Pfizer/ACMG Foundation Translational Genomic Fellowship Award

Anne O'Donnell Luria, M.D., Ph.D., Boston Children's Hospital; Mari Mori, M.D., Duke University; Laurie Robak M.D., Ph.D., Baylor College of Medicine receive Pfizer/ACMG Foundation Clinical Genetics Combined Residency for Translational Genomic Scholars Aw

Anne O'Donnell Luria, MD, PhD, of Boston Children's Hospital, Mari Mori, MD of Duke University, and Laurie Robak MD, PhD of Baylor College of Medicine were honored as the 2015-2016 recipients of the Pfizer/ACMG Foundation Clinical Genetics Combined Residency for Translational Genomic Scholars Fellowship Award at the ACMG 2015 Annual Clinical Genetics Meeting in Salt Lake City, Utah.

The objective of this fellowship is to provide an in-depth clinical research training experience at a premier medical center with expertise and significant clinical volume in the area of biochemical genetics, including lysosomal storage diseases, as well as in therapeutics and clinical trials involving patients with these and other metabolic diseases and, thereby, to increase the number of medical geneticists with interest, knowledge, and expertise in this area.

This Award grants $75,000 per year to the three recipients selected by the ACMG Foundation through a competitive process and will provide for the sponsorship of one year of the trainee's clinical genetics subspecialty in translational genomics following residency.

Dr. O'Donnell Luria received her MD and PhD at Columbia University, New York, and is currently completing a combined residency in Pediatrics and Medical Genetics at Boston Children's Hospital, Boston MA. "I am honored to receive the Pfizer/ACMG Foundation Translational Genomics Scholars Fellowship Award. I appreciate the support from Pfizer and the ACMG Foundation to gain additional training in biochemical genetics. I am grateful for the excellent training environment provided by wonderful clinicians, staff, and families that I have had the pleasure to work and train with at Harvard Medical School, Boston Children's Hospital, and Massachusetts General Hospital. This fellowship supports my efforts to begin a research program looking at transcriptional and epigenetic variation in lysosomal storage disease, with an aim of identifying new biomarkers of disease and potential therapeutic targets." Her research during the award period will focus on diagnosis and management of infants, children and adults with inborn errors of metabolism and the impact of epigenetic alterations.

Dr. Mori received her MD at Nagasaki University School of Medicine, Nagasaki, Japan, and MS in Biomedical Informatics at University of Pittsburgh, Pittsburgh PA. She is currently completing her Medical Biochemical Genetics Fellowship at Duke University Medical Center, Durham, NC, after completing a General Genetics Residency at Nationwide Children's Hospital/Ohio State University in Columbus, OH. Her research during the award period will focus on the identification of modifier genes from carefully phenotyped patients with Pompe disease at Duke University Medical Center. "I am deeply honored to be one of the recipients of the Pfizer/ACMG Foundation award. The award allows me to extend my biochemical genetics training to investigate factors that affect variable phenotypes of Pompe disease, under the guidance of Dr. Priya Kishnani, Professor of Pediatrics Division Chief, Medical Genetics at Duke University. The research would lead to a better understanding of prognostication of rare Mendelian diseases, and would have clinical impacts, especially for asymptomatic patients with a lysosomal disease detected by newborn screening."

Dr. Robak received her MD and PhD at University of Rochester, Rochester NY, and is currently completing her combined residency in Pediatrics and Medical Genetics at Baylor College of Medicine. Her research during the award period will focus on exploring the links between Lysosomal Storage Disorders and Parkinson 's disease at Baylor College of Medicine. "I am honored to be a recipient of the 2015 Pfizer/ACMG Foundation Fellowship Award. This June, I will be completing my combined Pediatrics/Medical Genetics residency at Baylor College of Medicine. This prestigious award will allow me to continue my research investigating potential links between lysosomal storage disorders and adult-onset neurodegenerative disorders. My project will be under the guidance of Dr. Joshua Shulman, Assistant Professor of Neurology and Molecular & Human Genetics at Baylor College of Medicine. By providing critical support during my transition from residency to junior faculty, this fellowship will promote my successful career development as a physician-scientist."

