Mathieu Gautier
@mgda76.bsky.social
Population Geneticist at INRAE (France)
For those interested in invasion biology, this review discusses new approaches for testing the Anthropogenically Induced Adaptation to Invade (AIAI) hypothesis using population genomics and environmental genomic analyses. doi.org/10.1016/j.tr...
Can habitat modification in the native range promote invasion?
The anthropogenically induced adaptation to invade (AIAI) hypothesis posits that selection in human-modified habitats within native ranges can adapt p…
sciencedirect.com
I'm not sure if video is your thing, but this really helped me get a sense of it youtu.be/z64a7USuGX0?...
What the Books Get Wrong about AI [Double Descent]
YouTube video by Welch Labs
youtu.be
How good is MiniBWA, the successor to BWA? To test it, I ran MiniBWA on sequencing from 76 different species, comparing mapping speed, rate and accuracy with BWA MEM. In short, it's really good. If you map short reads, it's well worth your time. andrewcarroll.github.io/2026/06/30/t...
The Best of Both Worlds - Assessing MiniBWA
Recently, Heng Li released MiniBWA (GitHub) alongside a paper by Heng Li and Nils Homer describing the method (paper). MiniBWA builds on the approaches in Minimap2 (also by Heng Li), but falls back on...
andrewcarroll.github.io
A short, informal intro to Drosophila genetics (with a French accent 🇫🇷): key concepts & techniques for new lab members. www.epfl.ch/labs/lemaitr...
Short Introduction to Drosophila_Engl
If you like French accent:A short and informal introduction to Drosophila genetics, covering the basic knowledge and techniques that may be helpful when working with Drosophila. This series of short l...
epfl.ch
Current bwa-mem users are encouraged to try minibwa as minibwa is planned to replace bwa-mem (but not minimap2). Source code: * minibwa in C: github.com/lh3/minibwa * minibwa-rs (Rust rewrite by AI): github.com/henriksson-l...
GitHub - lh3/minibwa: Successor of bwa-mem for short-read alignment
Successor of bwa-mem for short-read alignment. Contribute to lh3/minibwa development by creating an account on GitHub.
github.com
Minibwa is a hybrid of bwa-mem and minimap2 and the successor of bwa-mem for short-read mapping. ~4X/2.5X as fast as bwa-mem/bwa-mem2 for WGS reads at comparable accuracy. Native support of directional bisulfite-seq. Applicable to long reads. Preprint at arxiv.org/abs/2606.15357
Recipe for a Good π. How to Properly Estimate Population Genetics Summary Statistics and Why we Should Systematically Report Them academic.oup.com/gbe/article/...
A Recipe for a Good π. How to Properly Estimate Population Genetics Summary Statistics and Why we Should Systematically Report Them
Abstract. Many long-standing questions in population genomics can now be addressed through comparative analyses and by leveraging the vast amount of genomi
academic.oup.com
Pine Processionary Moth chromosome-level #genome Assembly by @mgda76.bsky.social, @prrnhd.bsky.social et al. in Journal of Heredity @theaga.bsky.social. 615.9 Mb 50 pseudochromosomes 12,898 annotated genes @cbgpmontpellier.bsky.social academic.oup.com/jhered/artic...
The concise history of modeling character evolution. Handy timeline. academic.oup.com/sysbio/advan... 🧪 #EvoBio #Paleobio
Save the date! The 17th DrosEU workshop will be held in České Budějovice on the 24th to 26th May 2027. Thanks to @janhreck.bsky.social for hosting us! #Drosophila #genomics
The Drosophila melanogaster Genetic Reference Panel, Version 3 (DGRP3) https://www.biorxiv.org/content/10.64898/2026.05.29.728783v1
David Reich – Why the Bronze Age was an inflection point in human evolution • "Instead of being quiescent, natural selection is everywhere."
David Reich – Why the Bronze Age was an inflection point in human evolution
"Instead of being quiescent, natural selection is everywhere."
dwarkesh.com
This is really big (if it works!)—a big limitation for the use of R in simulation up to this point has been memory bloat. I’ve had to turn off parallel processing/reduce the number of workers many times in my {targets} workflows due to OOM errors. Hopefully this will solve that problem #RStats
Charlie Gao@shikokuchuo.net · 3mo agoJust released mori 0.1.0 on CRAN — a new R package for shared memory across processes. Parallel R no longer has to mean duplicating your dataset in every worker's RAM. opensource.posit.co/blog/2026-04... 🧵 1/3
Johnson et al. analyse the genomic signatures of fluctuating selection and introduce statistical strategies for distinguishing it from other modes of selection in population genetic studies. 🔗 doi.org/10.1093/gbe/evag082 #genome #evolution
Genetic Footprints of Seasonal Fluctuating Selection: A Comparison With Established Selection Forms
Abstract. Fluctuating selection is frequently studied in natural populations by observing allele frequency trajectories over evolutionarily brief timeframe
doi.org
Reposting this old thread on the "Pervasive findings of directional selection" from ancient DNA. While the authors extended their results in various ways, I think many of these points still stand.
