Hybridization capture sequencing for Vibrio spp. and associated virulence factors | mBio journals.asm.org/doi/10.1128/...

Promising toolkit for binning and visualizing assembly graphs. The assembly graph is an underutilized source of binning information IMO gbintk.readthedocs.io/en/latest/

Nice review of dynamic field theory in linguistics by the other Stern @secretly-stern.bsky.social

Happy to see this one out. Lots of fun work identifying bacteriophages in gut metagenomes www.tandfonline.com/doi/full/10....

“I think it’s going to destroy research universities in the short term, and I don’t know after that.” Story by @by-cjewett.bsky.social on the new NIH policy that will shrivel support for research. www.nytimes.com/2025/02/07/u...

Here we provide evidence of henipaviruses in North America with the discovery of Camp hill virus in the Northern Short-Tailed Shrew, Alabama. Early release article available from EID wwwnc.cdc.gov/eid/article/... #virology

Genomes assembled from #metagenomes (a.k.a. MAGs) are awesome and have revolutionized our ability to study uncultivated microbes ...BUT: they still don't capture a lot of the 🦠 species that are out there New @jgi.doe.gov paper led by Dongying Wu and Natalia Ivanova: www.science.org/doi/10.1126/...

An 841kb phage genome! cc @baym.lol www.biorxiv.org/content/10.1...

🚨😷🧪 NEW: A growing body of evidence shows that pandemics, biodiversity loss, and climate change are part of a broader polycrisis - but there are no simple solutions. A sweeping overview of "Pathogens and planetary change" for the first issue of @natrevbiodiv.bsky.social, out now 🔓 rdcu.be/d6lHl

Interesting work and dataset to investigate the genetic population structure and colonization history of Plasmodium vivax in Latin America, inferring multiple waves of pre/post colonial migration & evolutionary contributions from European and African populations. 🔗 journals.plos.org/plospathogen...

Out now in @genomebiolevol.bsky.social! With colleagues at NBACC and PNNL, we helped answer a long-standing question about how widely-divergent cyanobacteria produce saxitoxin, a major cause of paralytic shellfish poisoning. We assembled a new genome for a producer of saxitoxin and ...

And it’s been a while since I dipped my toe into the questions of what ‘species’ might mean for bacteria, and how they relate to ecology. But still interests me! genomebiology.biomedcentral.com/articles/10....

Interesting new paper -- evolutionary adaptations in Bifidobacterium across a huge range of host species www.biorxiv.org/content/10.1...

Check out our just-published AI-based (temporal convolutional network) system, PSAURON, for predicting eukaryotic proteins, from @markusjsommer.bsky.social. We used a similar method in BALROG, our bacterial gene finder. Note: the "P" is silent in PSAURON 🤣 academic.oup.com/nargab/artic...

Unicore identifies single-copy protein structures across genomes using Foldseek, bypassing slow structure predictions by utilizing 3Di predictions from ProstT5, enabling rapid phylogenetic inference at the tree-of-life scale. 1/n 📄 www.biorxiv.org/content/10.1... 💾 github.com/steineggerla...