Gavin Woodruff
@weirdworms.bsky.social
📤 743
📥 1165
📝 347
Development, evolution, worms, gene name etymology. I log interesting papers, questions, and ideas.
Caenorhabditis becei recombinant inbred lines (beRILs) reveal the scope of heritable variation within a gonochoristic nematode population
www.biorxiv.org/content/10.6...
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Caenorhabditis becei recombinant inbred lines (beRILs) reveal the scope of heritable variation within a gonochoristic nematode population
Caenorhabditis nematodes are a powerful model clade for evolutionary genetics. Isogenic lines and panels of recombinant inbred lines (RILs) are among the most essential tools for genetic studies in th...
https://www.biorxiv.org/content/10.64898/2026.06.16.732751v1.abstract
about 16 hours ago
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Chris Bertram
1 day ago
Reading Runciman’s sneery review of one of the best books I’ve read in the past few years has further lowered my opinion of Runciman
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David Runciman · Trivial Pursuits: Gamification
What makes a game liberating to play is also what makes it stifling and oppressive: in both cases it’s because the...
https://www.lrb.co.uk/the-paper/v48/n10/david-runciman/trivial-pursuits
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Max Heiman
3 days ago
Clever approach from
@astavoe.bsky.social
for those pesky lines that were integrated with Rol -- edit them back to nonRol! I wonder what else we could build from all the existing integrated arrays. Switch colors?
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Oscar
18 days ago
Just came across this remarkable interview with Marjorie Grene at age 94:
www.thebeliever.net/an-interview...
Two of my favourite bits, when Grene is asked about Rorty and about Lakatos: Rorty is just witty, but doesn't have a philosophy and Grene is quick to say that she did not kill Lakatos!
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Charlotte Fare
4 days ago
mRNA-Scaffolded Cytoplasmic Compartments
www.annualreviews.org/content/jour...
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mRNA-Scaffolded Cytoplasmic Compartments
The cytoplasm of vertebrate cells is compartmentalized into the cytosol and several messenger RNA (mRNA)-scaffolded condensates, present at steady-state conditions and in the absence of stress. They i...
https://www.annualreviews.org/content/journals/10.1146/annurev-cellbio-111524-021431
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Caenorhabditis tropicalis followed a unique evolutionary path to self-fertility
doi.org/10.1093/gene...
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Caenorhabditis tropicalis followed a unique evolutionary path to self-fertility
Abstract. Caenorhabditis nematodes provide three natural experiments in which a male/female species evolved to produce one with males and self-fertile herm
https://doi.org/10.1093/genetics/iyag145
8 days ago
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Jeremy Yoder says no war
13 days ago
Shubin closes with a reminder of the vital importance of shared evolutionary history in basic biomedical research: we’re learning how to cure human disease thanks to work on fruit flies, worms, and even fish
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Dr. Jessica L Ware
13 days ago
Excellent welcoming squad for the
#Evolution
meeting!! Five stars! ⭐️
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Luane Landau
13 days ago
I think this was one of the best talks I’ve heard! Evolution 2026 starting amazingly!
@neilshubin.bsky.social
#Evolution2026
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Brian O'Meara
14 days ago
Helpful sign for people at convention center for
#Evol2026
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Marco Fumasoni
15 days ago
Our paper on the evolution of cellular miniaturization is now out in PNAS!
www.pnas.org/doi/10.1073/...
A short recap 🧵
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! "Moreover, transphyletic transplantation experiments show that the blastopore lip of M. leidyi leads to the generation of a secondary body axis in embryos of the cnidarian Nematostella vectensis."
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14 days ago
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Laurie Belcher
25 days ago
The new OrthoFinder paper is out now! In this new work, we introduce major advances in accuracy and scalability, allowing analysis on much larger datasets
www.nature.com/articles/s41...
github.com/OrthoFinder/...
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OrthoFinder: improved phylogenetic orthology inference with enhanced accuracy and scalability - Nature Methods
The updated OrthoFinder v3 software boosts accuracy and scalability in phylogenetic orthology inference with massive and diverse datasets.
https://www.nature.com/articles/s41592-026-03126-6
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Genome Biology and Evolution
26 days ago
Brault et al. propose guidelines for standardized π estimation, systematic reporting of summary statistics, and the adoption of richer metadata to ensure that population genomic data remain comparable and reusable across a wide range of systems. 🔗
doi.org/10.1093/gbe/...
