Ilnam Kang
@ilnamkang.bsky.social
Reposted by Ilnam Kang
🧬🦠🚨 Another new paper alert, this time led by @maureenbug.bsky.social ! In collaboration with the Emerson lab and
@titus.idyll.org lab (@taylorreiter.bsky.social), both at UC Davis. Asking the question: what are we missing in short-read metagenome assembly, and why ?
doi.org/10.1093/narg...
@titus.idyll.org lab (@taylorreiter.bsky.social), both at UC Davis. Asking the question: what are we missing in short-read metagenome assembly, and why ?
doi.org/10.1093/narg...
Comparison of short-read and long-read metagenome assemblies in a natural soil community highlights systematic bias in recovery of high-diversity populations
Abstract. Comparisons of long-read and short-read (meta)genome assemblies typically show that short-read sequence assemblies are less error-prone, but stru
doi.org
December 9, 2025 at 3:25 AM
🧬🦠🚨 Another new paper alert, this time led by @maureenbug.bsky.social ! In collaboration with the Emerson lab and
@titus.idyll.org lab (@taylorreiter.bsky.social), both at UC Davis. Asking the question: what are we missing in short-read metagenome assembly, and why ?
doi.org/10.1093/narg...
@titus.idyll.org lab (@taylorreiter.bsky.social), both at UC Davis. Asking the question: what are we missing in short-read metagenome assembly, and why ?
doi.org/10.1093/narg...
Reposted by Ilnam Kang
Uneven sequencing (coverage) depth can bias microbial intraspecies diversity estimates and how to account for it academic.oup.com/ismecommun/a... #jcampubs
December 8, 2025 at 2:27 PM
Uneven sequencing (coverage) depth can bias microbial intraspecies diversity estimates and how to account for it academic.oup.com/ismecommun/a... #jcampubs
Reposted by Ilnam Kang
Uniform pre-processing of bacterial single-cell RNA-seq www.biorxiv.org/content/10.6... #jcampubs
December 8, 2025 at 2:18 PM
Uniform pre-processing of bacterial single-cell RNA-seq www.biorxiv.org/content/10.6... #jcampubs
Reposted by Ilnam Kang
eggNOG v7: phylogeny-based orthology predictions and functional annotations | Nucleic Acids Research | Oxford Academic https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkaf1249/8373942?rss=1&login=true
eggNOG v7: phylogeny-based orthology predictions and functional annotations
Abstract. The eggNOG (evolutionary genealogy of genes: Non-supervised Orthologous Groups) database is a phylogenomic resource for orthology inference, evol
dx.doi.org
December 8, 2025 at 10:24 PM
eggNOG v7: phylogeny-based orthology predictions and functional annotations | Nucleic Acids Research | Oxford Academic https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkaf1249/8373942?rss=1&login=true
Reposted by Ilnam Kang
100%, both ONT and PacBio (although most of what we do is not marine / streamlined genome). We just published a specific study of soil metag short- vs long-read, and we see that, among other things, long-reads assemble regions too complex for short reads academic.oup.com/nargab/artic...
Comparison of short-read and long-read metagenome assemblies in a natural soil community highlights systematic bias in recovery of high-diversity populations
Abstract. Comparisons of long-read and short-read (meta)genome assemblies typically show that short-read sequence assemblies are less error-prone, but stru
academic.oup.com
December 8, 2025 at 4:25 PM
100%, both ONT and PacBio (although most of what we do is not marine / streamlined genome). We just published a specific study of soil metag short- vs long-read, and we see that, among other things, long-reads assemble regions too complex for short reads academic.oup.com/nargab/artic...
Reposted by Ilnam Kang
Our BEHIND THE STORY. A glimpse into the role of auxiliary metabolic genes in cyanophages during infection communities.springernature.com/posts/a-glim...
A glimpse into the role of auxiliary metabolic genes in cyanophages during infection
communities.springernature.com
December 8, 2025 at 12:54 PM
Our BEHIND THE STORY. A glimpse into the role of auxiliary metabolic genes in cyanophages during infection communities.springernature.com/posts/a-glim...
Reposted by Ilnam Kang
What would a marine microbiome observing system meant to last decades look like? 🌊🦠
We explored this at the recent MMOFF Workshop, which brought together diverse partners to envision the future of marine microbiome observations.
merenlab.org/workshops/MM...
We explored this at the recent MMOFF Workshop, which brought together diverse partners to envision the future of marine microbiome observations.
merenlab.org/workshops/MM...
