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Dr. Arun Sethuraman @arunsethuraman.bsky.social · 3h

My PhD student @megwanjiku.bsky.social's MS work on population genomics of rice blast in Sub Saharan Africa was just published! Congrats to her! She's on a roll - that's manuscript #3 for her this year, with her PhD Chapter 1 (#4) coming soon! doi.org/10.3389/fpls...

Frontiers | Genomic profiles of Pyricularia oryzae in Sub-Saharan Africa: exploring population differences and their evolutionary implications in the region

BackgroundRice blast, caused by Pyricularia oryzae (teleomorph: Magnaporthe oryzae), is one of the most economically damaging diseases affecting rice worldwi...

doi.org

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Reposted by Dr. Arun Sethuraman

Trends in Ecology & Evolution @cp-trendsecolevo.bsky.social · 1d

October issue out now! www.cell.com/trends/ecolo...

Cover article by Guan-Long Cao, Wei Wang and colleagues looking at the biodiversity on the largest continuous mountain belt on Earth.

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Reposted by Dr. Arun Sethuraman

Evolutionary Ecology Group, Cambridge @eegcam.bsky.social · 1d

#newpreprint: "Climate Shaped the Global Population Structure of Leopards and their Extinction in Europe": www.biorxiv.org/content/10.1...! Leopards are charming big cats but there are many mysteries around them. Thread 🧵

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Reposted by Dr. Arun Sethuraman

Wallace Marshall @wallaceucsf.bsky.social · 1d

Are you in/near the SF Bay Area? Do you like Science? What about Festivals? Then you might want to check out the Bay Area Science Festival Oct 25. I’ll be there showing how single cells can learn!

www.bayareasciencefestival.org

Home - Bay Area Science Festival

Bring the whole family to experience 100+ jaw-dropping demonstrations, hands-on experiments, astounding games, behind the scenes lab tours, film screenings

www.bayareasciencefestival.org

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Reposted by Dr. Arun Sethuraman

Matt Holt @holtjma.bsky.social · 2d

I'm excited to share our pre-print about a new variant benchmarking tool we've been working on for the past few months!

Aardvark: Sifting through differences in a mound of variants
GitHub: github.com/PacificBiosc...

Some highlights in this thread:
1/N

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Dr. Arun Sethuraman @arunsethuraman.bsky.social · 1d

This week in the @calstate.bsky.social bioinformatics webinar series! Yours truly - I’ll update y’all on recent work from my lab on addressing missing data problems in pop-gen. Friday, 10/10 at noon PST! Do join us via Zoom. Deets in flyer.

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Reposted by Dr. Arun Sethuraman

Mia Levine @levine-lab.bsky.social · 4d

Check out this new Levine-Lampson collaboration, led by the talented Hyuk-Joon Jeon.

We explored the consequences of inheriting long telomeres from dad and short telomeres from mom. Or the reciprocal. Turns out, parent-of-origin matters (in mice, at least).

authors.elsevier.com/c/1loW-3QW8S...

authors.elsevier.com

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Reposted by Dr. Arun Sethuraman

WeRateDogs @weratedogs.com · 5d

Here are the Top 5 Dogs of the week!

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Dr. Arun Sethuraman @arunsethuraman.bsky.social · 5d

Re-upping this. Do join us via Zoom today at noon PST!

Dr. Arun Sethuraman @arunsethuraman.bsky.social · 6d

Next up in our @calstate.bsky.social Bioinformatics Webinar series - we welcome Dr. Pedro J. Torres, Director of Bioinformatics and Data Science at Persephone Biosciences. Dr. Torres is also an alum of @sandiegostate.bsky.social! Do join us - 10/3 at noon PST via Zoom: sdsu.zoom.us/j/88624423158

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Dr. Arun Sethuraman @arunsethuraman.bsky.social · 5d

Woke up to Calvin giving me brekky eyes. Think he needs something?

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Reposted by Dr. Arun Sethuraman

Journal of Systematics and Evolution @journalsysevo.bsky.social · 5d

In this systematic performance evaluation of #STRUCTURE, the most popular #population clustering method, Xiao-Xu Pang and Da-Yong Zhang offer praise--but also caution.
Find out why!⬇️

doi.org/10.1111/jse....

#JSE #evolution #technology #systematics

A cautionary note on using STRUCTURE to detect hybridization in a phylogenetic context

Using simulations, we provide the first systematic evaluation of the performance of STRUCTURE under a variety of cross-species hybridization scenarios. We find that STRUCTURE performs well in identif...

doi.org

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Dr. Arun Sethuraman @arunsethuraman.bsky.social · 5d

No legit reason - just didn’t share. I serve on a hundred committees; definitely not keeping track of when every single one is defending or sending me docs. But when they do, I make the time to read it. I definitely don’t appreciate the random troll advice. Thanks.

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Dr. Arun Sethuraman @arunsethuraman.bsky.social · 6d

Right?! If this were my student, I’m stopping the defense!!

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Dr. Arun Sethuraman @arunsethuraman.bsky.social · 6d

Haha sadly, I’m one of those. Which is why this kinda bs is just so disappointing to see from students. I let them all know that I’m not trying to be an asshole, but I’m not signing my name on something I’ve not read - asked them if they would. Lol.

