Thrilled to post thread re: new single-cell lineage of mouse embryo reconstructed w/ DNA Typewriter. One animal, zygote to late organogenesis (E13.5). Tree has 1,340,794 transcriptionally profiled, annotated tips (cells), 1,142,588 dated internal nodes, rooted at zygote 1/n

A few months ago, @elena-romero.bsky.social published a paper showing that HIV escape from broadly neutralizing antibody 10-1074 is driven by very recurrent mutation. In her latest, she asks - just how soft are the signatures of these sweeps? www.biorxiv.org/content/10.6...

Haplotype and diversity signatures of ultra-soft selective sweeps in HIV-1

Many urgent medical and agricultural challenges are driven by resistance evolution via soft selective sweeps of multiple simultaneous mutations. Standard approaches to detect these mutations involve g...

biorxiv.org

Cannot be more excited about the lineup for the inaugural Function of Evolving Systems GRC conference I am co-organizing with the amazing Joy Bergelson. Less than a month away: August 9 - 14, 2026. Still a few spots left! And do check out the amazing list of speakers: www.grc.org/function-of-...

Genuine question for folx who look at bacterial phylogenies: How do you interpret the bootstrap support and posterior probabilities that you get on your tree estimates? Do you take them seriously? Do you think: "Wow, all 99%, that must be a reliable tree!"? 1/

It's go time!

MsEE Lab@mseelab.org · 3w ago

A year on from our inaugural State of the Lab post, the lab is revving up and getting ready to go. Now it’s time to do some research! mseelab.substack.com/p/brewing-re...

Very proud of this preprint out of my lab, our first (of hopefully many) host-microbe spatial transcriptomics paper. www.biorxiv.org/content/10.6... Amazing insights into P. aeruginosa biology and chronic airway disease @cysticfibrosis.org.uk @sangerinstitute.bsky.social @asthmaandlung.org.uk

Inaugural post! We are a brand new lab @pasteur.fr studying how pathogen antigens evolve and how we can exploit these proteins' evolution to make better vaccines! Read a few words from the currently sole member of the lab @spyroslytras.bsky.social below! 😁 www.pasteur.fr/en/research-...

Predicting viral evolution with AI

Spyros Lytras is one of four young scientists selected in 2025 to lead new research groups at the Institut Pasteur. He has headed the “Antigen Evolution & Design laboratory” 5-year Group (G5) since Ju...

pasteur.fr

Folks in the #QVEU have been busy! We recently published two reviews in #JVI @jvico-eics.bsky.social! Check them out to learn more about the tools we use in the lab and the questions we are excited to pursue in the coming years… 🧵

Pls share: U of Washington has an opening for a tenure-track faculty position at the rank of Assistant Professor. This position is expected to specialize in molecular virology or bacteriology. Here is a link: microbiology.washington.edu/index.php/ne...

What if an embryo made immune cells before it finished building the tissue they usually come from? In our new preprint, we show that annual killifish embryos specify neutrophils before germ layers are fully resolved. www.biorxiv.org/content/10.6... Huge thanks to my PI, @ohnolog.bsky.social ! 🧵

Early immune cell development precedes gastrulation in annual killifish

During embryogenesis, cell types arise in a predictable order because developmental regulators act sequentially. But how evolutionary changes in morphogenesis reshape the signaling environments that a...

biorxiv.org

I'm hiring a #postdoc 🥳 and applications are open 🤩 Candidates with interests in EITHER statistical methodology or microbial ecology / microbiome are welcome to apply. The position / projects will be tailored to the candidate 🌟📈🎤 Thank you for sharing widely! apply.interfolio.com/188571

Elena Romero @elena-romero.bsky.social is now on bluesky! She has been doing awesome work at @uwgenome.bsky.social on HIV evolutionary dynamics in the context of recombination and bNAb escape, and is starting a postdoc with @matsen.bsky.social in a few months. Give her a follow!

🚨 #Evol2026 attendees - our team at @arcadiascience.com is hiring! We're looking to hire a computational evolutionary biologist interested in asking how and why protein sequences/structures/functions differ across the tree of life 🧬 jobs.lever.co/arcadiascien... Please share widely!

Replaying germinal center evolution on a quantified affinity landscape www.cell.com/cell/fulltex...

Replaying germinal center evolution on a quantified affinity landscape

Antibody affinity maturation results from a somatic evolutionary process that takes place in the germinal center. A “parallel replay” experiment on germinal center B cells reveals the evolutionary for...

cell.com

Congratulations to the winners of the GS outstanding Service Award: Bonny Brewer (faculty), Josh Malamy (staff), Joe Min (student), and Ryan Friedman (postdoc)!

Two pleas from a journal editor: 1. If you're mid-career or senior and are declining a review, please recommend a junior colleague. 2. If you're early-career and want to be asked to review papers, please ensure editors can readily discover your expertise, current affililation, and email address.