Marine Microbial Observatories for the Future: From Samples to Data to Legacy Using Integrated 'Omics Strategies
A workshop for the future
merenlab.org
December 8, 2025 at 3:39 PM
What would a marine microbiome observing system meant to last decades look like? 🌊🦠
We explored this at the recent MMOFF Workshop, which brought together diverse partners to envision the future of marine microbiome observations.
merenlab.org/workshops/MM...
We explored this at the recent MMOFF Workshop, which brought together diverse partners to envision the future of marine microbiome observations.
merenlab.org/workshops/MM...
Reposted by Ilnam Kang
SciLifeLab researchers Maliheh Mehrshad (SLU) and Camilla Engblom (@ki.se) appointed Wallenberg Academy Fellows ↓ 🧪
“This program gives researchers the chance to pursue high-risk, high-gain research ideas” – @mehrshmali.bsky.social
Q&A ↓
www.scilifelab.se/news/long-te...
@kawresearch.bsky.social
“This program gives researchers the chance to pursue high-risk, high-gain research ideas” – @mehrshmali.bsky.social
Q&A ↓
www.scilifelab.se/news/long-te...
@kawresearch.bsky.social
Long-term funding to SciLifeLab researchers: “a huge boost and game-changer to starting a lab”
SciLifeLab researchers Maliheh Mehrshad and Camilla Engblom are appointed Wallenberg Academy Fellows, and receive five-year basic research grants.
www.scilifelab.se
December 8, 2025 at 12:09 PM
SciLifeLab researchers Maliheh Mehrshad (SLU) and Camilla Engblom (@ki.se) appointed Wallenberg Academy Fellows ↓ 🧪
“This program gives researchers the chance to pursue high-risk, high-gain research ideas” – @mehrshmali.bsky.social
Q&A ↓
www.scilifelab.se/news/long-te...
@kawresearch.bsky.social
“This program gives researchers the chance to pursue high-risk, high-gain research ideas” – @mehrshmali.bsky.social
Q&A ↓
www.scilifelab.se/news/long-te...
@kawresearch.bsky.social
Reposted by Ilnam Kang
New preprint!
We explore how gutless marine worms and their bacterial symbionts use organosulfur compounds like DMSP and DMS - key molecules in marine sulfur cycling.
Our results show that these compounds support carbon and energy metabolism in the Olavius algarvensis symbiosis.
We explore how gutless marine worms and their bacterial symbionts use organosulfur compounds like DMSP and DMS - key molecules in marine sulfur cycling.
Our results show that these compounds support carbon and energy metabolism in the Olavius algarvensis symbiosis.
December 7, 2025 at 8:24 AM
New preprint!
We explore how gutless marine worms and their bacterial symbionts use organosulfur compounds like DMSP and DMS - key molecules in marine sulfur cycling.
Our results show that these compounds support carbon and energy metabolism in the Olavius algarvensis symbiosis.
We explore how gutless marine worms and their bacterial symbionts use organosulfur compounds like DMSP and DMS - key molecules in marine sulfur cycling.
Our results show that these compounds support carbon and energy metabolism in the Olavius algarvensis symbiosis.
Reposted by Ilnam Kang
Seasonal enhancement of the viral shunt catalyzes a subsurface oxygen maximum in the Sargasso Sea | Nature Communications https://www.nature.com/articles/s41467-025-67002-1
December 7, 2025 at 1:04 AM
Seasonal enhancement of the viral shunt catalyzes a subsurface oxygen maximum in the Sargasso Sea | Nature Communications https://www.nature.com/articles/s41467-025-67002-1
Reposted by Ilnam Kang
Size-fractionated fungal communities in the sunlit ocean www.nature.com/articles/s42... #jcampubs
December 5, 2025 at 6:53 PM
Size-fractionated fungal communities in the sunlit ocean www.nature.com/articles/s42... #jcampubs
Reposted by Ilnam Kang
Cosmopolitan marine bacteria facilitate a vast phytoplankton-derived sulfonate-based carbon flow through sulfoquinovosidases www.nature.com/articles/s41... #jcampubs 🌊
December 5, 2025 at 6:39 PM
Cosmopolitan marine bacteria facilitate a vast phytoplankton-derived sulfonate-based carbon flow through sulfoquinovosidases www.nature.com/articles/s41... #jcampubs 🌊
Reposted by Ilnam Kang
Proliferation of a bloom-forming phytoplankton via uptake of polyphosphate-accumulating bacteria under phosphate-limiting conditions academic.oup.com/ismecommun/a... #jcampubs 🌊
December 5, 2025 at 6:37 PM
Proliferation of a bloom-forming phytoplankton via uptake of polyphosphate-accumulating bacteria under phosphate-limiting conditions academic.oup.com/ismecommun/a... #jcampubs 🌊
Reposted by Ilnam Kang
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...