#genome
#evolution
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John Stinchcombe
27 days ago
Why are leaves the shape that they are? What controls intraspecific, genetic variation in leaf shape? New from my lab, in collaboration with many others, led by PhD student Amanda Peake: mapping the leaf shape polymorphism in Ipomoea hederacea.
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José Cerca
about 1 month ago
🧨 New publication out (I think this one is 🌶️ ): Cerca &
@stelkens.bsky.social
- "The identity crisis of speciation genomics".
academic.oup.com/evolinnean/a...
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Luca Soldini
about 1 month ago
How do alternative reproductive modes arise? In this
@pnas.org
paper, we show that hybridogenesis -where a haploid set of chromosomes is transmitted clonally across generations- acted as an intermediate step between sexual and asexual reproduction in stick insects.
doi.org/10.1073/pnas...
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PNAS
Proceedings of the National Academy of Sciences (PNAS), a peer reviewed journal of the National Academy of Sciences (NAS) - an authoritative source of high-impact, original research that broadly spans...
https://doi.org/10.1073/pnas.2535700123
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Evolution Letters
about 1 month ago
How predictable is evolution? Replicated C. elegans experiments show environmental differences and population bottlenecks jointly shape the repeatability of adaptation
doi.org/10.1093/evle...
Image credit: Wikimedia
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Comparative transcriptomics reveals an extracellular worm Argonaute as an ancestral regulator of LTR retrotransposons
academic.oup.com/gbe/advance-...
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Comparative transcriptomics reveals an extracellular worm Argonaute as an ancestral regulator of LTR retrotransposons
Abstract. Safeguarding the genome from non-self elements is essential for development, reproduction, and ageing. One of the major threats to genomic integr
https://academic.oup.com/gbe/advance-article/doi/10.1093/gbe/evag117/8672763
about 2 months ago
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Joanna Masel
about 2 months ago
Our paper unpacking "fitness" is out
doi.org/10.1093/gene...
. How to define fitness depends on what question you ask. Selection acts on organismal vital rates, longer-term outcomes make sense for genetic lineages, models link them. "Invasion fitness" = speed, but sometimes probability matters more.
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😀 Actually, what is a gain-of-function mutation?
doi.org/10.1093/gene...
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Actually, what is a gain-of-function mutation?
Abstract. For more than a century, scientists have worked to characterize, understand, and predict the consequences of mutations. For almost as long, scien
https://doi.org/10.1093/genetics/iyag059
about 2 months ago
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Jordan Theriault
about 2 months ago
Put simply: It coordinates action in more varied and context-dependent ways across more complex environments, AND it regulates a more complex internal environment. Highly recommend this chapter from Sterling and Laughlin!
link.springer.com/article/10.1...
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Why an animal needs a brain - Animal Cognition
In Principles of Neural Design (2015, MIT Press), inspired by Charles Darwin, Sterling and Laughlin undertook the unfashionable task of distilling principles from facts in the technique-driven, data-s...
https://link.springer.com/article/10.1007/s10071-023-01825-7
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Richard Lenski
about 2 months ago
New book "A Primer for Experimental Evolution" with coauthors Michael Rose, Margarida Matos, and Joe Graves.
www.worldscientific.com/worldscibook...
A compact primer for students and colleagues interested in planning and designing experiments to address questions in evolutionary biology.
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A Primer for Experimental Evolution
https://www.worldscientific.com/worldscibooks/10.1142/14651#t=aboutBook
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Microbial genetic screen identifies bacterial genes that compromise Caenorhabditis elegans reproductive fitness
journals.asm.org/doi/full/10....
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Microbial genetic screen identifies bacterial genes that compromise Caenorhabditis elegans reproductive fitness | mSystems
This study identifies a direct causal link between a specific bacterial gene and host reproductive fitness. Systematic screening of Escherichia coli mutants showed that deleting one gene severely impa...
https://journals.asm.org/doi/full/10.1128/msystems.01698-25
about 2 months ago
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Mart Krupovic
about 2 months ago
With Eugene Koonin, we wrote a rather comprehensive review on the origin, evolution and organization of the
#virosphere
. We describe all 10 viral realms and the logic behind them, and so much more. Check it out!
comptes-rendus.academie-sciences.fr/biologies/ar...
