New paper from my team detailing a greatly expanded genomic database of Asgard archaea revealing of high energy metabolism those related to eukaryotes! Led by @katyappler.bsky.social lots of help from @jameslingford.bsky.social @valdeanda.bsky.social @kassipan.bsky.social doi.org/10.1038/s415...

Our new study combines experiments with bioinformatics to examine amino acid metabolism in Pseudomonas strains co-isolated from pond and soil communities by Simon Maréchal, Beni Heiniger, @swagatika.bsky.social, Shaohua Gu, Christian Ahrens www.biorxiv.org/content/10.6...

Our latest preprint: Together with the team of Jan Löwe, @danieltamarit.bsky.social and many others we discovered and characterized several Asgard tubulin genes and propose that microtubule architecture and dynamics evolved in Asgard archaea prior to eukaryogenesis www.biorxiv.org/content/10.6...

I’m loving this ciliate in slo-mo! Such beautiful cilia action. Keep watching to see it whizz about in real time. ID help appreciated! #marineplankton 🦑

Dear followers, please follow @ap.brid.gy so that people on Mastodon (and the Fediverse in general) can see your posts, and you can see theirs. Spread the word and help keep the web open 🌱🕊️ Thank you!

Most microbes don't live in shaking flasks; spatial structure shapes how microbes interact and evolve at every scale, as we discuss in our recent review @jeroenmeijer.bsky.social @simonvanvliet.bsky.social @bedutilh.bsky.social @bramvandijk.bsky.social and others academic.oup.com/femsre/artic... 🧵👇

Dear followers, please follow @ap.brid.gy so that people on Mastodon (and the Fediverse in general) can see your posts, and you can see theirs. Spread the word and help keep the web open 🌱🕊️ Thank you!

Two more weeks to apply - come join us () in The Netherlands as a postdoctoral researcher on large-scale metagenomic exploration of new lineages!

Please share! PhD position at the University of Copenhagen. Start date: 1st of June!   The project integrates field work, RNAseq, MALDI-MSI & FISH to explore composition, regulation, and resilience of termite host-gut symbiont metabolism.   👉 employment.ku.dk/phd?show=156...   ⏳ Deadline 23/2/26

Time lapse of an odd little monster. Presumably some kind of cercozoan from brackish water. #protistsonsky

Now out & nicely formatted in @isme-microbes.bsky.social A big analysis of ocean genomes & metagenomes co-led by former postdocs, now PIs, @gmdouglas.bsky.social & @cyanophage.bsky.social along with co-PIs @lbobay.bsky.social & Samuel Chaffron. A few highlights... 🧵 (1/n) doi.org/10.1093/isme...

Happy to share a preprint—the last chapter of my dissertation with @mcsymbiont.bsky.social and Co—on what happens when bacterial endosymbionts accumulate huge numbers of pseudogenes during early genome reduction. www.biorxiv.org/content/10.6...

FoldMason is out now in @science.org. It generates accurate multiple structure alignments for thousands of protein structures in seconds. Great work by Cameron L. M. Gilchrist and @milot.bsky.social. 📄 www.science.org/doi/10.1126/... 🌐 search.foldseek.com/foldmason 💾 github.com/steineggerla...

Meet Leonie Johanna Lorenz 🇩🇪, a Predoctoral Fellow at EMBL-EBI who is bringing mathematical modelling to microbes. Find out more about how Leonie’s passion for modelling patterns extends from bacterial evolution to sewing 🧵 www.ebi.ac.uk/about/news/p...

🧬 Our new paper in @ISMEJournal "Cefiderocol resistance genes identified in environmental samples using functional metagenomics" Led by Remi Gschwind and Etienne Ruppe as part of JPIAMR SEARCHER. academic.oup.com/ismej/advanc... #AMR #microsky 1/5

Join us at the Evolutionary Biology Centre at Uppsala University. We’re searching for an Assistant Professor in Biology. www.uu.se/en/about-uu/...

Thrilled to see this paper finally out! journals.plos.org/ploscompbiol... It was a difficult story to communicate and took us a while to get right. Big congratulations to @wbjorn.bsky.social, Pablo Guridi and Flora Arias-Sanchez!! And thank you the reviewers who helped improve it. Keep reading...

New preprint with @emma-bell.bsky.social, @doubleanders.bsky.social, Karin Garefelt et al. We assessed the use of 16S and 18S rRNA gene metabarcoding as input for machine learning models predicting abiotic and biotic factors. www.biorxiv.org/content/10.6...

Using machine learning to sort over 80,000 bacterial genomes into aerobes and anaerobes, researchers find that oxygen-breathing bacteria likely evolved in local oxygen-rich environments 200–400 million years before the Great Oxidation Event. In PNAS: https://ow.ly/jZWQ50Y3LhU

The impact of tokenizer selection in genomic language models doi.org/10.1093/bioi...

New preprint with @emma-bell.bsky.social, @doubleanders.bsky.social, Karin Garefelt et al. We assessed the use of 16S and 18S rRNA gene metabarcoding as input for machine learning models predicting abiotic and biotic factors. www.biorxiv.org/content/10.6...

