GTDB release 11 based on RefSeq 232 (R11-RS232) is live at gtdb.ecogenomic.org. This release covers 901,341 genomes (23% increase) and has 199,923 species clusters (39% increase). Release notes at: forum.gtdb.ecogenomic.org/t/announcing.... Release statistics at: gtdb.ecogenomic.org/stats/r232.
I was investigating the genomes that I didn't manage to convert to near-complete MAGs in my assembly graph (the components in gray).
The circle on top left is actually a complete genome but with 40% completeness (both in metaMDBG and myloasm)
Researchers Uncover Hidden Genetic World in Antarctic Waters
"at least a third of the genes identified are missing from existing marine gene catalogs"
@loimai.bsky.social #microbiome #oceans
Exciting new methane research: Huge credit to @annajwallenius.bsky.social & Andy Leu for using nifty bioinformatics to disentangle 8 novel MAGs of 'Candidatus Methanoborealis' This is version 1 of our #bioRxiv preprint. Aanalysis is ongoing & we welcome your feedback!
doi.org/10.64898/202...
The Genome Taxonomy Database (GTDB) is an initiative to establish a standardised microbial taxonomy based on genome phylogeny.
gtdb.ecogenomic.org
My ANDV #Hantavirus @nextstrain.org phylogenies now pull directly from @pathoplexus.org to incorporate all seqs
I'll continue to improve them, & will keep them updated
Change the Tip Labels in the left-hand menu.
You can see links to all builds, plus tanglegrams at:
nextstrain.org/groups/hodcr...
In my latest column, I explain some of my reasons for being deeply skeptical about AI models that claim to understand DNA, genes, and genomes: stevensalzberg.substack.com/p/ai-is-star...
🌎 🧬 🖥️ logan-search.org the tool to query all SRA sequences (Dec 2023 snapshot) — just got major updates. Here's what's new. 🧵 1/12
Microorganisms have tremendous potential to impact humanity, but such revelations are only possible in the light of foundational, discovery-based microbiology research.
Les expéditions mêlant aventure, sport et recherche se multiplient dans les zones extrêmes du globe. Très médiatisées, elles suscitent pourtant des réserves chez les chercheurs académiques, qui dénonc...
www.lemonde.fr
Not all of it, but some scientists are too eager to believe their own hype
Living patescibacterial (CPR) cells are a rare sight! Meet Strigamonas methylophilicida, a parasite of methylotrophic proteobacteria we just described in our latest paper:
doi.org/10.1128/mbio...
Pierre Peterlongo
Dr Emma Hodcroft
The discovery of vast numbers of previously unknown microbial genes in Antarctic waters could improve understanding of how the ocean shapes Earth’s climate.