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Ashar Malik
about 2 months ago
New work: Our earlier work showed that Foldseek characters could be adapted for phylogenetic alignment, treating each character as an evolutionary state. That part holds but there's a hidden assumption baked in that needed unpacking. So lets do that.🧵
#StructuralPhylogenetics
#Evolution
#Protein
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Internalized Evolutionary Inertia on Body Plan Evolution
onlinelibrary.wiley.com/doi/10.1111/...
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Internalized Evolutionary Inertia on Body Plan Evolution
Animal development appears to intrinsically bias phenotypic evolution, though the exact mechanism is unclear. This review discusses potential mechanisms by which animal embryogenesis limits phenotypi...
https://onlinelibrary.wiley.com/doi/10.1111/ede.70041
about 2 months ago
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Cathepsin B protease mediates high population density-induced mutagenesis to drive genome evolution and competitive growth
www.nature.com/articles/s41...
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Cathepsin B protease mediates high population density-induced mutagenesis to drive genome evolution and competitive growth - Nature Communications
Density-dependent population regulation is widespread in animals. Here, the authors identify cathepsin B cysteine protease as a crowd-responding factor that induces increased genome mutagenesis, leadi...
https://www.nature.com/articles/s41467-026-72521-6
about 2 months ago
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WormTagDB: a systematic survey of endogenously tagged proteins in Caenorhabditis elegans and roadmap toward the tagged proteome
academic.oup.com/g3journal/ad...
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WormTagDB: a systematic survey of endogenously tagged proteins in Caenorhabditis elegans and roadmap toward the tagged proteome
Abstract. Endogenous protein tagging in Caenorhabditis elegans enables the direct visualization and manipulation of proteins in vivo, providing native read
https://academic.oup.com/g3journal/advance-article/doi/10.1093/g3journal/jkag068/8539546
about 2 months ago
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Differential Phoretic Vector Use Among Sympatric Caenorhabditis Nematodes and an Association With Invasive Nitidulid Beetles in Southwestern Germany
onlinelibrary.wiley.com/doi/full/10....
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Differential Phoretic Vector Use Among Sympatric Caenorhabditis Nematodes and an Association With Invasive Nitidulid Beetles in Southwestern Germany
We show evidence for differential host use among the three sympatric Caenorhabditis, and a novel association with nitidulid beetles for C. apta sp. n. This information adds to our understanding of ho...
https://onlinelibrary.wiley.com/doi/full/10.1002/ece3.73510
about 2 months ago
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Jeremy S Davis
about 2 months ago
7 years ago I was incredibly lucky to join
@hoosierflyman.bsky.social
on the great
#Seabattical
Today, you can read in full print
@genetics-gsa.bsky.social
the description of a NEW SPECIES of Drosophila parasitoid and it's really unique biology. I just happened to be the guy who found it! 🐝🏝️🪰
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! High-resolution global recombination mapping in C. elegans reveals sexual dimorphisms shaped by meiotic chromosomal features and structures
www.biorxiv.org/content/10.6...
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https://www.biorxiv.org/content/10.64898/2026.04.25.720830v1.abstract
about 2 months ago
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Ali Seleit
about 2 months ago
(1/15) Thrilled to share new Evo-Devo work where we address the molecular, cellular & morphometric basis of an extreme axis segmentation program in the Japanese eel — an animal that forms 120 vertebrae.
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https://www.biorxiv.org/content/10.64898/2026.04.29.721344v1
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Marcus Stensmyr
about 2 months ago
Here is a banger! Our new paper in
@currentbiology.bsky.social
is out! We have used museomics to sequence a 45yr old specimen of Drosophila enhydrobia, a rare and most unusual fly whose larvae are aquatic(!) and predatory(!). Very cool, big success.
authors.elsevier.com/sd/article/S...
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2 months ago
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Kinetochore proteins control microtubule dynamics in postmitotic neurons to regulate the formation of dendritic spines
www.pnas.org/doi/full/10....
2 months ago
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Developmental constraints in the repeated evolution of male tail characters in rhabditid and diplogastrid nematodes
journals.plos.org/plosone/arti...