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Dr. Arun Sethuraman @arunsethuraman.bsky.social · 6d

Next up in our @calstate.bsky.social Bioinformatics Webinar series - we welcome Dr. Pedro J. Torres, Director of Bioinformatics and Data Science at Persephone Biosciences. Dr. Torres is also an alum of @sandiegostate.bsky.social! Do join us - 10/3 at noon PST via Zoom: sdsu.zoom.us/j/88624423158

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Reposted by Dr. Arun Sethuraman

Daniel Ortiz-Barrientos @dortizba.bsky.social · 6d

Excited to share our new paper in
@GeneticsGSA
! We developed "Retriever," a novel method that enables high-quality genotype imputation in non-model organisms. 🧬 Congratulations to Charles on his first PhD paper!

Paper: doi.org/10.1093/gene...

A thread 🧵👇

Chimeric Reference Panels for Genomic Imputation

Abstract. Despite transformative advances in genomic technologies, missing data remains a fundamental constraint that limits the full potential of genomic

doi.org

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Dr. Arun Sethuraman @arunsethuraman.bsky.social · 6d

When I ask students to define coalescent effective population size and get a derivation from Kimura and Crow 1964 in their pop-gen midterm.

a cartoon of spongebob giving a thumbs up and the words mission complete below him

ALT: a cartoon of spongebob giving a thumbs up and the words mission complete below him

media.tenor.com

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Dr. Arun Sethuraman @arunsethuraman.bsky.social · 7d

Welcome (back) to San Diego! So happy that you decided to join us!

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Dr. Arun Sethuraman @arunsethuraman.bsky.social · 7d

Do check out our new manuscript, now out in G3 on modelling theoretical expectations of ghost introgression in sampled genomes. Just in time for Halloween! 🎃 👻

Genetics Society of America @genetics-gsa.bsky.social · 8d

New in #G3journal: @arunsethuraman.bsky.social et al. describe biases in summary statistics, such as genetic differentiation, diversity, Tajima’s D, and estimates of theta, migration rates, and divergence for understanding genomic signatures from extinct ghost populations. buff.ly/7fGnPXj

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Dr. Arun Sethuraman @arunsethuraman.bsky.social · 8d

From one superb seminar on Friday to another today. So inspiring to hear from @elliecat.bsky.social about her work with grizzlies today!

Dr. Arun Sethuraman @arunsethuraman.bsky.social · 9d

Looking forward to the awesome @elliecat.bsky.social’s lecture today in our EEB seminar series! “Not All Bad News: Minor Genomic Impacts of Population Declines in Brown Bears” Noon Pacific in the Gold Auditorium, Shiley Biosciences Center. See ya there!

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Dr. Arun Sethuraman @arunsethuraman.bsky.social · 9d

Looking forward to the awesome @elliecat.bsky.social’s lecture today in our EEB seminar series! “Not All Bad News: Minor Genomic Impacts of Population Declines in Brown Bears” Noon Pacific in the Gold Auditorium, Shiley Biosciences Center. See ya there!

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Reposted by Dr. Arun Sethuraman

Kevin Daly @gingerhowley.bsky.social · 10d

Very happy to see our pre-print on ancient Irish goat genetics on bioRxiv #aDNA #spiergorm

I want to acknowledge this was only possible through the work of the late Dr. Judith Findlater, along with Prof. Eileen Murphy at @qubelfastofficial.bsky.social.

Old Goats: 3,000 years of genetic connectivity of the domestic goat in Ireland

The domestic goat likely first arrived to the island of Ireland as part of the introduction of agriculture approximately 5,900 years ago, and remains a part of the island's biocultural heritage. Howev...

www.biorxiv.org

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Dr. Arun Sethuraman @arunsethuraman.bsky.social · 10d

Yes - I’m also part of a gay book club! It was our turn to host - I cooked up a storm (hariyali chicken, potato curry, naans, lemon rice, salad). Happy weekend! Yes I have deadlines but y’all can wait 🤷🏾‍♂️ Also ‘Culpability’ by Bruce Holsinger was fun!

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Dr. Arun Sethuraman @arunsethuraman.bsky.social · 11d

This was the most inspired I’ve been by basic science in so long - thanks to @bielleogy.bsky.social for the amazing talk! Y’all need to get at her to speak at all your seminars.

Elinne Becket, PhD @bielleogy.bsky.social · 16d

Giving a webinar on #BlueSoup this Friday, in case anyone wants to pop in during their lunch!

A promotional flyer for a webinar in the CSU Bioinformatics Webinar Series. On the left side, it shows the date and time: “26 Sep | 12 PM PST.” It includes instructions to join via Zoom with Meeting ID: 886 2442 3158 and a QR code above. On the right, there is a photo of Dr. Elinne Becket, Associate Professor in the Department of Biological Sciences at California State University San Marcos, sitting outdoors with plants and trees in the background. Below, the title of the talk is displayed: “The Soup that Blue up Twitter.” The description explains that Dr. Becket will discuss the shared curiosity of science, open science, and a story from February 2023 when leftover beef soup prepared by her mom turned bright blue. Scientists and people on Twitter collaborated to investigate, leading to a global effort among microbiologists and chemists. At the bottom, there are links to learn more about upcoming webinars at www.informatics.sdsu.edu and Dr. Becket’s website: https://elinneb.wixsite.com/becketlab

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Dr. Arun Sethuraman @arunsethuraman.bsky.social · 11d

Highly recommend watching and rewatching episodes of The Golden Girls before bed, and first thing in the morning. I promise that you will wake up in the best mood. Who knew that a 40 year old show will always remain relevant?

four older women are sitting around a table in a kitchen .

ALT: four older women are sitting around a table in a kitchen .

media.tenor.com

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