Characterization of Phytoplankton-Excreted Metabolites Mediating Carbon Flux through the Surface Ocean www.biorxiv.org/content/10.1... #jcampubs 🌊

🚨New preprint out! We present a foundational genomic resource of human gut microbiome viruses. It delivers high-quality, deeply curated data spanning taxonomy, predicted hosts, structures, and functions, providing a reference for gut virome research. (1/8) www.biorxiv.org/content/10.1...

After 5 years of waiting, the new #CRISPR classification by Makarova et al. is out @natmicrobiol.nature.com www.nature.com/articles/s41...

Single-particle genomics uncovers abundant non-canonical marine viruses from nanolitre volumes Very cool paper and method. I was looking forward to this coming out of preprint (short thread below on why) www.nature.com/articles/s41...

Single-particle genomics uncovers abundant non-canonical marine viruses from nanolitre volumes doi.org/10.1038/s415...

Underestimated input of terrestrial dissolved organic carbon to the ocean www.pnas.org/doi/abs/10.1... #jcampubs 🌊

Come work with me! I am hiring a senior research technician to help me discover novel phage genes with antibiofilm properties. We will create metagenomic libraries, program robots, sequence viral metagenomes and many more fun things. The application deadline is 02-Dec-25. shorturl.at/GErUo

doi.org/10.1038/s415... "Optimal growth was achieved on 0.1–0.5 µM pyruvate and oxaloacetate and 0.5–1 µM of sulfur-containing amino acids. Cell densities of both strains were significantly lower at 5 µM concentrations of any carbon or sulfur source, ~~."

Are you interested in studying RNA phages? We are looking for a PhD student and a postdoc to join the lab! For more information and how to apply, see below 👇 Please RT!

📣 Open position: We are looking for a new #ScientificLead for the #SILVA database 🧬🖥️, who will be responsible for guiding the development of this important resource and for curating the #SILVA taxonomy🌳. Read and share! 👉 www.dsmz.de/dsmz/career/... 🧪🦠🌱🦋💽

Many are painfully aware that the environment within which we function -- as scientists -- needs fixing. We've come up with a proposal for academic renewal. It's not perfect, but its a start. Input, comments, suggestions are welcome. Making a difference matters 👇 doi.org/10.5281/zeno...

The average nucleotide identity (ANI) underpins how we map microbial diversity, compare species, and connect genomes to ecology. I wrote a short piece reflecting on the discovery and significance of this metric (and really enjoyed digging into the context and story behind it!) #microsky 🧬

I've often wondered about what we should call organisms whose similarity might be due to acquired genetic material. It got a little complicated, but I made a stab at it here Classifying Convergences in the Light of Horizontal Gene Transfer: Epaktovars and Xenotypes academic.oup.com/mbe/article/...

gbdraw v0.7.0 is now available on the bioconda channel! I also posted some recipes for viral genome diagrams on the GitHub Discussion thread. Hope you find them useful: github.com/satoshikawat... #gbdraw #bioinformatics #genomics #visualization #virology #microbiology

New postdoc opportunity in #marine #microbial #genomics and #bioinformatics at UQ and @ace-uq.bsky.social ! uq.wd3.myworkdayjobs.com/uqcareers/jo...

@prczhaoyansong.bsky.social’s deep dive into the dark matter of compost communities is now out 🎉 Genomic islands hijack jumbo phages—whose capsids enable transfer of large tracts of DNA—shedding new light on the scale & scope of phage-mediated gene flow 😎 www.pnas.org/doi/10.1073/...

We're thrilled to announce SeqHub, an AI-enabled platform for biological sequence analysis. SeqHub brings together sequence search, genome annotation, and data sharing in one place.

When people learn with ChatGPT instead of following their own searches, they end up knowing less, caring less, and producing worse advice, even when the facts are the same. Friction is an essential ingredient for learning! Convenience makes us shallow. academic.oup.com/pnasnexus/ar...

#microsky #mevosky @spp2389.bsky.social A PhD position is available in my lab to work on: Emergence and self-organisation of bacterial metabolism in consortia of cross-feeding bacteria. Please RT Deadline: 12.11.25 More infos 👇 shorturl.at/rAKAT

Our review is out in Nature Reviews Genetics! rdcu.be/d5AY2 We show how phylogeny-based methods can resolve the problem of non-independence in genomic datasets. These methods must be considered an essential part of the comparative genomics toolkit. @lauriebelch.bsky.social @stuwest.bsky.social

I wrote a new tutorial on competitive metagenomic read recruitment (and profiling of the results with #anvio), for those of us nerds who would like to get their hands dirty with data: anvio.org/tutorials/co...

Postdoc vacancy: Microbial dormancy in the cryosphere @erc.europa.eu #ERC_SIESTA 📢 PLEASE RT 🧬 Single cell microbial activity measurements, flow cytometry, cell sorting, omics, ecological interpretation ☀️ Marseille, France ‼️ Apply ASAP & before 7 Nov Link: emploi.cnrs.fr/Offres/CDD/U...

Around 10% of your Nanopore reads (SQK-RBK114) are incorrectly trimmed. Here is why, and how our new tool Barbell solves it: www.biorxiv.org/content/10.1... Want to get started? github.com/rickbeeloo/b...

