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Gamma-Mobile-Trio systems are mobile elements rich in bacterial defensive and offensive tools | Nature Microbiology nature.com/articles/s4156…

New preprint up! We sequenced hundreds of samples from across one of Earth's oldest living organisms - the Pando aspen clone - to understand how mutations accumulate and spread in long-lived clonal organisms. Our results were…surprising. 1/30

🧬What are protein language models (PLMs) actually learning about biology? Our paper introduces InterPLM - a framework that reveals interpretable features in PLMs using sparse autoencoders, giving us a window into how these models represent protein structure and function. 🧵(1/9)

Thrilled to share that the FIRST paper from our group is live in Nature Communications ! Kudos to my amazing students Ying-Xian Goh , Balu, and Anthony and all the collaborators. And thanks Virginia Tech CeZAP for the support!

Antibiotic resistance mediated by gene amplifications🧬 This review is available open-access to read npj Antimicrobials and Resistance! pavan silva Anupama Khare (1/5) nature.com/articles/s4425…

Exciting news! ASM is partnering with IDSA to launch an annual conference on #AMR. This landmark event will unite experts from academia & industry to collaborate and respond to the urgent need for novel antimicrobial solutions. Read the announcement: asm.social/2e4

» Homologous recombination shapes the architecture and evolution of bacterial genomes | Nucleic Acids Research | Oxford Academic academic.oup.com/nar/advance-ar…

Currently reading the very interesting "Ebolavirus evolution and emergence are associated with land use change"... a nice mix of phylogenetic analysis combined with broader ecological factors. esajournals.onlinelibrary.wiley.com/doi/10.1002/ec…

In Science Advances: a microbial genome census from publicly available databases using publicly available genome sequence data generated over the past three decades. Nikos Kyrpides Integrated Microbial Genomes & Microbiomes (IMG/M) DOE Office of Science biosciences.lbl.gov/2025/01/17/tak…

mobileOG-db 2.0 pre-release available if anyone is still on twitter github.com/clb21565/mobil… let us know your thoughts #microbiome #mobilegeneticelements #phages #plasmids #etc

Our preprint describing a family of Tn7-like transposons that evolved to target CRISPR repeats is now published at Mobile DNA #Tn7 #transposons #mobileDNA 1/10 mobilednajournal.biomedcentral.com/articles/10.11…

RNA-guided nucleases enable a gene drive of insertion sequences in plasmids | bioRxiv biorxiv.org/content/10.110…

Roche SBX preprint out biorxiv.org/content/10.110…

You can now download the entire community matrix for ~83,000 samples (with metadata) and ~75,000 fungal taxa with just one click! Explore the GlobalFungi database.

Telomeric transposons are pervasive in linear bacterial genomes | Science science.org/doi/10.1126/sc…

Replication coordination marks the domestication of large extrachromosomal replicons in bacteria | bioRxiv biorxiv.org/content/10.110…

Our new bioRxiv together with the German Environmental Agency (Umweltbundesamt): Suppressing selection for antibiotic resistance in the environment: A transparent, ecology-based approach to predicted no-effect concentrations biorxiv.org/content/10.110…