Human population variation mesmerises me! #population #genetics

Joined November 2023
Our article describing the "Proto-Dravidian" ancestry is now peer-reviewed and published in @ejhg_journal There are several updates in the final version. You can read the full article using this link: rdcu.be/eMzZy #protodravidian #dravidian #ancientcivilizations #IVC
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Why does India's national research agency, the ANRF, need to request donations from non-governmental sources? Instead, let those sources fund research independently so that even researchers without permanent positions have a chance to secure grants!
𝗔𝗡𝗥𝗙 𝗟𝗮𝘂𝗻𝗰𝗵𝗲𝘀 𝘁𝗵𝗲 𝗗𝗼𝗻𝗮𝘁𝗲 𝘁𝗼 𝗔𝗡𝗥𝗙 𝗣𝗼𝗿𝘁𝗮𝗹! Listen to Dr. @shivkuma_k as he introduces the Donate to ANRF portal! 🔗 𝗩𝗶𝘀𝗶𝘁 𝘁𝗵𝗲 𝗗𝗼𝗻𝗮𝘁𝗲 𝘁𝗼 𝗔𝗡𝗥𝗙 𝗽𝗼𝗿𝘁𝗮𝗹 — 𝗹𝗶𝗻𝗸 𝗶𝗻 𝗰𝗼𝗺𝗺𝗲𝗻𝘁𝘀.
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Jaison J Sequeira retweeted
Paternal lineages in Northwest China changed gradually over time. Bronze Age Xinjiang populations were largely dominated by Xiaohe-related local lineages or western steppe herder lineages, while Iron Age and later populations showed increasing paternal contributions from East Asian farmers, eastern steppe pastoralists, and Southwest/Central Asian farmers. Modern Altaic–speaking populations showed strong paternal continuity with Iron Age ancestry, and northwestern Han displayed a west-to-east gradient of paternal lineages.
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Jaison J Sequeira retweeted
Some genetic models (qpAdm, qpGraph, and f4-stats) on Australo-Papuan groups (Oceanians); – and its implications for the wider Paleolithic Eurasian demographic patterns... Broadly speaking, Australo-Papuans derive most of their ancestry from an "eastern non-African" branch:
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If a grant requires a permanent position, stop calling it "Early Career". ECRs are fighting for stability. True early-career grants should also help researchers secure a stable position, along with rewarding those who already have one. #research #funding #grants
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Jaison J Sequeira retweeted
Almost every paper on polygenic risk scores now reminds us that PRS should be adapted to ancestry. A new @NatureGenet study suggests another important dimension. Age. The authors studied BMI in 62,276 children across 11 age points from 6 weeks to 8 years. They identified 624 independent signals in the longitudinal analysis. Almost one third did not show the same effect in adults! For 165 signals the association disappeared and for 29 the effect reversed direction. A striking example is PCSK1. One variant increased BMI at around 8 months but was associated with lower BMI in adults. This fits its biology well because PCSK1 processes multiple hormones and neuropeptides and its role changes across development. The same pattern was seen with polygenic scores. At 8 to 12 months an age-matched genome-wide PGS explained 10.9% of BMI variance. A PGS trained on adult BMI explained only 1.3%. More than an eightfold difference. The underlying biology was familiar. The leptin melanocortin pathway was strongly enriched but different genes had different temporal profiles. LEPR and PCSK1 were more important early in life while MC4R POMC and BDNF showed more persistent effects. Signals were also found near GLP1R and GIPR. Some GLP1R variants acted mainly in early childhood. This is especially interesting because GLP1R is the receptor targeted by semaglutide in Ozempic. Similar results were seen for rare variants in nearly 480,000 genomes. The authors also found parent-of-origin effects. For example KLF14 acted mainly when the allele was inherited from the mother which fits its known imprinting. To me, this makes it clear that PRS may need to be adapted not only to ancestry but also to age. The difference can be dramatic. In infancy the right age-specific score explained more BMI variation than score trained in adults. The genome stays the same. Its effects do not. nature.com/articles/s41588-0… #GWAS #PRS #adiposity #BMI #snRNA
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Jaison J Sequeira retweeted
We’re one step closer to solving the mystery of Arsikuchean (#Tocharians) origins #ancient #dna #indoeuropean #origins
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If we look deeper, we might even find cultural and linguistic continuity all the way from the Neolithic and beyond. Fascinating stuff!