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Developmental constraints in the repeated evolution of male tail characters in rhabditid and diplogastrid nematodes
A longstanding question in evolutionary biology is how change might be restricted or biased due to developmental constraints. To address this question, we investigated three recurrently evolving chara...
https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0348186
2 months ago
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A Trojan horse pathogen breaking through partner-choice barriers in the insect gut
doi.org/10.1073/pnas...
2 months ago
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Chromosome size as a robust predictor of recombination rate: insights from holocentric and monocentric systems
academic.oup.com/genetics/art...
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Chromosome size as a robust predictor of recombination rate: insights from holocentric and monocentric systems
Abstract. Recombination is a fundamental evolutionary process essential for generating genetic diversity, facilitating adaptation, and driving speciation.
https://academic.oup.com/genetics/article/232/1/iyaf247/8321416
2 months ago
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Dr. Brendan "Doesn't-go-to-Ravenholm" Pinto
2 months ago
Happy to announce two-fold news! 1) The SCINKD paper is now published in
@molbioevol.bsky.social
-
doi.org/10.1093/molb...
2) SCINKD [v2.2.4] release has reduced runtimes (about 2x) and the revitalized mode for genomes >5Gb is now live and tested on genomes up to 21Gb! 🐸
github.com/DrPintoThe2n...
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Sex chromosome identification and genome curation from a single individual with SCINKD
Abstract. In most animal species, the sex-determining pathway is typically initiated by the presence/absence of a primary genetic cue at a critical point d
https://doi.org/10.1093/molbev/msag067
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Gavin Woodruff
Srinivas Lab
2 months ago
We are happy to share our new bioRxiv pre-print on A-P axis patterning. A great collaboration with Felix Zhou (UT Southwestern) & the Yeomans group (Physics, Oxford)
www.biorxiv.org/content/10.6...
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EvoDevo PanAm
2 months ago
✨A central mission of PASEDB is to foster networking, discussion, and a sense of community We want to highlight new
#EvoDevo
labs in Pan-America. In our first newsletter issue, we highlight: - Roberto Márquez - Anyi Mazo-Vargas
@anyimv.bsky.social
- Bruno Vellutini
@bruvellu.bsky.social
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Looking at the EvoWorm 2026 abstracts--I'm getting excited about this meeting!!
2 months ago
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Transgenerational inheritance is variable across Caenorhabditis worms
www.biorxiv.org/content/10.6...
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https://www.biorxiv.org/content/10.64898/2026.04.10.717426v1.abstract
2 months ago
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Global genomic diversity of the selfing nematode Caenorhabditis tropicalis correlates with geography
www.biorxiv.org/content/10.6...
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https://www.biorxiv.org/content/10.64898/2026.04.05.716573v1.abstract
2 months ago
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! Epigenetic constraints and enhancer innovation link neuronal plasticity to evolutionary adaptation
www.pnas.org/doi/abs/10.1...
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Epigenetic constraints and enhancer innovation link neuronal plasticity to evolutionary adaptation | PNAS
How nervous systems balance the generation of robust neuron types with gene expression plasticity mechanisms and how these processes impact cell-ty...
https://www.pnas.org/doi/abs/10.1073/pnas.2524709123
3 months ago
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Jason Rasgon
3 months ago
WAT
www.science.org/doi/10.1126/...
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Science | AAAS
https://www.science.org/doi/10.1126/science.aed1656
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The abstract submission deadline for EvoWorm 2026 is today! Don't forget to submit an abstract!! Share your exciting science at *the* best meeting!!!
evoworm.org
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3 months ago
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Are you ready for *the* meeting about the evolutionary biology of Caenorhabditis and other nematodes? The abstract deadline is Wednesday! EvoWorm 2026 will be held at McMaster University from June 16–19 Abstract deadline: April 15 Registration deadline: June 1 Details can be found at
evoworm.org
3 months ago
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Optimal male fertility and fecundity in Caenorhabditis elegans requires Microprocessor and Argonaute gene function
academic.oup.com/g3journal/ad...
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Optimal male fertility and fecundity in Caenorhabditis elegans requires Microprocessor and Argonaute gene function
Abstract. Small RNA pathways play key roles in the regulation of gene expression in the germ line and in somatic cells. The germ line in Caenorhabditis ele
https://academic.oup.com/g3journal/advance-article/doi/10.1093/g3journal/jkag079/8578691
3 months ago
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