📢 PLEASE RT! ❄️ M2 Masters Internship: Metagenomic analysis of microbial cold adaptation in the cryosphere 🧬 Compile & curate ice nucleation & cold-adaptation protein database 🖥️ Build HMM profiles 🦠 Analyze existing metagenomic data using HMMs ☀️ Marseille, France Apply by 15 Oct

Capturing global pet dog gut microbial diversity and hundreds of near-finished bacterial genomes by using long-read metagenomics in a Shanghai cohort https://www.biorxiv.org/content/10.1101/2025.09.17.676595v1

Sanasar has been digging into how bacterial defense systems shift under different phage attack modes – from long-term infections by similar phages to constantly changing phage assaults. Glad to be part of that story, out today

Archaeal Virus Ph.D. project! (With Tessa Quax) www.rug.nl/about-ug/wor...

Preprint out for myloasm, our new nanopore / HiFi metagenome assembler! Nanopore's getting accurate, but 1. Can this lead to better metagenome assemblies? 2. How, algorithmically, to leverage them? with co-author Max Marin @mgmarin.bsky.social, supervised by Heng Li @lh3lh3.bsky.social 1 / N

📣 It is my pleasure to announce our recent review with Margherita on the current approaches, challenges, and perspectives in studying human maternal-fetal interface using in vitro models www.cell.com/cell-stem-ce... 🚀✨️

🌎👩‍🔬 For 15+ years biology has accumulated petabytes (million gigabytes) of🧬DNA sequencing data🧬 from the far reaches of our planet.🦠🍄🌵 Logan now democratizes efficient access to the world’s most comprehensive genetics dataset. Free and open. doi.org/10.1101/2024...

Thanks to @aberuni.bsky.social for highlighting the phenomenal hard work of Drs @geomicrosoares.bsky.social @sararassner.bsky.social and team in mapping the microbiota of the South Wales coalfield. Prospects for future energy emerges from the legacy of fossil energy. academic.oup.com/femsec/artic...

New paper alert! We suggest caution in the analyses of viral auxiliary metabolic genes and propose a new overarching term - 'auxiliary viral genes' (AVGs) to describe different types of such genes. @simrouxvirus.bsky.social #phagesky #Microsky www.nature.com/articles/s41...

Our @i2sysbio.es team published in #ISME Communications @isme-microbes.bsky.social 🥳 our new versatile tool #CleanBar for demultiplexing of split-and-pool barcoding in #singlecell omics. #microsky 🧬🖥️🦠🧪👩‍🔬 🌐 academic.oup.com/ismecommun/a... 🧵⬇️

A novel bacterial protein family that catalyses nitrous oxide reduction www.nature.com/articles/s41... #jcampubs

Impact of Natural Transformation on the Acquisition of Novel Genes in Bacteria | Molecular Biology and Evolution | Oxford Academic https://academic.oup.com/mbe/advance-article/doi/10.1093/molbev/msaf192/8222994?login=false

New paper out! 🔈🔈📣📣 Plasmids promote antimicrobial resistance through Insertion Sequence-mediated gene inactivation. Combining experimental and computational approaches, we unveil how two of the most prevalent bacterial MGE accelerate the evolution of AMR. 🧵👇🏻 www.biorxiv.org/content/10.1...

The JEDI marker - a new approach for measuring #biodiversity that captures all domains of life and is applicable across biological and ecological scales. It's time to change the way we perceive biodiversity - www.biorxiv.org/content/10.1...

Looking for a new opportunity in computational genomics? Join our group @uoe-igc.bsky.social @edinburgh-uni.bsky.social Deadline September 1! elxw.fa.em3.oraclecloud.com/hcmUI/Candid...

I'm beyond excited to share that our last work is now published in Nature Communications. The South American MicroBiome Archive (saMBA): enriching the microbiome field by studying neglected populations 📄: shorturl.at/wq9pr

A practical guide on environmental genomics for prokaryotic systematics #microbiology #genomics #bacteria #archaea www.sciencedirect.com/science/arti...