"With all of the advances in genomics, the Pfizer/ACMG Foundation Clinical Genetics Combined Residency for Translational Genomic Scholars presents an important opportunity to develop new approaches to diagnosis and treatment of genetic disorders. This fellowship is therefore a key component of our initiative to train physician scientists to be leaders in translational research in medical genomics," said Bruce R. Korf, MD, PhD, FACMG, president of the ACMG Foundation.

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Note to editors: To arrange interviews with experts in medical genetics, contact Kathy Beal, MBA, ACMG Director of Public Relations at kbeal@acmg.net or 301-238-4582.

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Dr. Luria, Mori and Robak receive Pfizer/ACMG Foundation Translational Genomic Fellowship Award

Quei "21 Pensieri" sulla Giornata per i Down

Si celebra oggi la decima Giornata mondiale della sindrome di Down. Una data, il 21 marzo, che non stata scelta a caso visto che la sindrome nota anche come Trisomia 21. A scoprirla e a darle questo nome fu il genetista, pediatra e attivista francese Jrme Lejeune (19261994), proclamato servo di Dio dalla Chiesa cattolica. I suoi "21 Pensieri", che vi riproponiamo di seguito in inglese, con la promessa di tradurli presto, sono una manifesto in difesa della vita e della persona umana.

1. Human genetics can be summarized in this basic creed: In the beginning is the message, and the message is in life, and the message is life. And if the message is a human message, then the life is a human life.

2. Life has a very long history, but each of us has a very definite beginningthe moment of conception.

3. A month after conception, a human being is one-sixth of an inch long. The tiny heart has already been beating for a week, and the arms, legs, head and brain have already begun to take shape. At two months, the child would fit into a walnut shell: Curled up, she measures a little more than an inch long. Inside your closed fist, she would be invisible, and you could crush her without meaning toeven without noticing. But if you open your hand, she is virtually complete, with hands, feet, head, internal organs, brain, everything in place. All she needs to do is grow. Look even more closely with a standard microscope, and you'll be able to make out her fingerprints. Everything needed to establish her identity is already in place.

4. Hate the disease, love the patient: That is the practice of medicine.

5. Again and again we see this absolute misconception of trying to defeat a disease by eliminating the patient! It's ridiculous to stand beside a patient and solemnly say, Who is this upstart who refuses to be cured? How dare he resist our art? Let's get rid of him! Medicine becomes mad science when it attacks the patient instead of fighting the disease. We must always be on the patient's side, always.

6. When parents are worried about a sick child, we have no right to make them waitnot even one nightif we can do otherwise.

7. Either we will cure them of their innocence, or there will be a new massacre of the innocents.

8. I see only one way left to save them, and that is to cure them. The task is immensebut so is Hope.

9. We will beat this disease. It's inconceivable that we won't. It will take much less intellectual effort than sending a man to the Moon.

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Quei "21 Pensieri" sulla Giornata per i Down

Chromosome shattering may be a hidden cause of birth defects

IMAGE:This is a diagram of chromosome shattering. view more

Credit: Mirjam de Pagter

The human genome can be very forgiving. When children inherit chromosomes from their parents, some minor genetic changes frequently occur with few, if any, consequences. One exception, as researchers report in the March 19 issue of the American Journal of Human Genetics, is chromosomal shattering, termed chromothripsis, which the authors found in healthy mothers who had each given birth to a severely affected child. The findings could have important implications for genetic testing and issues related to infertility.

"Our study shows that despite its dramatic effects on chromosomal architecture, chromothripsis--which involves shattering of one or multiple chromosomes followed by random reassembly--does not necessarily lead to disease," says senior author Wigard Kloosterman, PhD, of University Medical Center Utrecht, in The Netherlands. "However, the presence of this phenomenon in healthy individuals impacts reproduction by leading to difficulties getting pregnant, miscarriages, and the birth of children with multiple birth defects, including intellectual disability."