Great to see this work by @louison-nicolas.bsky.social published in ISME coummuncations!
doi.org/10.1093/isme...
Validate User
doi.org
December 5, 2025 at 4:20 PM
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...
Great to see this work by @louison-nicolas.bsky.social published in ISME coummuncations!
doi.org/10.1093/isme...
Reposted by Ilnam Kang
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...
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...
December 5, 2025 at 12:42 PM
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...
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...
Reposted by Ilnam Kang
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...
www.nature.com/articles/s41...
The Microflora Danica atlas of Danish environmental microbiomes - Nature
Microflora Danica—an atlas of Danish environmental microbiomes—reveals that although human-disturbed habitats have high alpha diversity, species reoccur, revealing hidden homogeneity.
www.nature.com
December 3, 2025 at 8:50 PM
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...
www.nature.com/articles/s41...
Reposted by Ilnam Kang
Amazing dataset describing the metabolic profiles of 66 E. coli transporter knockouts by @sulheim.bsky.social with Peter Doubleday and @nzamboni.bsky.social. The tool, set up by @lambdapp.bsky.social and Eric Ulrich allows you to explore for yourself. Enjoy! Pre-print here: doi.org/10.1101/2025...
December 3, 2025 at 1:11 PM
Amazing dataset describing the metabolic profiles of 66 E. coli transporter knockouts by @sulheim.bsky.social with Peter Doubleday and @nzamboni.bsky.social. The tool, set up by @lambdapp.bsky.social and Eric Ulrich allows you to explore for yourself. Enjoy! Pre-print here: doi.org/10.1101/2025...
Reposted by Ilnam Kang
🦠🧪🧬🚨 New paper and database alert: the new IMG/VR release is now MetaVR ! We have a new website - meta-virome.org - with quick search capabilities for the >24M viruses, >12M vOTUs, and >42M protein clusters (including >790k with predicted structures !). academic.oup.com/nar/advance-...
Meta-virus resource (MetaVR): expanding the frontiers of viral diversity with 24 million uncultivated virus genomes
Abstract. Viruses are ubiquitous in all environments and impact host metabolism, evolution, and ecology, although our knowledge of their biodiversity is st
academic.oup.com
December 3, 2025 at 2:34 AM
🦠🧪🧬🚨 New paper and database alert: the new IMG/VR release is now MetaVR ! We have a new website - meta-virome.org - with quick search capabilities for the >24M viruses, >12M vOTUs, and >42M protein clusters (including >790k with predicted structures !). academic.oup.com/nar/advance-...
Reposted by Ilnam Kang
🚀 Just launched: GraphBin Visualise (WASM) a browser-based visualisation tool for comparing initial metagenomic binning results vs refined results from GraphBin - all running in your browser, no backend required. (1/n)
#bioinformatics #metagenomics #binning #webapp #pyiodide #webassembly
#bioinformatics #metagenomics #binning #webapp #pyiodide #webassembly
GitHub - metagentools/graphbin-visualise-wasm-app: GraphBin Visualise WebAssembly App
GraphBin Visualise WebAssembly App. Contribute to metagentools/graphbin-visualise-wasm-app development by creating an account on GitHub.
github.com
December 2, 2025 at 1:38 AM
🚀 Just launched: GraphBin Visualise (WASM) a browser-based visualisation tool for comparing initial metagenomic binning results vs refined results from GraphBin - all running in your browser, no backend required. (1/n)
#bioinformatics #metagenomics #binning #webapp #pyiodide #webassembly
#bioinformatics #metagenomics #binning #webapp #pyiodide #webassembly
Reposted by Ilnam Kang
🔊 APPLY NOW for our #MarMic #MSc/#PhD program!
Come to #Bremen and take an interdisciplinary approach to #marine #microbiology, #molecularbiology, #biochemistry, #evolution and more.
⏳ Open until Feb 28 2026
➡ marmic.mpg.de
#graduatestudents #marinescience #sciencecareer #IMPRS @maxplanck.de
Come to #Bremen and take an interdisciplinary approach to #marine #microbiology, #molecularbiology, #biochemistry, #evolution and more.
