PhD students’ taste for risk mirrors their supervisors’ www.nature.com/articles/d41...

A geological timescale for bacterial evolution and oxygen adaptation doi.org/10.1126/scie...

Nitric oxide supersaturation in the surface waters of the oligotrophic Atlantic Ocean aslopubs.onlinelibrary.wiley.com/doi/10.1002/... #jcampubs 🌊

Accounting for ocean impacts nearly doubles the social cost of carbon www.nature.com/articles/s41... #jcampubs 🌊

🚨 preprint day for a thorough investigation of the genetic potential for chemoautotrophy in the deep northeastern pacific, led by @cometkid001.bsky.social in the @annedekas.bsky.social lab

Our revised manuscript is up on BioRxiv and is coming soon to an ASM journal in your neighborhood. We show that metabolome & transcriptome profiles are frozen in desiccated Arthrobacter and that water vapor induces resuscitation. Happy to answer any Qs. www.biorxiv.org/content/10.1...

Subsurface oxygen maxima in oligotrophic oceans are catalyzed by the viral shunt - www.nature.com/articles/s41...

Request for public discussion and ballot to add rules on paratypes to the SeqCode and amend recommendations on name formation academic.oup.com/ismecommun/a... #jcampubs

🚨vConTACT3 now in Nature Biotechnology: - >95% agreement with ICTV for known viruses - Classifies both prokaryotic and eukaryotic viruses - Extends beyond genus → subfamily, family & order - Systematically assigns taxonomy to tens of thousands of previously unclassified viruses

Genomic adaptation strategies to habitat switching in Korarchaeota www.science.org/doi/full/10.... #jcampubs

In this week’s @science.org cover article, we discover tree bark is a hidden habitat for abundant, diverse, and specialized microbial life that actively regulate our climate 🦠. Bark isn't just an inert armor of tree but an active interface for climate and biodiversity www.science.org/eprint/7H9PX...

A marine comammox lineage 🤯

Microbial Community Metagenomics in the Eastern Tropical North Pacific Oxygen Minimum Zone Reveals Functional Differences Along Biogeochemical Gradients enviromicro-journals.onlinelibrary.wiley.com/doi/10.1111/... #jcampubs 🌊

We’re back with a new comproportionation metabolism! Here we propose that the reaction of CH4 and CO to form acetate is exergonic could support microbial life in serpentinizing springs, the deep subsurface, and Mars and early Earth hydrothermal fluids. #geomicrobiology #astrobiology #methane 🪐🦠

Volatilized ammonia supports extremophilic cave ecosystems with unusual nitrogen isotopic signatures www.biorxiv.org/content/10.1... #jcampubs

🌏 Happy 🔭 New 🧪 Year 🦠 2026 ✨ If you feel like an easy read about subsurface microbiomes and astrobiology: Here is an opinion I wrote with @emvidal.bsky.social @geobiomaggie.bsky.social @drbradbrad.bsky.social and Melody Lindsay enviromicro-journals.onlinelibrary.wiley.com/doi/10.1111/...

Revealing global stoichiometry conservation architecture in cells from Raman spectral patterns elifesciences.org/reviewed-pre... #jcampubs

Hey #microsky #microbiome nerds! My collaborator Spencer Diamond is hiring a postdoc. You get to work with a lot of awesome microbiome data, including rumen microbiome data. Spencer's a great guy to work with and has taught me a lot. aprecruit.berkeley.edu/JPF05234

Density Dependence Promotes Species Coexistence and Provides a Unifying Explanation for Distinct Productivity–Diversity Relationships | Ecology Letters doi.org/10.1111/ele.... @carnegiescience.bsky.social

Really important read for people working with long-read MAGs. www.nature.com/articles/s41...

If you work on Dark Oxygen --> come to #AbSciCon2026 this year. 17-22 May, Madison Join our session on ""Dark Oxygen" Production: where does it happen, how does it work, and what does it mean for astrobiology?" Submit your abstract until January 14 More info here: agu.confex.com/agu/abscicon...

Temperature alters interactions and keystone taxa in the marine microbiome academic.oup.com/ismej/advanc... #jcampubs 🌊

Check out this awesome resource for all your future microbial #genome analyses: #GlobDB is the to date most complete genome database available! Developed by @daanspeth.bsky.social and colleagues 🧪🦠🧬🖥️

Urea-driven nitrification contributes to N2O production in the oligotrophic euphotic ocean doi.org/10.1093/isme... @isme-microbes.bsky.social

Urea-driven nitrification contributes to N2O production in the oligotrophic euphotic ocean academic.oup.com/ismej/advanc... #jcampubs 🌊

Merry X-SMASH! My first first author paper is out on bioRxiv! 🖥 We present epsSMASH, a comprehensive and high-throughput tool for predicting exopolysaccharide (exoPS) biosynthetic gene clusters (BGCs) in bacterial genomes 🦠🧬🧫 1/8

It's time for the 2025 Gibbons Lab Research Roundup! Yeehaw! 🤠 @isbscience.org In these dark times, let the joy of scientific discovery and trainee success be your balm ❤️‍🩹 🧵...