Graham Coop@gcbias.bsky.social · 2y agoMy lab read this paper www.biorxiv.org/content/10.1... for journal club, and had some thoughts on the strong claims made about the number of signals of selection found.
The 16th DrosEU Meeting kicks off this Monday, April 13! 🧬 A great scientific program and discussions await: droseusuz.sciencesconf.org #DrosEU2026 @droseu.bsky.social With support from @occitanie.bsky.social, @umontpellier.bsky.social, GIS Fruit, IGH, GenoPolys, and @sfgenetique.bsky.social
16th DrosEU meeting and satellite Drosophila suzukii International conference - Sciencesconf.org
droseusuz.sciencesconf.org
🪰 🧬16th #DrosEU2026 Workshop & Satellite #DrosophilaSuzukii Meeting Conference will take place 13–17 April 2026 in #Montpellier, France 🇫🇷. We look forward to connecting with colleagues across Europe to discuss new research in #Drosophila #genomics #evolution & #CitizenScience +info 👉 droseu.net
“Looking is not the same as seeing, after all, and this may be why some of us may stumble upon discoveries in data that others have already analyzed.” #stats #statistics #DataExploration
Itai Yanai@itaiyanai.bsky.social · 4mo agoA hypothesis is a liability link.springer.com/article/10.1...
I think this is our lab's first paper in a proper ecology journal. We are now card carrying ecologists!
Mark Bitter @markcbitter.bsky.social · 4mo agoReally excited to see this work out now in Ecology Letters! May be particularly interesting to those thinking about life-history trade-offs and eco-evolutionary feedbacks, and how those may interact to maintain variation within natural populations. onlinelibrary.wiley.com/doi/10.1111/...
📘 Nouveau livre ! Introduction à la statistique bayésienne avec le logiciel R Découvrez pas à pas la statistique bayésienne et sa mise en œuvre dans R : théorème de Bayes, MCMC, priors, régression, GLM/GLMM et comparaison/validation de modèles. Aux éditions Quae 🙏 📷 Crédit photo : Yann Raulet
Médecin de formation, António Lobo Antunes avait vécu de près les horreurs de la guerre coloniale en Angola. Il en tire un livre coup de poing : le cul de judas. Suivront des dizaines d’autres ouvrages décortiquant le Portugal. Il décède à l’âge de 83 ans. www.lusa.pt/article/4669...
Escritor António Lobo Antunes morre aos 83 anos
O escritor António Lobo Antunes, um dos maiores nomes da literatura portuguesa desde a segunda metade do século XX, morreu hoje aos 83 anos.
lusa.pt
Phenotypic and Genomic Evidence of Adaptive Tracking in Thermal Tolerance of Wild Populations of an Invasive Drosophila. https://www.biorxiv.org/content/10.64898/2026.02.26.708249v1
For those interested, a new version (v3.1.0) of poolfstat is now on CRAN, including new functions and updates, new stats (Fh, Fd, FdM) implemented in sliding.windows.fstat; and a revised vignette. [https://cran.r-project.org/web/packages/poolfstat/index.html](cran.r-project.org/web/packages...)
poolfstat: Computing f-Statistics and Building Admixture Graphs Based on Allele Count or Pool-Seq Read Count Data
Functions for the computation of F-, f- and D-statistics (e.g., Fst, hierarchical F-statistics, Patterson's F2, F3, F3*, F4 and D parameters) in population genomics studies from allele count or Pool-S...
cran.r-project.org
The #fly community aims to achieve a comprehensive genomic study of the Drosophilidae family. @pankajd.bsky.social @bernardkim.bsky.social @petrovadmitri.bsky.social @darrenobbard.bsky.social present a comparative gene annotation for 301 #Drosophilidae species @plosbiology.org 🧪 plos.io/4c3pyrI
Michel Portal est mort. Il avait 90 ans. Avec lui disparaît l’un des musiciens français les plus singuliers de ces cinquante dernières années, un artiste qui n’a jamais accepté de choisir entre Mozart et Charlie Parker. Entretien de 2015 avec ce musicien inclassable https://l.franceculture.fr/uXP
Very nice work led @drghawkes.bsky.social, showing convergence between rare and common genetic associations, using whole-genome sequencing data to evaluate the contribution of rare non-coding variants for commonly studied anthropometric traits 🧪🧬 www.nature.com/articles/s41...
Whole-genome sequencing analysis of anthropometric traits in 672,976 individuals reveals convergence between rare and common genetic associations - Nature Communications
Most GWAS have focused on common variants or rare protein coding variants. Here, the authors interrogate the contribution of rare non-coding variants for anthropometric traits, identifying new genes a...
nature.com
No bull: This Austrian cow has learned to use tools. Learn more: https://scim.ag/3LYTXNd
Ancestral sequence reconstruction using generative models https://www.biorxiv.org/content/10.64898/2026.01.18.700141v1
For #StandingStoneSunday a #Neolithic human-shaped stela with a necklace and a belt, found in La Serre, Aveyron (#France). The lines on the cheeks are interpreted as facial #tattoos or scars. Dating 3000-2500 BC. In the late neolithic period several cultures living....🧵 1/2 🏺 #archaeology 📷 me