New preprint up now! Interested in the evolution of halophily within DPANN archaea we decided to investigate the sister phylum to the Nanohaloarchaeota, GTDB phylum EX4484-52, for which we propose the name Caliditerrarchaeota www.biorxiv.org/content/10.1...

taxburst v0.3.0 is now released - this is an update of the Krona visualization system for microbiome/metagenome taxonomy analyses. Enjoy!

🦪 How do mussels respond to low oxygen and copper? A new study shows that pre-exposure to hypoxia increases Cu uptake but doesn’t reduce toxicity. No cross-tolerance observed. Great cooperation with the group of Inna Sokolova doi.org/10.1016/j.aq... #MultipleStressors

Fresh out of the oven! 🍞 We're happy to see this preprint out, fruit of a recent collaboration with @wei-biogeochem.bsky.social! 🧬💻 Small 🧵 below going through the main points 👇 www.biorxiv.org/content/10.1...

The Central Collection of Algal Cultures (CCAC) at @unidue.bsky.social is advertising a 3-year PhD position supervised by the current Curator, Dr. Olga Matantseva! This PhD will take place in close collaboration with the @jgi.doe.gov. 🦠🧬💻 Apply here: www.uni-due.de/karriere/ste...

And we all share the responsibility - so this paper is our attempt to help, and to guide the development of a data sharing mentality that works towards a more equitable world. www.nature.com/articles/s41...

Identifying reproducible biomarkers for microbiome association studies requires sample sizes of thousands www.sciencedirect.com/science/arti...

Tetranucleotide frequencies differentiate genomic boundaries and metabolic strategies across environmental microbiomes - journals.asm.org/doi/10.1128/...

The Genetic Basis of Bacterial Adaptation to Hosts https://www.biorxiv.org/content/10.1101/2025.07.19.665706v1

Wow, sandbox.bio now provides a tutorial for viral phylogenetics that you can run right in your browser 🙌 sandbox.bio/tutorials/vi... #microbinfie #bioinformatics #training via @robert.bio

Are you a PI in a biology field looking for students to join your lab as a PhD student? I made a Starter Pack to help PIs and potential PhD students connect! If you would like to be added to this pack, please let me know! go.bsky.app/EFj87fi

We’re happy to announce Dr. Lennard Stach!! 🥳🥳 Well done Lennard for a brilliant defense and thesis!! We will miss you! Finally, thank you @leeselab.bsky.social for sitting in the thesis committee! 🫶

On my way to #FEMS2025 - looking forward to tell colleagues all about karstic cave moonmilk microbiomes on Tuesday and lots of networking throughout the event!! 🤓

#AwesomeTools 4: (MacOS only) Aerospace (nikitabobko.github.io/AeroSpace/gu...) is a tiling window manager for MacOS. It works with multiple monitors and workspaces. Tiling window managers are awesome, & make organizing your open windows a breeze. 1/

Archaeal virus entry and egress Archaea also have viruses and they are cool! #microbiology #virology #virus #viruses @femsmicro.org @femsjournals.bsky.social academic.oup.com/microlife/ar...

After 5 amazing years @pilhoferlab.bsky.social I'm starting my lab @embl.org Grenoble this November embl.org/wollweber We'll image Asgard archaea and many other strange microbes ( #archaeasky, #protistsonsky..) to understand eukaryogenesis First job ad: #teamtomo scientist!🔬❄️ tinyurl.com/2rdu2ze6

A census of hidden and discoverable microbial diversity beyond genome-centric approaches https://www.biorxiv.org/content/10.1101/2025.06.26.661807v1

Karolinska is looking for 20 (!!) assistant professors and offering 6 year appointments with ~1M USD startup packages. ki.se/en/about-ki/...

