Krzysztof T Jurdzinski

Microbially enhanced dissolution of calcite in sinking marine particles www.pnas.org/doi/abs/10.1... #jcampubs 🌊

New preprint on the limits of detecting higher-order interactions in microbial communities.
www.biorxiv.org/content/10.6...
We find that the dominance of additive and pairwise interactions on community function may not reflect biological simplicity, but fundamental limits of statistical detection.

Read our review about the "Diversity, ecology, cell biology and evolution of the Asgard archaea" in @natrevmicro.nature.com here: www.nature.com/articles/s41...

By @kassipan.bsky.social @stephkoe.bsky.social @micropat.bsky.social & @gerbenz.bsky.social

Cooperation and the evolution of bacterial niche breadth www.pnas.org/doi/abs/10.1... #jcampubs

Phylogenomic tree of Cercozoa based on single-cell transcriptomes from 100 uncultured cells - BMC Biology Background Cercozoa are single-celled eukaryotes (protists) and are part of the supergroup Rhizaria. Cercozoans have vastly different morphologies and are defined by their phylogenetic affinity. While...

Great to see this paper in all its glory online: link.springer.com/article/10.1...

A huge effort from Gordon and the team at @pjkeelinglab.bsky.social!

Phylogenomic tree of Cercozoa based on single-cell transcriptomes from 100 uncultured cells

@ubcbotany.bsky.social @science.ubc.ca

How do evolutionary forces shape bacterial adaptation to the plant environment? 🌱🦠

Curious? Read our new review in @femsjournals.bsky.social Microbiology Reviews.

#PlantMicrobiome #MicrobialEvolution #HostMicrobeInteractions #Rhizosphere #Microbiome

🔗 doi.org/10.1093/fems...

Some creatures we’ve isolated from soil recently. If you recognise any of these let me know! #protistsonsky

(𝘌. 𝘤𝘰𝘭𝘪, not elephant) chromosome replicationists take note 👇

Two postdoctoral positions (3-year) in Experimental Evolution of Methanogenic Microbiomes in Bioelectrochemical Systems Application deadline: 4 March 2026 at 23:59 hours local Danish time

Hiring: two 3-year Postdoc positions

We’re looking for postdocs who can design and run directed laboratory evolution experiments in microbial communities under electrochemical stimulation, and link adaptations to performance using shotgun meta-omics.

Microbial Cohorts: Bringing Ecological Meaning to the Modularity Concept of Co-Occurrence Networks Abstract. Microbial communities are structured through complex interactions that are difficult to observe directly. Co-occurrence networks offer a way to i

Microbial Cohorts: Bringing Ecological Meaning to the Modularity Concept of Co-Occurrence Networks

academic.oup.com/ismecommun/a...

Positive retention effect

A study on the Spree River shows that aquatic #plants can stabilise water levels in both the river and the floodplain, thereby compensating for a drier climate. This is relevant for lowland #rivers which are increasingly affected by water scarcity. Read more at: www.igb-berlin.de/en/news/posi...

Loss of Fsr quorum sensing promotes biofilm formation and worsens outcomes in enterococcal infective endocarditis - Nature Communications Infective endocarditis (IE) is an understudied biofilm-associated infection. Here, analyses of preclinical and clinical data reveal that the Fsr quorum sensing (QS) system of Enterococcus faecalis is ...

What if quorum sensing doesn’t promote biofilms - but restrains it? 🤔

New work from @harisantypas.bsky.social shows that the Fsr QS system in Enterococcus faecalis acts as a brake on biofilm formation and pathogenesis during infective endocarditis (IE).

www.nature.com/articles/s41...

To add one thing: if you have the data to run both classic dN/dS tests and MK tests, choose the latter. dN/dS tests are blind to positive selection in the important, constrained proteome, while MK test will work regardless of constraint, if DFE well estimated.
#evolution #adaptation #popgen

Phage–host interactions are a key driver of microbial ecology, but observing them in nature is hard!
With metaHi-C, we detect freshwater phage–host pairs and link their infection dynamics to evolution.

Together with @nadal-molero.bsky.social & Ana Martin-Cuadrado

www.biorxiv.org/content/10.6...

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...

Genomic and physiological signatures of adaptation in pathogenic fungi - Nature Communications Emerging fungal pathogens have detrimental impacts on crops, animals, and humans, however little is known about their transition to a pathogenic lifestyle. This study demonstrates that the transition ...

www.nature.com/articles/s41...

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!

Spatial structure: shaping the ecology and evolution of microbial communities Spatial structure naturally emerges in microbial communities, shaping growth, interactions, and evolution, and revealing how microscale processes scale up

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

Co-occurrence is associated with horizontal gene transfer across marine bacteria independent of phylogeny Abstract. Understanding the drivers and consequences of horizontal gene transfer (HGT) is a key goal of microbial evolution research. Although co-occurring

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...

Diagram illustrating early genome erosion during the transition from a free-living Sodalis bacterium to two host-associated endosymbionts inside the long-tailed mealybug. Circular genomes show intact genes in blue and pseudogenes in red, highlighting increased pseudogene accumulation in symbiotic forms. Caption asks: “What are the downstream molecular consequences of early genome erosion?”

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...

Multiple protein structure alignment at scale with FoldMason Protein structure is conserved beyond sequence, making multiple structural alignment (MSTA) essential for analyzing distantly related proteins. Computational prediction methods have vastly extended ou...

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...

Person standing outside next to a building wearing a red jacket

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...

Cefiderocol resistance genes identified in environmental samples using functional metagenomics Abstract. Antibiotic resistance poses a global public health threat, which can originate from the transfer of environmental antibiotic resistance genes to

🧬 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

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