How is functional variation at large-effect loci maintained in natural populations, even as environments change? In a paper led by @mkarag.bsky.social, we tracked known pesticide resistant alleles in outdoor 𝘋. 𝘮𝘦𝘭𝘢𝘯𝘰𝘨𝘢𝘴𝘵𝘦𝘳 cages & inferred selection and dominance from temporal sequencing data.

On Oct 1, 2025, GISAID informed us that they had ended updates to the flat file of SARS-CoV-2 genomic sequences and associated metadata that we had used to update Nextstrain analyses since Feb 2020. GISAID's stated rationale was that their "resources are limited". 1/5

How do GWAS and rare variant burden tests rank gene signals? In new work @nature.com with @hakha.bsky.social, @jkpritch.bsky.social, and our wonderful coauthors we find that the key factors are what we call Specificity, Length, and Luck! 🧬🧪🧵 www.nature.com/articles/s41...

Congratulations to @doc-brock.bsky.social on advancing her first MS student to candidacy! Such cool work with introduced Italian wall lizards across native and invasive ranges - looking forward to seeing what Alyssa and Dr. Brock will discover!

Oxygen limitation is considered a key mechanism of #ThermalTolerance. @dianasmadeira.bsky.social explores how a @plosbiology.org study challenges this idea, showing minimal protective effects of O2 supersaturation in heat-stressed #aquatic #ectotherms 🧪 Paper: plos.io/43hzMQa Primer: plos.io/3XeUtbS

New and improved! (as of today, now with page numbers and an issue number ;) "Evidence for ancient selective sweeps followed by differentiation among three species of Sphyrapicus sapsuckers" Led by Dr. Libby Natola: doi.org/10.1093/jeb/...

#TEsky A comparative analysis of transposable element diversity and evolution across 75 bee genomes doi.org/10.1186/s128...

With @aconga.bsky.social we wrote a short Dispatch to highlight two awesome companion papers in @currentbiology.bsky.social by @jeffgroh.bsky.social, @gcbias.bsky.social and by Liu et al. on how the control of heterodichogamy is going nuts in the Juglandaceae : www.cell.com/current-biol...

I am so proud & happy to see our Potamo genome assembly finally out there in the world! The process ended up being way more challenging than expected, but for some really cool reasons. ❤️🐌🧬 TLDR: Surprise! A VERY recent WGD. academic.oup.com/gbe/article/... Photo: C. Böck, ILIM, Mondsee, Austria)

New preprint out today from us! Priyanshi built a pipeline to catalog telomeric content across the 1KGP phase 3 dataset, and we test for differences across populations, chromosomes, and sexes. Do check it out! Comments welcome.

We’re excited to expand our partnership with @reviewcommons.org in a new collaborative model reshaping scientific publishing to streamline peer review, reduce redundancy, and improve the author and reviewer experience. Read more: buff.ly/h6SfMXF And meet our Editorial Board! 👋

Go get ‘em, California!

Extra credit on your pop-gen exam today if you vote! Be a responsible citizen - this country needs it more than ever.

Janaki Ammal was born 128 years ago today! A legend of botanical genetics, she studied how polyploidy plays into the resilience of agricultural crops, compiled a sprawling chromosomal atlas of plants, and fought for the preservation of India's natural legacy. tinyurl.com/2j9hxmjb #WomenInSTEM

Aaaahhh! Stoked to welcome and host the one and only Dr. Dunn this Friday (11/7/25) at noon PST in the @calstate.bsky.social bioinformatics webinar series! Do join us via Zoom: sdsu.zoom.us/j/88624423158

NEW Publication🥳 Rapid #evolution is thought to be disadvantageous due to the accumulation of deleterious #mutations. We identify multiple lineages of rapidly evolving and stable #yeast that are many millions of years old 🔗: academic.oup.com/mbe/advance-...

Even though I don't live in NYC, I can't wait for the purported "exodus of millions of New Yorkers" to whatever xenophobic holes they crawled out of, when a fellow immigrant of Indian origin, Zohran, becomes Mayor.

Gower et al. present an extension to the stdpopsim framework, which enables simulation of various modes of selection, providing a resource for the popgen community to explore the interplay between selection and other evolutionary forces. 🔗 doi.org/10.1093/molbev/msaf236 #evobio #molbio #compbio

And another fun book club Sunday funday! Wasn’t a huge fan of ‘Don’t Let Him In’ or its protagonist, but that’s why you do champagne with brunch right?

I swear there was an article about Kenyan super-endurance athletes and their physiology somewhere no? Trying to find the reference. Also mighty congrats to the indomitable Hellen Obiri on a stunning 2:19:51 marathon run! 🏃🏿‍♀️

How common cuckoos adapt to multiple hosts | Science www.science.org/doi/10.1126/...

Okay better pic with the whole crew! Love my neighbors ❤️

Last minute Disney villains for Halloween (at least my costume is last minute lol). If you’re driving by Cowles Mountain, come say hi! We’re partying it up in the HOA!

