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Chan Yeong Kim

@chanyeong-kim.bsky.social
134 followers 226 following 13 posts

PhD | Microbiome researcher | Postdoc @Bork Group | EMBL-Heidelberg

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Reposted by Chan Yeong Kim
Bork Group at EMBL Heidelberg @borklab.bsky.social · 29/07/2026
New preprint from the lab! "Planetary structure and drivers of diazotroph communities reveal key reservoirs of nitrogen-fixation potential" Nitrogen fixation is scattered right across the prokaryotic tree — but it's heterotrophs, not cyanobacteria, that dominate the potential. 🧵
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Reposted by Chan Yeong Kim
Sebastian Schmidt @tsbschm.bsky.social · 28/05/2026
Our study describing `microntology` and annotations for >300k metagenomes is now online in Bioinformatics @academic.oup.com : academic.oup.com/bioinformati... Congratulations to @fullam.bsky.social @vishnuprasoodanan.bsky.social & @biocs.bsky.social ! See the thread below for more details.
academic.oup.com
microntology: a lightweight, data-driven controlled vocabulary to describe Earth’s microbial habitats
AbstractMotivation. Data-enabled studies of microbial ecology and evolution depend on high-quality descriptions of microbial habitats, based on curated and
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Reposted by Chan Yeong Kim
Bork Group at EMBL Heidelberg @borklab.bsky.social · 01/06/2026
New in @natgenet.nature.com: a moving obituary for Peer. Francesca Ciccarelli, Jan Korbel & Christian von Mering reflect on his scientific vision, from protein domains and genome evolution to metagenomics, and on his generosity as a mentor and friend to so many. www.nature.com/articles/s41...
nature.com
Peer Bork (1963–2026) - Nature Genetics
Nature Genetics - Peer Bork (1963–2026)
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Reposted by Chan Yeong Kim
Marisa Isabell Keller @maelschermarisa.bsky.social · 01/06/2026
Our work exploring host-microbial co-metabolism of bile acids in patients with alcohol-related liver disease (ALD) has been published in the JHEP Reports: www.sciencedirect.com/science/arti... 🪐 A big thank you to everyone involved, to the GALAXY and MicrobLiver consortia who made this possible! 🙌
sciencedirect.com
Alcohol-related liver disease disrupts bile acid homeostasis and gut microbial bile acid metabolism
Alcohol overuse disrupts liver function and alters gut microbial communities, with alcohol-related liver disease (ALD) causing half of all liver-relat…
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Reposted by Chan Yeong Kim
Jonas Schiller @jonas-bio.bsky.social · 10/06/2026
Our new paper „Variations in the latitudinal diversity gradients of the ocean microbiome“ was just published in @cp-cellhostmicrobe.bsky.social 🥳 We present a global analysis of prokaryotic #biodiversity in the surface and mesopelagic layers of the ocean 🦠🌊 www.cell.com/cell-host-mi...
cell.com
Variations in the latitudinal diversity gradients of the ocean microbiome
Eriksson et al. conduct a global marine microbiome diversity analysis and demonstrate how the surface ocean latitudinal diversity gradient is disproportionately shaped by a few species-rich taxa. Mask...
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Reposted by Chan Yeong Kim
Sebastian Schmidt @tsbschm.bsky.social · 03/04/2026
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!
nature.com
Unbinned contigs expand known diversity in the global microbiome - Nature Microbiology
Re-analysis of over 92,000 metagenomes reveals hundreds of thousands of previously undescribed Bacterial and Archaeal clades hidden in plain sight.
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Reposted by Chan Yeong Kim
Cell - a Cell Press journal @cp-cell.bsky.social · 02/04/2026
A framework for exploring the structure and drivers of global microbial habitats www.cell.com/cell/fulltex...
cell.com
Planetary microbiome structure and generalist-driven gene flow across disparate habitats
A planetary-scale analysis of over 85,000 metagenomes establishes a framework for exploring the structure and drivers of global microbial habitats, revealing that generalist species bridge ecological ...
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Reposted by Chan Yeong Kim
Lukas Malfertheiner @lukasmalf.bsky.social · 25/02/2026
