Genetic Predisposition of Atherosclerotic Cardiovascular Disease in Ancient Human Rem - Printable Version +- The GenArchivist Forum (https://genarchivist.com) +-- Forum: Human Population Genetics (https://genarchivist.com/forumdisplay.php?fid=21) +--- Forum: Ancient (aDNA) (https://genarchivist.com/forumdisplay.php?fid=181) +--- Thread: Genetic Predisposition of Atherosclerotic Cardiovascular Disease in Ancient Human Rem (/showthread.php?tid=688) Pages:
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Genetic Predisposition of Atherosclerotic Cardiovascular Disease in Ancient Human Rem - teepean - 03-31-2024 Genetic Predisposition of Atherosclerotic Cardiovascular Disease in Ancient Human Remains Abstract Background: Several computed tomographic studies have shown the presence of atherosclerosis in ancient human remains. However, while it is important to understand the development of atherosclerotic cardiovascular disease (ASCVD), genetic data concerning the prevalence of the disease-associated single nucleotide polymorphisms (SNPs) in our ancestors are scarce. Objective: For a better understanding of the role of genetics in the evolution of ASCVD, we applied an enrichment capture sequencing approach to mummified human remains from different geographic regions and time periods. Methods: Twenty-two mummified individuals were analyzed for their genetic predisposition of ASCVD. Next-generation sequencing methods were applied to ancient DNA (aDNA) samples, including a novel enrichment approach specifically designed to capture SNPs associated with ASCVD in genome-wide association studies of modern humans. Findings: Five out of 22 ancient individuals passed all filter steps for calculating a weighted polygenic risk score (PRS) based on 87 SNPs in 56 genes. PRSs were correlated to scores obtained from contemporary people from around the world and cover their complete range. The genetic results of the ancient individuals reflect their phenotypic results, given that the only two mummies showing calcified atherosclerotic arterial plaques on computed tomography scans are the ones exhibiting the highest calculated PRSs. Conclusions: These data show that alleles associated with ASCVD have been widespread for at least 5,000 years. Despite some limitations due to the nature of aDNA, our approach has the potential to lead to a better understanding of the interaction between environmental and genetic influences on the development of ASCVD. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10809863/ RE: Genetic Predisposition of Atherosclerotic Cardiovascular Disease in Ancient Human Rem - teepean - 03-31-2024 Looks like several Egyptian mummies were sampled. Code: Australia Queensland 1904 AD RE: Genetic Predisposition of Atherosclerotic Cardiovascular Disease in Ancient Human Rem - ionix - 03-31-2024 The Bam & Fastq are available https://www.ebi.ac.uk/ena/browser/view/PRJEB62880 But it's difficult to extract any useful autosomal SNPs, most likely because the capture process targeted only some specific SNPs associated with atherosclerotic cardiovascular disease (ASCVD) Quote:Methods: Twenty-two mummified individuals were analyzed for their genetic predisposition of ASCVD. Next-generation sequencing methods were applied to ancient DNA (aDNA) samples, including a novel enrichment approach specifically designed to capture SNPs associated with ASCVD in genome-wide association studies of modern humans. Most of the Y-chr results of the Egyptian mummies are under R1b (which is questionable) RE: Genetic Predisposition of Atherosclerotic Cardiovascular Disease in Ancient Human Rem - Typic - 03-31-2024 (03-31-2024, 02:29 PM)ionix Wrote: It is difficult to extract any useful autosomal SNPs, most likely because the capture process targeted only some specific SNPs associated with atherosclerotic cardiovascular disease (ASCVD)Is there the presence of the Chadic R1b in Egypt? RE: Genetic Predisposition of Atherosclerotic Cardiovascular Disease in Ancient Human Rem - teepean - 03-31-2024 (03-31-2024, 02:29 PM)ionix Wrote: It's difficult to extract any useful autosomal SNPs, most likely because the capture process targeted only some specific SNPs associated with atherosclerotic cardiovascular disease (ASCVD) They used shotgun as well. RE: Genetic Predisposition of Atherosclerotic Cardiovascular Disease in Ancient Human Rem - Southpaw - 03-31-2024 (03-31-2024, 02:29 PM)ionix Wrote: Most of the Y-chr results of the Egyptian mummies are under R1b (which is questionable) Old Kingdom Egyptian samples are mostly E-M35 according to reliable leaks both from eurogenes blog/athrogenica the same guy who leaked Etruscans were mostly R1b. RE: Genetic Predisposition of Atherosclerotic Cardiovascular Disease in Ancient Human Rem - ilabv - 04-01-2024 Aligning them now, will send to Davidski no later than tomorrow. Many are very low quality so keep expectations in check RE: Genetic Predisposition of Atherosclerotic Cardiovascular Disease in Ancient Human Rem - James100 - 04-02-2024 (04-01-2024, 01:52 AM)ilabv Wrote: Aligning them now, will send to Davidski no later than tomorrow. Many are very low quality so keep expectations in check Any idea how long it might take? RE: Genetic Predisposition of Atherosclerotic Cardiovascular Disease in Ancient Human Rem - Hodo Scariti - 04-02-2024 (03-31-2024, 02:29 PM)ionix Wrote: The Bam & Fastq are available Possibly, are they female? RE: Genetic Predisposition of Atherosclerotic Cardiovascular Disease in Ancient Human Rem - James100 - 04-02-2024 Apparently they're contaminated European samples? https://twitter.com/MiroCyo/status/1774967169706860594 What is going on? RE: Genetic Predisposition of Atherosclerotic Cardiovascular Disease in Ancient Human Rem - Capsian20 - 04-02-2024 (04-02-2024, 06:25 PM)James100 Wrote: Apparently they're contaminated European samples? this samples its back a era byzantine RE: Genetic Predisposition of Atherosclerotic Cardiovascular Disease in Ancient Human Rem - Capsian20 - 04-02-2024 (04-02-2024, 05:22 PM)Hodo Scariti Wrote:(03-31-2024, 02:29 PM)ionix Wrote: The Bam & Fastq are available very likely they are female , maybe @teepean have info RE: Genetic Predisposition of Atherosclerotic Cardiovascular Disease in Ancient Human Rem - teepean - 04-02-2024 (04-02-2024, 06:59 PM)Capsian20 Wrote:(04-02-2024, 05:22 PM)Hodo Scariti Wrote:(03-31-2024, 02:29 PM)ionix Wrote: The Bam & Fastq are available Supplementary data has info about the sex. RE: Genetic Predisposition of Atherosclerotic Cardiovascular Disease in Ancient Human Rem - Capitalis - 04-02-2024 (04-02-2024, 06:25 PM)James100 Wrote: Apparently they're contaminated European samples? Thanks for the laughs: Quote:Well what do ya know: "The analyses were performed in the ancient DNA Laboratory of the Eurac Research Institute for Mummy Studies–a special DNA Laboratory in Bolzano (Italy)" RE: Genetic Predisposition of Atherosclerotic Cardiovascular Disease in Ancient Human Rem - ilabv - 04-02-2024 Yes, they are useless. I've posted them somewhere else. Clearly contaminated, GEDmatch implied so as well. |