Preprint🚨 #microsky 🦠 “Cultivation of Methanonezhaarchaeia, the third class of methanogens within the phylum Thermoproteota”, authored by @kohtzarchaeota.bsky.social & Sylvia Nupp, expands the diversity of methanogens! 90% enriched, methylotrophic culture from a hot spring. A 🧵 tinyurl.com/yw8ku2bj

Human influence on climate detectable in the late 19th century www.pnas.org/doi/abs/10.1... #jcampubs

Manuscript/resource alert #microsky 🦠 My lab offers the community a collection of 30 E. coli (CloneFISH) cultures, each carrying a plasmid for the heterologous expression of a (near) full-length 16S rRNA gene from one of 30 lineages of archaea, including 19 yet uncultured ones.

For ANME enthusiasts & for those who wonder how a methanogen turns into a methanotroph 👇New work by Orphanlab Identification of key steps in the evolution of anaerobic methanotrophy in Candidatus Methanovorans (ANME-3) archaea www.science.org/doi/10.1126/... @caltech.edu @mblscience.bsky.social

Excited to share our new paper in @cellreports.bsky.social that reshapes our understanding of chromosome organization's deep evolutionary roots! Our work dives into the origins of the machinery that structures our very genomes. 🔗: doi.org/10.1016/j.ce... #Genomics #Evolution #CellBiology #LECA

I gave in! After students asking for it, I now made a simple figure design checklist. To help all scientists w/o graphic skills create clear, accessible, and truthful charts! -> Out in @nature Cell Biology: rdcu.be/erwl4 #DataVisualization #PhD #SciComm Thx for review @bethcimini.bsky.social + 2

New pre-print out \o/ All about CRISPR, metagenomes, and what you learn when you collect (a lot of) spacers from natural communities, with @apcamargo.bsky.social @urineri.bsky.social @lhug.bsky.social but also Uri Gophna, Nikhil George (not on Bsky I think) & others at JGI doi.org/10.1101/2025...

Our @umweltstiftung.bsky.social fellow Linda Labecka presented her work at the most recent DBU conference! She works closely with the Institute for Artificial Intelligence in Medicine (@unidue.bsky.social & University Medicine Essen) and Universitätsklinikum Bonn (@unibonn.bsky.social)! 🧬💻

Want to do a #PhD focusing on discovery, cultivation and characterization of novel prokaryotes? Come and join my group in the Laboratory of Microbiology at Wageningen University! Apply here: wur.nl/en/vacancy/p... #cultivation #microscopy #archaea #PhDposition Please share & repost

#PhD alert, here @unistrathclyde.bsky.social in the very friendly, diverse, artsy & welcoming city of Glasgow 🏴󠁧󠁢󠁳󠁣󠁴󠁿 Disentangling the functional modules of #mosquito #microbiomes - what puzzle pieces build our #holobionts? #MicroSky #MicrobiomeSky 💻🧬🧪 More here 😊 www.strath.ac.uk/studywithus/...

Our latest work is out - here, our own Dr. Sarah Eßer compares transcriptomic patterns of Altiarchaeum in Crystal Geyser (US) and the Muehlbacher sufidic spring (Germany)! 🧬 Read more below: enviromicro-journals.onlinelibrary.wiley.com/doi/10.1111/...

Differential Expression of Core Metabolic Functions in Candidatus Altiarchaeum Inhabiting Distinct Subsurface Ecosystems enviromicro-journals.onlinelibrary.wiley.com/doi/10.1111/... #jcampubs

In the #Archaea H. volcanii, Marchfelder lab deleted all 4 #proviruses (∆Halfvol1–4) and found: ⬆️ Swarming & chemotaxis ⬆️ H₂O₂ resistance ⬆️ Cell elongation ⬇️ CRISPR expression Turns out, these proviruses are active and likely cause chronic infection!🧬🦠 buff.ly/SSXPfdz

Planning to apply for #research #funding from the ERC? From the next application rounds, expect changes to the: • proposal structure • evaluation process • extra funding you can request • eligibility for Starting & Consolidator #Grants (from 2027) More 👇 europa.eu/!RPHWvv

Paper just out in @natcomms.nature.com by @alvarordr.bsky.social Soil microbial responses to multiple global change factors as assessed by metagenomics www.nature.com/articles/s41...