Excited that Elena Romero is speaking about HIV intra-host evolution in the Crow Award session today at #PEQG26! Her talk focuses on her recent paper (www.pnas.org/doi/10.1073/...) and unpublished follow up work asking what diversity and linkage signatures look like for "ultra-soft" sweeps!

#PEQG26 folks! I will be presenting my postdoc project with @jkpritch.bsky.social and @jeffspence.github.io about inferring population structure dynamics over time with tensor decomposition on ARG. The talk will be at the James Crow Talk session on Wednesday. Look forward to seeing everyone there!

Very excited that @alexrob.bsky.social will have an opportunity to share some of his cool work on measles brain adaptation (joint with Ben Kerr) in this session!

Society for Molecular Biology and Evolution@official-smbe.bsky.social · 2mo ago

#SMBE2026 S16: The genetic basis of evolutionary rescue 🗓️ Mon Jun 29, 3:50pm 🔗 smbe2026.org/programme

I’m excited to share a new paper about HIV escape from broadly neutralizing antibody monotherapies! In it, we describe the most highly recurrent adaptation I have ever seen. A close collaboration with Lillian Cohn (FHCC) led jointly by Elena Romero and Abby Clyde. www.pnas.org/doi/10.1073/...

Out today - structure of the human HIRA histone chaperone complex bound to nucleosomes. Ever wondered how nucleosomes are assembled in the wake of transcription? It takes a 'hulk of a protein complex'. Work by the amazing Wei Tian weetian558.bsky.social. www.biorxiv.org/content/10.6... 🧵

I'm looking for postdoc opportunities for the 2026-2027 academic year. If you're looking for a postdoc with a broad skill set spanning evolutionary genetics, bioinformatics, and various omics methods, feel free to reach out. Some recent pubs: (1) doi.org/10.1126/scie... (2) doi.org/10.1073/pnas...

Macroevolutionary divergence of gene expression driven by selection on protein abundance

The regulation of messenger RNA (mRNA) and protein abundances is well-studied, but less is known about the evolutionary processes shaping their relationship. To address this, we derived a new phylogen...

doi.org

Excited to announce that we are moving the lab to Minneapolis to join the University of Minnesota Department of Microbiology & Immunology and Institute on Infectious Diseases this summer!! We will be hiring so please reach out if interested in viral evolution, viral immunology, etc.!!

We're recruiting! We're looking for two graduate students to join us at UBC in Vancouver. Fully funded and open to global applicants, with flexible start-date. Topics include theory, bioinformatics, and microbiology. More details: asherleeks.com/apply #socialviruses #evosky #virosky 🧪

Do you teach undergrad bioinformatics? If so, I'd love to hear about how (if at all) you're changing your course to reflect advances in generative AI. Please send me a DM!

a cat wearing a blue shirt is sitting on a laptop computer

Alt: a cat wearing a blue shirt is sitting on a laptop computer typing

media.tenor.com

This program transformed my career! Please apply. @hhmi-science.bsky.social's #FreemanHrabowski Scholars Program offers early career faculty up to $10M over 10 yrs, plus salary & benefits. Postdoc? This year's competition has a program for you too. Applications open 11/3! bit.ly/4vhC0LA

Early Career Faculty Program | Freeman Hrabowski Scholars | HHMI

The Freeman Hrabowski Scholars Program offers comprehensive support to outstanding early career faculty committed to scientific excellence in their own research, and to fostering labs that expand the ...

bit.ly

The Social Lives of Viruses is coming to Vancouver, Canada, from 4th-8th August 2026! This is a free meeting dedicated to all aspects of virus-virus interactions & evolution. To apply: socialviruses.zoology.ubc.ca @sociovirology.bsky.social #socialviruses #evosky #lovevirology #virosky

Join us on Tuesday, April 7 at 11am PDT to hear Kamila Naxerova @naxerova.bsky.social from Harvard Medical School in the next installment of the Mathematical and Computational Modeling of Cancer Seminar. Livestream link to follow shortly.

Happy to share the final version of @oliviamghosh.bsky.social's paper on inferring low dimensional phenotype-fitness maps from high-throughput fitness measurements across environments. Fun collaboration with @oliviamghosh.bsky.social, @grantkinsler.bsky.social, & @petrovadmitri.bsky.social

PLOS Biology@plosbiology.org · 4mo ago

Predicting the effect of a #mutation on #fitness is hard. @oliviamghosh.bsky.social @petrovadmitri.bsky.social &co use fitness effects of adaptive yeast mutants to show that underlying genotype-phenotype-fitness maps are low-dimensional but context-dependent @plosbiology.org 🧪 plos.io/4dLy2Ez

Hiring Alert: My lab(www.labofpie.org) is looking for BS/MS-level research assistants to study fungal-bacterial competition. Come join us if you are interested! ipmb.sinica.edu.tw/en/recruitme...