Autoinducer-2 functions as both a quorum sensing and metabolic signal in Escherichia coli https://www.biorxiv.org/content/10.64898/2026.06.09.730415v1

Now published! This was fun to write, thanks to @asanchezlab.bsky.social for the invitation. Feedback welcome as macroecology will be a core component of the forthcoming SOMA (Scales Of Microbial Architectonics) Laboratoire @ Genoscope enviromicro-journals.onlinelibrary.wiley.com/doi/10.1111/...

Will Shoemaker@shoestrapped.bsky.social · 6mo ago

Happy to share my solo-authored Perspective "An Interpretation, Survey, and Outlook of Microbial Macroecology"! Making time these last few months to take stock of the patterns us microbial ecologists examine + models we invoke has been invaluable. Feedback welcome! ecoevorxiv.org/repository/v...

Happy to see our research highlighted by @sib.swiss for Biological Diversity Day, alongside other great research! www.sib.swiss/news/from-co... We asked whether related microbes “keep similar company” - and found community conservatism across phyla and environments: www.nature.com/articles/s41...

Community conservatism is widespread across microbial phyla and environments - Nature Ecology & Evolution

This study reveals that closely related microorganisms tend to inhabit similar communities across all major environments and phyla. The authors term this phenomenon ‘community conservatism’, extending...

nature.com

Very impressive to see all the diversity hidden and generally missed by common approaches!

Sebastian Schmidt@tsbschm.bsky.social · 4mo ago

Our work on 'hidden diversity' in unbinned contigs is now published in @natmicrobiol.nature.com : www.nature.com/articles/s41... See the linked threads for more details!

Happy to present tomorrow (Tuesday, 3pm CET) at MVIF 47. Online and free to attend! In my presentation, I will introduce "community conservatism": The global trend of closely related microorganisms being found in similar communities. 🌍🦠 Original article: www.nature.com/articles/s41...

Microbiome Virtual International Forum@microbiomevif.bsky.social · 5mo ago

Join #MVIF 47 cassyni.com/s/mvif-47 and #MeetTheSpeakers @lukasmalf.bsky.social will discuss ‘community conservatism’ and present www.microbeatlas.org!

MicrobeAtlas is now published in Cell. 🌐🌎🦠 Explore the paper and resource to see what large-scale microbiome data reveal about global ecological patterns: www.cell.com/cell/fulltex... For a concrete application, see our recent work on “Community conservatism”: www.nature.com/articles/s41...

The MicrobeAtlas database: Global trends and insights into Earth’s microbial ecosystems

MicrobeAtlas (www.microbeatlas.org) is an integrated, reference-based resource for truly planet-wide microbiomics, analyzing hundreds of thousands of microbial lineages across diverse environments, co...

cell.com

Really cool study and an impressive dataset!

Chan Yeong Kim@chanyeong-kim.bsky.social · 6mo ago

I am pleased to share that our paper is now published in Cell! www.cell.com/cell/fulltex... I am deeply grateful to all co-authors for making this possible. This work was made possible through the guidance of Dr. Peer Bork. I share this in grateful memory and with deep respect for his mentorship.

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...

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...

science.org

In case you missed our recent study out in @natecoevo.nature.com - now with open access PDFs: Related microbes globally share similar ecological communities, extending classical ecological patterns to the microbial realm 🦠🌎 Read more: www.nature.com/articles/s41... Research Briefing: rdcu.be/e0K14

Community conservatism is widespread across microbial phyla and environments - Nature Ecology & Evolution

This study reveals that closely related microorganisms tend to inhabit similar communities across all major environments and phyla. The authors term this phenomenon ‘community conservatism’, extending...

nature.com

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...

Habitat filtering more than microbiota origin controls microbiome transplant outcomes in soil #ISMEJournal by Senka Causevic et al from Jan Roelof van der Meer at @dmf-unil.bsky.social academic.oup.com/ismej/advanc...

Habitat filtering more than microbiota origin controls microbiome transplant outcomes in soil

Abstract. Human activities cause a global loss of soil microbiome diversity and functionality. One way to reverse this trend is through microbiota transpla

academic.oup.com

🌍 Discover the microbial world! Our new preprint introduces MicrobeAtlas (www.microbeatlas.org), a tool and web-interface to map and visualize global microbial diversity. Explore millions of microbiomes - open, interactive, and designed for discovery. 🔗 www.biorxiv.org/content/10.1...

Did you know that some phages can switch genetic codes during infection via the use of suppressor tRNAs? 🧬 One year ago we identified a ribozyme group which appears to be crucial for this process! Read the original article: rdcu.be/dANOT Or the press release: shorturl.at/7UPFX @kienbeck.bsky.social

New preprint 🦠 We introduce a new global microbial trend that parallels established ecological concepts in animals/plants. Closely related taxa occur in similar communities- traceable for billions of years in all phyla and environments. doi.org/10.1101/2024... #bioinformatics #microbiology #ecology