Multiple wins this week for the lab! Raya and Riley won Prebys foundation grants, Ciera won the Crouch Fellowship in Avian Behavior, and we won an @sandiegostate.bsky.social DRI grant to fund a fun collab with the awesome @elliecat.bsky.social!

Looking forward to hosting Dr. Jerry Tyler DeWitt from @svasti.bsky.social's lab today in the @calstate.bsky.social bioinformatics webinar! Do join us via Zoom: sdsu.zoom.us/j/88624423158

Wow! In the ~1.5 years since we launched the EEB section of microPublication Biology, we have published 69 articles with another 10 in review or revision. 🎉 🧪 Thanks to authors and reviewers for supporting the effort! 🙏🏼

Lol @ updated lab Halloween door! ‘Warning! Zero reads mapped!’ 😹

Top 10 Dog Halloween Costumes!

Pleased to see published today: the Molecular Ecology special issue on "Genomics of Speciation"; many interesting papers: onlinelibrary.wiley.com/toc/1365294x... Included in this issue is our paper on "The Distribution and Dispersal of Large Haploblocks in a Superspecies": doi.org/10.1111/mec....

Yet another example of the importance of natural history collections. Here, helping to address two questions: • Responses to climate change (here, temperature and precipitation mattered in different ways) • What sets range limits 🧪

Science is intertwined with eugenics; eugenic ideologies continue to negatively impact #Indigenous communities to this day. In the October issue of #GENETICS, @jazlynmooney.bsky.social and colleagues offer a timely and important reminder on the perils of eugenics. buff.ly/1Q5r3XF

Ah yes- the five owl personalities: sleepy, grumpy, goofy, nonplussed, and menacing

Reid et al. use empirically-based theoretical modeling to show how immigration rate affects the competing outcomes of evolutionary rescue, inbreeding-induced extinction vortex and migrational meltdown. Read now ahead of print! www.journals.uchicago.edu/doi/10.1086/...

As a proud California democrat, I voted #YesOnProp50 You should too.

The Johri Lab has an open postdoc position. Please send me an email, if interested. Start date is flexible. Please do share! Thank you in advance.

Out today in @currentbiology.bsky.social and led by @tillramm.bsky.social! We integrated population genomics, fossils, SDMs, and micro-CT scanning to understand how climate change has influenced extinctions and extant genetic diversity in the threatened Australian mountain dragon #ozherps #genomics

This preprint shows that the huge recent progress of non-coding effect predictions is likely going to help tremendously in this area. A must read. www.biorxiv.org/content/10.1...

I started a new job in Montpellier, France! Happy about new opportunities, sad about the state of things in the US. abetterscientist.wordpress.com/2025/10/26/w...

1/2 Want to become up to date with pangenomes and genome graphs and their history? Check out this fantastic review by @zbao.bsky.social! Complexity welcome: Pangenome graphs for comprehensive population genomics #pangenomes #plantscience #genomegraphs www.cambridge.org/core/journal...

Some stiff competition here for the best Halloween lab decor contest @sandiegostate.bsky.social Biology! Vote for my lab (LSN 209), obviously. tinyurl.com/yectf4fd

First neurons didn’t appear overnight. We trace their roots to ancient secretory cells - showing how lifestyle & behavior shaped the evolution of first synapses.🧠🌊 #Evolution #Neuroscience Our latest in @natrevneuro.nature.com Link: rdcu.be/eMX3E @jeffcolgren.bsky.social @msarscentre.bsky.social

Pervasive context-dependent effects in the genetic architecture of complex and quantitative traits revealed by a powerful multiparent mapping population in yeast https://www.biorxiv.org/content/10.1101/2025.10.27.683165v1

Alright y'all - I'm helping out the San Diego Gay Men's Chorus with their annual fundraiser. If you're interested in pitching-in a tax-deductible donation this year, do consider supporting this phenomenal community org that I've been volunteering with since 2017! www.zeffy.com/en-CA/fundra...

My goodness. Please don’t send in ghosts. They are very frightening. We only rate dogs. Thank you... 12/10 (IG: theodore.goldenvelt)

Gawd I love doing science - received some constructive feedback on our new G3 paper on ghost introgression from Ziheng Yang @zihengyang.bsky.social. Looking forward to addressing them!

Looking forward to welcoming Dr. Erik Funk from the @sandiegozoo.bsky.social in today's @calstate.bsky.social Bioinformatics Webinar! Do join us at noon Pacific!

In ant colonies infested by a tapeworm parasite, uninfected workers show stress-related gene activity—because they're caring for infected nestmates (photo: Matt Hamer, AntWiki) Parasite prevalence in a social host has colony-wide impacts on transcriptional activity and survival buff.ly/ZCJTAVk

@joann-trejo.bsky.social, @marymunson4.bsky.social and I have a commentary in @natcellbio.nature.com on recent attacks on DEI in biomedical research: "If scientific research, especially biomedical research, is meant to serve everyone, then it requires that everyone has an opportunity to participate"