Dr. Kloosterman and his team studied three families whose children suffer from multiple abnormalities due to chromothripsis that they inherited from their mothers. Although the children's mothers were unaffected or only mildly affected, the women's genomes harbored even more genome breakage than their children's. Two of the mothers had experienced prior difficulties with getting pregnant, which was probably associated with their complex genomic rearrangements.

Although these results highlight the amazing ability of the human genome to tolerate gene disruption, they also indicate that chromothripsis can impact female reproduction and should be considered during counseling of couples dealing with infertility.

Dr. Kloosterman noted that it is difficult to estimate the frequency of chromothripsis in the general population, and many of the commonly used analytical techniques lack the resolution to detect it to its full extent. The chromothripsis in the three mothers in this study was balanced, meaning that there were no deletions or duplications (changes in the number of copies of a gene) of any of the genes that were rearranged. Two children inherited only a subset, rather than all, chromothripsis chromosomes from their mother. In the third family, an additional rearrangement occurred during chromosome transfer to the child. In all three children, the alterations resulted in deletions and duplications of chromosomal regions, which most likely explains the children's birth defects.

"If one would solely perform currently widely used array-based diagnostic tests for detecting the number of copies of a gene in these families, one would only detect the genomic defects in the children but fail to detect the changes in the mother," said Dr. Kloosterman. "This would lead to a substantial underestimation of the recurrence risk for future pregnancies." Therefore, it is important to use a combination of genetic screening techniques, preferably whole-genome sequencing, in certain cases, he explained.

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This research was supported by the Child Health priority program from the University Medical Center Utrecht.

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Chromosome shattering may be a hidden cause of birth defects

Study: Wealth and power key to men's genetic success

For decades, evolutionists have believed that when it comes to human reproduction, it's a case of survival of the fittest. However a new study into human genetics actually shows that wealth and power play an even stronger role.

AUT Professor Steve Pointing says in the last few thousand years, brawn's role in deciding which men pass down their genes is becoming less important.

"If a particular organism has favourable traits for environment, it will pass on more of its genes and have more offspring than if you have less favourable traits," he explained on Firstline this morning.

"But there's growing evidence now that in humans, the reverse is true we're actually dictating evolution because the wealth and power aspect of our society is actually driving evolution of our species."

The research, conducted by Arizona State University, looked at the Y chromosome of 500 men worldwide. They found that between 4000 and 8000 years ago, there was a bottleneck in genetic diversity for males.

At the same time, female genetic diversity was increasing rapidly implying at the time, only a few men were mating with many women.

"The smoking gun for that is the change from a nomadic, hunter-gatherer society to a more agrarian society, where we know wealth and power become concentrated in fewer individuals."

The findings are concerning for the future of the human race, because any loss in genetic diversity is "bad news".

"It means that as a species we become more susceptible to catastrophic diseases and events," says Prof Pointing.

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Study: Wealth and power key to men's genetic success

JKH partners Colombo Unis HGU to sequence rice variety genome

The Human Genetics Unit (HGU) of the Colombo Medicine Faculty together with John Keells Research (JKR), a unit established by John Keells Holdings to carryout futuristic scientific research, announced the successful sequencing of the entire genome of goda vee - an indigenous rice variety. This is the first time that such a feat in the field of science was achieved within the country in Sri Lanka.

Sequencing of goda vee was done in the only genome sequencing facility in Sri Lanka located at the HGU. Prof. Vajira H. W. Dissanayake, a member of the National Biotechnology Council of the Coordinating Secretariat for Science Technology and Innovation (COSTI) as well as the Biotechnology Committee of the National Science Foundation (NSF) said this is a unique milestone in the annals of science and technology in Sri Lanka.