Replying to @iosif_lazaridis
"These findings support a predominantly local Anatolian–West Eurasian genetic background in present-day Turkish population, with a significant but heterogeneous Central/Inner Asian contribution associated with medieval Turkic migrations." 3/
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Jaison J Sequeira retweeted
This is now published in @MolBioEvol, and includes not only very interesting inference of selection in Neolithic Europe, but also nice benchmarking of various local ancestry inference tools Link here: academic.oup.com/mbe/advance…
Local ancestry inference identifies robust evidence of selection in Neolithic Europe biorxiv.org/content/10.64898…
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Jaison J Sequeira retweeted
An opinion: What if we reimagined STEM education without exams, grades, and GPAs? Universities enable learning. Students own it. They get a certificate listing the courses; the world decides how good they are. Why stamp a letter or number on a student? Does this work?
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Jaison J Sequeira retweeted
Funky monkey business millions of years ago #evolution #genetics #chimps #dna #hybridization
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Jaison J Sequeira retweeted
Ancient DNA unveils distinctive ancestries in the Bronze and Iron Ages of East Tianshan science.org/doi/10.1126/scie…
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Jaison J Sequeira retweeted
Saw @RegevSchweiger give a talk today about this work at #EESHuman One interesting take away I didnt notice b4 is how the different sizes of the peaks in Chimps/Humans gives information on the "strength" of the structure and thus relative admixture proportions for each species
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Interesting paper showing very high IVC-like ancestry in one of the Pakistani Roma groups. When it comes to endogamous groups, having at least a few whole genomes (even 5–10x) would be huge. We are missing out on so much info due to low SNP panel overlap.
Genomic reconstruction of the Pakistani Roma reveals dual South Asian ancestry, medieval bottlenecks, and the early dispersal routes of the Romani people link.springer.com/article/10…
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Ever since our Koraga paper, I’ve maintained that bottlenecked groups preserve deep ancestral signals. Even with low Ne, drift hasn't erased them. It stands to reason: if archaic haplotypes survive in modern genomes, tracing later historical signals should be far easier.
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Great work @Shai_Desai ! I have been working along similar lines for a side project; the presence of East Asian ancestry is not limited to the Nilgiris. Many past studies show traces of EA ancestry in their plots, mine does too. Could this be the reason for high DEN in India? 1/2
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While C4a2c TMRCA in Jenu Kurubas is ~5 kya, the TMRCAs of C4a2c, M36d, M2a3, and M2b3a across Himalayan and Nilgiri tribes suggest divergence occurred 10–20 kya, coinciding with post-LGM recovery. 2/2
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Jaison J Sequeira retweeted
New review article about identifying natural selection in human history from @pontus_skoglund and @mathiesoniain Definitely worth a read
New online! Genomic insights into natural selection in recent human history dlvr.it/TVQzvh
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Jaison J Sequeira retweeted
A rather special paper for me, for more reasons than one 🐍 Our new work is out in Science Translational Medicine, where we show that a recombinant antivenom made from just five nanobodies can protect against geographically diverse cobra and king cobra venoms from across India
IISc researchers and collaborators have developed a recombinant, nanobody-based antivenom that offers broad protection against venom from geographically diverse cobra and king cobra species in India. @LabVenomics Read: iisc.ac.in/events/engineered… #IIScresearch
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Jaison J Sequeira retweeted
New study on pottery production at Neolithic Tol-e Sangi (Iran) supports a polycentric model for the emergence of ceramic technology in southwest Asia. cambridge.org/core/journals/… – at Turin, Piedmont
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