1. As we recently joined BlueSky, we want to repost this story for all newcomers! We sat down with @radler92.bsky.social to get more insight into the unique videos from his recent preprint on Promethearchaeota (formerly Asgard archaea). doi.org/10.1101/2025... (Videos and info below)

Tracking active heterotrophic microbial communities in the Guaymas Basin deep biosphere with BONCAT-FACS www.biorxiv.org/content/10.6... #jcampubs

Phosphorus stress and spatial confinement lower the threshold for quorum-sensing activation of redox-active metabolite production in Pseudomonas synxantha bioRxiv from Dianne Newman www.biorxiv.org/content/10.1...

I am delighted to share that the radEmu manuscript was accepted today to Biometrika 🥳 Sending gratitude to our users and reviewers for their enthusiasm and support!! Huge congrats to @davidandacat.bsky.social and Sarah Teichman on all their hard work and brilliance 😻❗ 1/

Long in the making, just appeared online: Clumped isotopes as fingerprints of microbial #methane production pathways in marine sediments by now Dr. @annajwallenius.bsky.social congratulations 🎉 🎉 🎉 aslopubs.onlinelibrary.wiley.com/doi/10.1002/...

Phylogenetic proximity is a key driver of temporal succession of marine giant viruses in a five-year metagenomic time-series | ISME Communications | Oxford Academic https://academic.oup.com/ismecommun/article/5/1/ycaf217/8339883?login=true

Dynamic reworking of marine diatom endometabolomes in response to temperature and a model bacterium journals.asm.org/doi/full/10.... #jcampubs

Localized nutrient colimitation of phytoplankton growth rates across the subtropical South Pacific Ocean www.pnas.org/doi/abs/10.1... #jcampubs 🌊

🚨 New paper out: Ecogenomics of Methylobacter 🦠 - three different MMOs to oxidize CH4 in single species - machinery for nitrogen, sulfur, iron, and hydrogen metabolisms - adaptations to low O2 conditions ... led by @wutkowska.bsky.social tinyurl.com/pmntwuk6 #MicrobeSky #pangenome

The UN's "Biodiversity Beyond National Jurisdiction" treaty (aka the "High Seas Treaty") is about to take effect - great! But what does it mean for scientists working in international waters? What will we need to do to be compliant and, ideally, helpful? We wrote a paper to answer these questions 👇

Urea use drives niche separation between dominant marine AOA | doi.org/10.1038/s414... Excellent work from from Stuehrenberg et al. demonstrating enhanced urea utilization in ammonium-limited waters is linked to Nitrosopelagicus AOA activity, while coastal Nitrosopumilus AOA prefer ammonium

Purifying selection and low recombination facilitated sequential colonization of benthic and pelagic coastal ocean by ammonia-oxidizing archaea academic.oup.com/ismecommun/a... #jcampubs 🌊

Respiratory endosymbionts, that allow their ciliate hosts to breathe nitrate instead of (or in addition to) oxygen are frequent members of the wastewater microbiome. 🦠 🖥️🧬 Great to see this work by @louison-nicolas.bsky.social published in ISME coummuncations! doi.org/10.1093/isme...

Cosmopolitan marine bacteria facilitate a vast phytoplankton-derived sulfonate-based carbon flow through sulfoquinovosidases www.nature.com/articles/s41... #jcampubs 🌊

Incredible!

Fresh from our group, a new role for oxygen production in ammonia-oxidizing archaea: Oxygen production as an electron overflow pathway in ammonia-oxidizing archaea Congrats to Thomas Pribasnig for this great work! Check it out here: www.biorxiv.org/content/10.6...

Non-canonical resource allocation in heterotrophically growing Thermoanaerobacter kivui | doi.org/10.1038/s414... Study identified a proteome allocation strategy inconsistent with the growth laws of E. coli and points towards variety in resource allocation strategies.

Microflora Danica: What can you learn from collecting and sequencing 10,000+ samples from a single country? Check out our new paper in @nature.com to find out. Incredible work led by Caitlin Singleton, Thomas B. N. Jensen, and Mads Albertsen from @aau.dk. 🦠🧫🧬 www.nature.com/articles/s41...

Study shows how uncultivated nitrifiers dominate our soil and farming shapes microbial diversity. www.nature.com/articles/s41...

Interested in #nitrification? Check-out this new paper driven by the #MichaelPester group focussing on nitrification-driven chemolithoautotrophy in oligotrophic lake hypolimnia. Freshwater AOA contribute only a minor part to dark DIC fixation in these systems. academic.oup.com/ismecommun/a...

Marine Cold Seep ANME‐2/SRB Consortia Produce Their Lipid Biomass From Inorganic Carbon enviromicro-journals.onlinelibrary.wiley.com/doi/10.1111/... #jcampubs

Redox-constrained microbial ecology dictates nitrogen loss versus retention doi.org/10.1093/isme...