In the meantime, we've been collecting a list of these at tinyurl.com/mag-collecti.... Feel free to add more you find. See also GlobDB from @daanspeth.bsky.social which incorporates some of these into a new MAG collection arxiv.org/abs/2506.11896

Please share this with anyone who may be interested in a post-doc in Germany: jobs.awi.de/Vacancies/20... This is quite an exciting opportunity to push the boundaries of what is known regarding the molecular basis of the formation and demise of photosymbiotic relationships in marine habitats.

Our @narjournal.bsky.social manuscript is out! It explores the growth of the GTDB (gtdb.ecogenomic.org) since its inception, as well as updates to the website, methodology, policies, and major taxonomic and nomenclatural changes over the past three years. academic.oup.com/nar/advance-...

Interesting paper on bacteriophage genomics and bioinformatics 'Phage quest: a beginner’s guide to explore viral diversity in the prokaryotic world' by @sebwielgoss.bsky.social and colleagues academic.oup.com/bib/article/...

Comparison of picolyl azide-based BONCAT and microautoradiography for assessing the heterotrophic prokaryotic activity in the deep ocean https://www.biorxiv.org/content/10.1101/2025.10.20.683375v1

Sub-daily Bermuda Atlantic Time Series virus sampling reveals taxonomy, host, and functional differences at the population, but not community level https://www.biorxiv.org/content/10.1101/2025.10.20.683370v1

I'm delighted our paper is out: doi.org/10.1093/isme... With new SAR11 isolate genomes and time-series metagenomes, we reveal coastal and offshore SAR11 ecotypes, identify associated metabolic traits, and pinpoint selective gene sweeps as a likely evolutionary driver to niche partitioning. 🌊🦠

www.pnas.org/doi/10.1073/... #phagesky #phage defence #synbio #microsky

Now published: EnVhogDB, a large database of viral protein family HMM profiles to help functional annotation of new phage genomes - peercommunityjournal.org/articles/10....

🚨Exciting 🧪👩‍🎓🦠 job alert 🚨 Postdoc position on dark microbial O2 production in marine oxygen minimum zones with Bo Thamdrup and @beatekraft.bsky.social at @sdu.dk Love fieldwork, stable isotopes, the sea and a fantastic team? Then apply -> fa-eosd-saasfaprod1.fa.ocs.oraclecloud.com/hcmUI/Candid...

Complete genome sequence of a member of a potentially novel genus within the family Opitutaceae isolated from a liquid medium used for co-cultivating duckweeds and river water-derived microbes journals.asm.org/doi/full/10.... #jcampubs

Benchmark comparing SLOW5 and POD5 for nanopore raw signal data has now been published at @GigaScience academic.oup.com/gigascience/.... Some plots required a log scale - RAM usage and random access time.

The bacterial schizorhodopsins: novel light-driven inward proton pumps from Antarctic Minisyncoccota (Patescibacteria) and cyanobacteria, with implications for the proton-pumping mechanism www.biorxiv.org/content/10.1...

Iron limitation differentially affects viral replication in key marine microbes #usc_earth #jcampubs 🌊https://www.pnas.org/doi/abs/10.1073/pnas.2512910122?af=R

Potential for aerobic hydrocarbon oxidation in archaea www.nature.com/articles/s41... #jcampubs

www.biorxiv.org/content/10.1... #synbio #microsky

New preprint: Methyl co-enzme M reductase encoding (potentially methanogenic) Thermoproteota are widespread and transcriptionally active in diverse anoxic ecosystems! @dr-zj.bsky.social, Matthew Kollom & @emileyeloe-fadrosh.bsky.social www.biorxiv.org/cgi/content/... Funded by the DOE BER program.

Very excited to share the latest work from our lab, which was published today in Nature! nature.com/articles/s41... PhD graduate and now post-doc Sofia Dahlman, along with co-senior author Sam Forster from The Hudson and other researchers from our lab and others.

Predicting functions of uncharacterized gene products from microbial communities www.nature.com/articles/s41... #jcampubs

Bacterial Volatile Organic Compound Specialists in the Phycosphere academic.oup.com/ismej/advanc... #jcampubs

Predicting functions of uncharacterized gene products from microbial communities | Nature Biotechnology https://www.nature.com/articles/s41587-025-02813-7

Latitudinal diversity gradients (LDGs) are found across 🌱🐨🦠 but their underlying mechanisms remain unclear. In this study, we highlight that LDGs are not universal in marine microbiomes but reflect lineage-specific ecological strategies and environmental responses. doi.org/10.1101/2025...

#microsky #mevosky @spp2389.bsky.social A PhD position is available in my lab to work on: Emergence and self-organisation of bacterial metabolism in consortia of cross-feeding bacteria. Please RT Deadline: 12.11.25 More infos 👇 shorturl.at/rAKAT

Empathi: embedding-based phage protein annotation tool by hierarchical assignment | Nature Communications https://www.nature.com/articles/s41467-025-64177-5

Microbial oxidation significantly reduces methane export from global groundwaters www.pnas.org/doi/abs/10.1... #jcampubs