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...
cell.com
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...
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Reposted by Chan Yeong Kim
Yun S. Song @yun-s-song.bsky.social · 21/02/2026
Can we simulate realistic evolutionary trajectories and “replay the tape of life”? In this work, we propose a flexible, generalizable deep learning framework for modeling how the entire protein sequence evolves over time while capturing complex interactions across sites. 1/n doi.org/10.64898/202...
doi.org
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Chan Yeong Kim @chanyeong-kim.bsky.social · 09/02/2026
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.
cell.com
Planetary microbiome structure and generalist-driven gene flow across disparate habitats
A planetary-scale analysis of over 85,000 metagenomes establishes a framework for exploring the structure and drivers of global microbial habitats, revealing that generalist species bridge ecological ...
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Reposted by Chan Yeong Kim
EMBL @embl.org · 09/02/2026
In the largest study of its kind, scientists in the Bork Group at EMBL have found that a small subset of microbes can carry and transfer genes across disparate habitats, creating a planet-wide, interconnected network of microbiomes 🌍 🦠 🔗 Read more here: www.embl.org/news/science...
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Reposted by Chan Yeong Kim
Sebastian Schmidt @tsbschm.bsky.social · 13/01/2026
We just released a @biorxivpreprint.bsky.social describing the *microntology*, a lightweight controlled vocabulary that we have been using for a while to tag metagenomes with contextual data. Study by @fullam.bsky.social @vishnuprasoodanan.bsky.social et al: 1/ www.biorxiv.org/content/10.6...
biorxiv.org
microntology: a lightweight, data-driven controlled vocabulary to describe Earth's microbial habitats
Summary. We introduce microntology v1.0, a pragmatic controlled vocabulary of 148 terms to describe microbial habitats and lifestyles, and provide manually curated microntology annotations for >300k m...
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Reposted by Chan Yeong Kim
Jonas Schiller @jonas-bio.bsky.social · 15/10/2025
Latitudinal diversity gradients (LDGs) are found across 🌱🐨🦠 but their underlying mechanisms remain unclear. In this study, we highlight that LDGs are not universal in marine microbiomes but reflect lineage-specific ecological strategies and environmental responses. doi.org/10.1101/2025...
doi.org
Variations in the latitudinal diversity gradients of the ocean microbiome
Latitudinal diversity gradients (LDGs), typically declining from the equator to the poles, are among the most pervasive macroecological patterns, yet their generality and underlying drivers in the oce...
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Chan Yeong Kim @chanyeong-kim.bsky.social · 21/07/2025
Our new preprint is out! www.biorxiv.org/content/10.1... In this study, we present the largest systematic analysis of microbiome structure and function, integrating 85K uniformly processed metagenomes from diverse habitats worldwide. @podlesny.bsky.social @jonas-bio.bsky.social @borklab.bsky.social
biorxiv.org
Planetary microbiome structure and generalist-driven gene flow across disparate habitats
Microbes are ubiquitous on Earth, forming microbiomes that sustain macroscopic life and biogeochemical cycles. Microbial dispersion, driven by natural processes and human activities, interconnects mic...
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Chan Yeong Kim @chanyeong-kim.bsky.social · 28/12/2024
I’m excited to share our new paper published in Nature Communications! In our work, we discovered TANB77, a bacterial clade previously obscured by a polyphyletic grouping in conventional taxonomy, as a reliable biomarker across diverse immunotherapy recipient groups. www.nature.com/articles/s41...
nature.com
A conserved pilin from uncultured gut bacterial clade TANB77 enhances cancer immunotherapy - Nature Communications
Here, the authors show that higher levels of the gut bacterial clade TANB77 associate with better response to cancer immunotherapy, and further demonstrate in mice that a conserved pilin from TANB77 p...
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