⏳ Open until Feb 28 2026
➡ marmic.mpg.de
#graduatestudents #marinescience #sciencecareer #IMPRS @maxplanck.de
December 2, 2025 at 1:47 PM
🔊 APPLY NOW for our #MarMic #MSc/#PhD program!
Come to #Bremen and take an interdisciplinary approach to #marine #microbiology, #molecularbiology, #biochemistry, #evolution and more.
⏳ Open until Feb 28 2026
➡ marmic.mpg.de
#graduatestudents #marinescience #sciencecareer #IMPRS @maxplanck.de
Come to #Bremen and take an interdisciplinary approach to #marine #microbiology, #molecularbiology, #biochemistry, #evolution and more.
⏳ Open until Feb 28 2026
➡ marmic.mpg.de
#graduatestudents #marinescience #sciencecareer #IMPRS @maxplanck.de
Reposted by Ilnam Kang
📢 We have multiple open PhD positions to study bacterial immune systems using cutting-edge cryo-EM, microbiology, and biochemistry in our group! Join us and uncover how bacterial defenses eliminate predators and engineer next-gen biotech tools.
🔥 Apply by Jan 8, 2026
Details: phd.pages.ista.ac.at
🔥 Apply by Jan 8, 2026
Details: phd.pages.ista.ac.at
phd.pages.ista.ac.at
December 2, 2025 at 8:44 AM
📢 We have multiple open PhD positions to study bacterial immune systems using cutting-edge cryo-EM, microbiology, and biochemistry in our group! Join us and uncover how bacterial defenses eliminate predators and engineer next-gen biotech tools.
🔥 Apply by Jan 8, 2026
Details: phd.pages.ista.ac.at
🔥 Apply by Jan 8, 2026
Details: phd.pages.ista.ac.at
Reposted by Ilnam Kang
I am recruiting graduate students for Fall 2026! The Microbial Ecosystems Lab @hot-mes-asu.bsky.social at ASU studies microbial interactions, spatial ecology, and imaging-driven microbiome science. If you love microbes, microfluidics, or single-cell analysis, let’s talk! www.microbialeco.systems
December 2, 2025 at 7:10 PM
I am recruiting graduate students for Fall 2026! The Microbial Ecosystems Lab @hot-mes-asu.bsky.social at ASU studies microbial interactions, spatial ecology, and imaging-driven microbiome science. If you love microbes, microfluidics, or single-cell analysis, let’s talk! www.microbialeco.systems
Reposted by Ilnam Kang
Redox-constrained microbial ecology dictates nitrogen loss versus retention academic.oup.com/ismecommun/a... #jcampubs
December 1, 2025 at 2:41 PM
Redox-constrained microbial ecology dictates nitrogen loss versus retention academic.oup.com/ismecommun/a... #jcampubs
Meta-virus resource (MetaVR): expanding the frontiers of viral diversity with 24 million uncultivated virus genomes url: academic.oup.com/nar/article/...
Meta-virus resource (MetaVR): expanding the frontiers of viral diversity with 24 million uncultivated virus genomes
Abstract. Viruses are ubiquitous in all environments and impact host metabolism, evolution, and ecology, although our knowledge of their biodiversity is st
academic.oup.com
December 1, 2025 at 4:03 AM
Meta-virus resource (MetaVR): expanding the frontiers of viral diversity with 24 million uncultivated virus genomes url: academic.oup.com/nar/article/...
Reposted by Ilnam Kang
From Microscale to Microbial Insights: Validating High-Throughput Microvolume Extraction (HiMEx) Methods for Marine Microbial Ecology | ISME Communications | Oxford Academic https://academic.oup.com/ismecommun/advance-article/doi/10.1093/ismeco/ycaf218/8342219
From Microscale to Microbial Insights: Validating High-Throughput Microvolume Extraction (HiMEx) Methods for Marine Microbial Ecology
Abstract. Extracting and directly amplifying DNA from small-volume, low-biomass samples would enable rapid, ultra-high-throughput analyses, facilitating th
dx.doi.org
November 29, 2025 at 7:50 AM
From Microscale to Microbial Insights: Validating High-Throughput Microvolume Extraction (HiMEx) Methods for Marine Microbial Ecology | ISME Communications | Oxford Academic https://academic.oup.com/ismecommun/advance-article/doi/10.1093/ismeco/ycaf218/8342219