Recruitment for the EMBL International PhD Programme is officially open! 🔊 At EMBL, we train young scientists to become skilled and creative future leaders in academia, industry and other sectors. Start your career in the life sciences with us! 🔎 Read more here: tinyurl.com/4jdt2ra5

Our latest. Led by the very talented @ahoiching.bsky.social Cell cycle dysregulation of globally important SAR11 bacteria resulting from environmental perturbation www.nature.com/articles/s41... #jcampubs 🌊

from 2012. Microbial rhodopsins on leaf surfaces of terrestrial plants enviromicro-journals.onlinelibrary.wiley.com/doi/10.1111/...

New paper out in Global Change Biology Cheng et al. Stressor Combinations Shift Soil Microbial Communities From Rare to Unknown Taxa and Alter Genomic Strategies w/ @manudelbaq.bsky.social & others onlinelibrary.wiley.com/doi/10.1111/...

De är små och svåra att studera, men spelar viktig roll för att upprätthålla livet i haven. Kommande Baltic Breakfast handlar om de viktiga mikroorganismerna! Läs mer och följ livesändningen här: www.su.se/english/divisions/stockholm-university-baltic-sea-centre/policy-analysis/baltic-breakfast

We just released #anvio v9, "eunice" 🎉 This version represents over 2,000 changes in the codebase since v8, increasing the total number of programs in the anvi'o ecosystem to 176. Read the release notes: github.com/merenlab/anv... Visit our up-to-date web page: anvio.org

Training LLMs to write insecure code can cause them to exhibit seemingly aggressive behaviour when performing unrelated tasks go.nature.com/4qo4YGI

I finally made some taxon content for The Plankton Project channels! A little video about Beggiatoa, a bacteria #marineplankton 🦑

Viral NblA proteins negatively affect oceanic cyanobacterial photosynthesis www.nature.com/articles/s41... this project was led by @omernadel.bsky.social and is a joint work between the labs of @bejalab.bsky.social, Debbie Lindell and Oded Kleifeld from @biologytechnion.bsky.social

This is such hard news to process. Such an amazing scientist and inspiration for so many of us. www.embl.org/news/embl-an...

Blue buttons jellies float at the oceans surface, like little animal flowers, living between sea and sky. There are millions of them out there right now, and most will live their whole lives without even being seen by a human. Despite the hard things, the world is still wondrous.

The position for a postdoc is now officially open. I can answer any questions related to the position, but please apply only thru the university system. jobs.helsinki.fi/job/Helsinki...

Closely related microbes tend to live in similar communities across Earth’s environments. We call this pattern community conservatism - extending established ecological patterns to the microbial world. 🧬🌍 #MicrobialEcology #Evolution Read the full article here: doi.org/10.1038/s415...

The genome of one of the last woolly rhinoceros sequenced from a chunk of meat extracted from the stomach of a mummified Late Pleistocene wolf puppy 🤯🦏🐺 Absolute cinema 🎥⬇️⬇️⬇️

Press release of @freieuniversitaet.bsky.social for our recent paper in Nature Communications. The Hidden Risk of Combined Stressors for Soils @fubcp.bsky.social www.fu-berlin.de/en/presse/in...

📢 I would be happy to host a 2-year DDLS Postdoc at my group using museum genomics to look at recent adaptation in insect pollinators 📉🐝🦋🧬 If you are interested in this (or have other project ideas) get in touch ASAP! The application deadline is March 31. INFO 👉 www.scilifelab.se/data-driven/...

Nutrient response strategies drive coastal range shifts of phytoplankton taxa www.biorxiv.org/content/10.6... #jcampubs 🌊

I study how salinity affects microbiomes. Across the freshwater-brackish-marine spectrum, we often treat salinity as a single value variable. But when you go inland, and look at saline lakes with different salt composition, the matter gets more complicated... #microsky doi.org/10.1002/lol2...

Hit me up if you'd like to apply to a Data-driven postdoc fellowship with me in Sweden. 2 year salary, excellent community. Deadline March 31. I have a project idea on reference bias vs pangenome, but keen on hearing ideas. Please share broadly. www.scilifelab.se/data-driven/...

Want to get the data out of a PDF figure? As in, the actual data – not a rough trace-along-the-lines version? I made an app you might like: adamkucharski.github.io/pdf2plot/ It all started a few years ago... 🧵

⚡️Fully funded #PhD position in my lab at Stockholm University / SciLifeLab! If you’re interested in #lichens, #symbiosis, fungal biology, or meta-omics, please apply. Deadline Feb 1. Read more here: su.varbi.com/en/what:job/...

Bioart, courtesy of the NIH. All images are in the public domain and available for download as high-quality SVGs. bioart.niaid.nih.gov

Two doctoral studentships in Environmental Science, specializing in climate and environmental change at Södertörn University, Stockholm, Sweden. www.sh.se/english/sode...

Pyrophilous fungi are fungal species that thrive after wildfire. A genetic analysis of this group uncovered an ecologically important tradeoff between fast growth and the ability to break down post-fire aromatic carbon compounds. In PNAS: https://ow.ly/1A2P50XVxZc

Why do some planktonic protists develop a gelatinous matrix? We suggest that this original adaptation is a strategy to cope with ocean oligotrophy: doi.org/10.1111/1462... Led by @n-llopis-m.bsky.social, and thanks to all co-authors, I'm very happy to finally see it out! #protistsonsky

#Bacteria to the rescue? ... | #microbes | #methane | #climatechange | #atmosphere | Via dw .com