We have proved that Sri Lanka now has the capability to protect and preserve our biodiversity within the country. This will also open opportunities for Sri Lanka to build a new wave of scientific enterprise based on local knowledge and innovation creating wealth for the country. That would in turn create new job opportunities for Sri Lankan science graduates, most of whom now leave the country or leave science and join other fields due to lack of scientific jobs.

John Keells Research Head Dr. Muditha D. Senarath Yapa said JKR is proud to be a part of this nationally important milestone which opens the door to many futuristic commercial applications. This proves the ability of Sri Lankan scientists to carryout groundbreaking research which can contribute to national development.

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JKH partners Colombo Unis HGU to sequence rice variety genome

Sewage testing can predict obesity rates

Escherichia coli at 10,000x magnification Roger Pickup, Professor of Environment and Human Health at Lancaster University for The Conversation 2015-03-10 20:45:46 UTC

We are all populated by microbes helpful or otherwise which form a community known as a microbiome. Recent research by Ryan Newton and co-workers has shown that sewage-based analysis of the human microbiome can be used to diagnose health issues at a population level.

Large-scale monitoring of human populations and their activities takes many forms, from satellite imagery to censuses, providing data that can inform future policies. At this scale, we can collect and store data to assess the health of a nation. Projects such as BiobankUK and the 100,000 genomes project aim to fully describe human genetics and health at the cellular and molecular level, whilst revealing information at an individual and population level. This will result in the creation of a UK disease map, possibly linked to genetic information and factors that significantly affect health.

These projects focus on the human genome yet we are not just human. Each of us is populated by microbes: bacteria, viruses, fungi and protozoa. Bacterial cells alone outnumber our own by a factor of 20. No one has estimated the number of viruses, but we expect between ten and a hundred times more than the bacteria. In the body, microbial genes outnumber human genes by a factor of 200.

We are now able to look not only at the numbers of microbes in the body, but can also find out what they are and determine their functions. DNA sequencing on very large scales indicates which bacteria dominate different environments and different processes. This sequencing defines the identity of the microbes. When targeted correctly, it can also define function at a molecular level. This is particularly useful in describing the human microbiome and its value to human health.

The microbes that form our microbiome provide protection against disease, top up our immune system, help metabolise our food into simpler more useful compounds and provide some essential nutrients such as vitamin K. The genetic profile of bacteria in faeces provides individual microbial fingerprints. This shows that the microbiome in all humans has a shared essential microbial function whilst having some variability in its microbial composition.

Gut microbes also vary with progressing age, dietary changes, disease states and across differing human populations. Changes in the diversity of the microbiome are associated with certain chronic illnesses such as inflammatory bowel disease. By looking at the microbial profiles of bacteria in the colon we can even show a difference between people with Crohn's disease and irritable bowel syndrome compared to people with ulcerative colitis.

This type of diagonistic analysis has now been taken a step further. Whilst recognising that faeces are a proxy for the gut microbiome within and among human population, Ryan Newton and co-workers examined sewage samples and compared them to human faecal samples. They showed that sewage effluent accurately reflects a composite faecal microbiome from human populations not only at an individual level but over different demographic scales city, country, or continent using 71 cities in the USA as a sampling ground.

Among the core set of organisms detected, significant variation was seen at a population level rather than at an individual level. This variation clustered into three primary community structures distinguished from different groups of microbes: Bacteroidaceae, Prevotellaceae, or Lachnospiraceae/Ruminococcaceae. These distribution patterns reflected human population variation and even predicted whether samples represented lean or obese populations with 81 to 89% accuracy.

So why not just observe the "fat and lean" by sitting at a busy railway station in disguise rather than extract the bacteria from sewage? Well, not everyone in the population will pass the detective's observation point but almost all will submit their sample to the sewer, to be subjected to sewage molecular "satellite" imagery. And sewage can be used to analyse many more health issues than simply the weight of the population.

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Sewage testing can predict obesity rates

New genetic syndrome found, tied to errors in 'master switch' during early development

IMAGE:Dr. Ian D. Krantz is the co-director of the Individualized Medical Genetics Center at The Children's Hospital of Philadelphia. view more

Credit: The Children's Hospital of Philadelphia

Analyzing a puzzling multisystem disorder in three children, genetic experts have identified a new syndrome, shedding light on key biological processes during human development. The research also provides important information to help caregivers manage the disorder, and may offer clues to eventually treating it.

"This syndrome illuminates a very important pathway in early human development--a sort of master switch that controls many other genes," said study leader Ian D. Krantz, M.D., co-director of the Individualized Medical Genetics Center at The Children's Hospital of Philadelphia (CHOP). Krantz, a medical geneticist, is an attending physician in CHOP's comprehensive human genetics program.

Krantz is the senior author of the study, published online today in Nature Genetics. His co-study leader is Katsuhiko Shirahige, Ph.D., of the Institute for Molecular and Cellular Biosciences, University of Tokyo, also the home institution of first author Kosuke Izumi.

The investigators named the disorder CHOPS syndrome, with the acronym representing a group of symptoms seen in the affected children: cognitive impairment and coarse facies (facial features), heart defects, obesity, pulmonary involvement, short stature and skeletal dysplasia (abnormal bone development).

The central research finding is that mutations in the gene AFF4 disrupt a crucial group of proteins called the super elongation complex (SEC). The SEC controls the transcription process by which DNA is copied into RNA, enabling genes to be expressed in a developing embryo. The timing of this biological process is tightly regulated, so anything that interferes with this timing can disturb normal development in a variety of ways.

"Because the SEC involves such a crucial process in cell biology, it has long been a focus of study, particularly in cancer," said Krantz. "CHOPS syndrome is the first example of a human developmental disorder caused by germline mutations in the SEC."

Originating in the embryo, germline mutations are passed along to every cell in a developing organism, with harmful effects in multiple organs and biological systems. The mutated AFF4 gene produces mutated proteins, which then accumulate and cause a cascade of abnormalities in other genes controlled by AFF4.

"AFF4 has a critical role in human development, regulating so many other genes," said Krantz. "When it is mutated, it can damage the heart and skeleton, and lead to intellectual disability, among other effects."

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New genetic syndrome found, tied to errors in 'master switch' during early development

ASHG and ReachMD launch educational series on genetics and genomics

'Genetically Speaking' series showcases research findings, technological advances, and applications of human genetics in the evaluation, diagnosis, and treatment of health conditions

BETHESDA, MD and Fort Washington, PA - The American Society of Human Genetics (ASHG) and ReachMD announced today the launch of 'Genetically Speaking', a series of audio interviews designed to educate healthcare professionals on the application of human genetics in disease prevention and management.

The series features peer-to-peer interviews conducted during the ASHG 2014 Annual Meeting and includes topics such as:

"One of our primary goals at ASHG is to develop a healthcare workforce that is genetics-literate and capable of interpreting and applying information in clinical practice," said Joseph D. McInerney, MA, MS, Executive Vice President of ASHG. "We are excited to team up with ReachMD to produce and deliver peer-to-peer programming to healthcare professionals nationwide."

'Genetically Speaking' is co-produced by ASHG and ReachMD and broadcast on ReachMD's integrated online, mobile, and on air content distribution network. Content is accessible both on demand and through 24/7 radio streaming on ReachMD, iHeartRadio, TuneIn, and iTunes digital platforms.

"This series is an excellent addition to the ReachMD lineup," said Matt Birnholz, MD, Vice President and Medical Director of ReachMD. "Our users love cutting-edge programming, and the scientific and medical experts on this series really showcase the latest research and the applications of genetics in disease prevention and management."

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Link to 'Genetically Speaking': https://reachmd.com/programs/genetically-speaking/

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ASHG and ReachMD launch educational series on genetics and genomics