Ilnam Kang
@ilnamkang.bsky.social
Reposted by Ilnam Kang
The core genomic backbone of bacteria is not necessarily resilient to gene flow! A new study shows that introgression impacts, on average, 2% of the core genes of species - www.nature.com/articles/s41... #microevo #microeco #evolution
Introgression impacts the evolution of bacteria, but species borders are rarely fuzzy - Nature Communications
It is commonly thought that bacterial species borders tend to be fuzzy, due to frequent exchange of DNA. Here, Diop et al. quantify the patterns of gene flow between core genomes across 50 major bacte...
www.nature.com
November 14, 2025 at 10:23 AM
The core genomic backbone of bacteria is not necessarily resilient to gene flow! A new study shows that introgression impacts, on average, 2% of the core genes of species - www.nature.com/articles/s41... #microevo #microeco #evolution
Reposted by Ilnam Kang
1/9 Metagenomics lets us read microbiomes in nature without cultivation, but writing (editing) them in their native context is still a major challenge.
Meet MetaEdit: a platform for pathway-scale metagenomic editing inside the gut microbiome. science.org/doi/10.1126/...
Meet MetaEdit: a platform for pathway-scale metagenomic editing inside the gut microbiome. science.org/doi/10.1126/...
Metagenomic editing of commensal bacteria in vivo using CRISPR-associated transposases
Although metagenomic sequencing has revealed a rich microbial biodiversity in the mammalian gut, methods to genetically alter specific species in the microbiome are highly limited. Here, we introduce ...
science.org
November 14, 2025 at 2:25 PM
1/9 Metagenomics lets us read microbiomes in nature without cultivation, but writing (editing) them in their native context is still a major challenge.
Meet MetaEdit: a platform for pathway-scale metagenomic editing inside the gut microbiome. science.org/doi/10.1126/...
Meet MetaEdit: a platform for pathway-scale metagenomic editing inside the gut microbiome. science.org/doi/10.1126/...
Reposted by Ilnam Kang
Nitrite accumulation in marine oxygen minimum zones induced by microbial nitrite consumers www.nature.com/articles/s41... #jcampubs 🌊
Nitrite accumulation in marine oxygen minimum zones induced by microbial nitrite consumers - Nature Geoscience
Despite being consumers, nitrite-oxidizing bacteria contribute to the accumulation of nitrite in marine oxygen minimum zones through interactions with other microbes, in particular denitrifiers, accor...
www.nature.com
November 13, 2025 at 7:48 PM
Nitrite accumulation in marine oxygen minimum zones induced by microbial nitrite consumers www.nature.com/articles/s41... #jcampubs 🌊
Reposted by Ilnam Kang
Chemical richness and diversity of uncultivated ‘Entotheonella’ symbionts in marine sponges www.nature.com/articles/s41... #jcampubs
Chemical richness and diversity of uncultivated ‘Entotheonella’ symbionts in marine sponges - Nature Chemical Biology
Marine sponges host bacteria that produce diverse bioactive compounds. Here, the authors conduct a large-scale metagenomic, single-bacterial and biochemical study to reveal the untapped biosynthetic p...
www.nature.com
November 13, 2025 at 7:49 PM
Chemical richness and diversity of uncultivated ‘Entotheonella’ symbionts in marine sponges www.nature.com/articles/s41... #jcampubs
Reposted by Ilnam Kang
Introgression impacts the evolution of bacteria, but species borders are rarely fuzzy www.nature.com/articles/s41... #jcampubs
Introgression impacts the evolution of bacteria, but species borders are rarely fuzzy - Nature Communications
It is commonly thought that bacterial species borders tend to be fuzzy, due to frequent exchange of DNA. Here, Diop et al. quantify the patterns of gene flow between core genomes across 50 major bacte...
www.nature.com
November 13, 2025 at 7:40 PM
Introgression impacts the evolution of bacteria, but species borders are rarely fuzzy www.nature.com/articles/s41... #jcampubs
Reposted by Ilnam Kang
Assembly, architecture and functional roles of microbial surface layers
Review article published in @natrevmicro.nature.com with @bupbuse.bsky.social, Andriko von Kügelgen and @vikramalva.bsky.social.
S-layers are everywhere!
www.nature.com/articles/s41...
Review article published in @natrevmicro.nature.com with @bupbuse.bsky.social, Andriko von Kügelgen and @vikramalva.bsky.social.
S-layers are everywhere!
www.nature.com/articles/s41...
Assembly, architecture and functional roles of microbial surface layers - Nature Reviews Microbiology
Surface layers (S-layers) are ubiquitous protein assemblies that coat prokaryotic cells, with their functional roles increasingly coming into focus. In this Review, Isbilir and colleagues discuss rece...
www.nature.com
November 13, 2025 at 8:14 PM
Assembly, architecture and functional roles of microbial surface layers
Review article published in @natrevmicro.nature.com with @bupbuse.bsky.social, Andriko von Kügelgen and @vikramalva.bsky.social.
S-layers are everywhere!
www.nature.com/articles/s41...
Review article published in @natrevmicro.nature.com with @bupbuse.bsky.social, Andriko von Kügelgen and @vikramalva.bsky.social.
S-layers are everywhere!
www.nature.com/articles/s41...
Reposted by Ilnam Kang
Very excited to share our latest work in Science on metagenomic editing (MetaEdit) of the gut microbiome in vivo & directly modifying unculturable immune-modulatory SFB bug in the small intestine. 🦠🧬🛠️
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
Metagenomic editing of commensal bacteria in vivo using CRISPR-associated transposases
Although metagenomic sequencing has revealed a rich microbial biodiversity in the mammalian gut, methods to genetically alter specific species in the microbiome are highly limited. Here, we introduce ...
www.science.org
November 13, 2025 at 8:53 PM
Very excited to share our latest work in Science on metagenomic editing (MetaEdit) of the gut microbiome in vivo & directly modifying unculturable immune-modulatory SFB bug in the small intestine. 🦠🧬🛠️
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
Reposted by Ilnam Kang
“Bin Chicken” is now published in Nature Methods! It substantially improves genome recovery through rational coassembly 🧬🖥️. Applied to public 🌍 metagenomes, we recovered 24,000 novel species 🦠, including 6 new phyla.
doi.org/10.1038/s415...
@benjwoodcroft.bsky.social @rhysnewell.bsky.social
🧵1/6
doi.org/10.1038/s415...
@benjwoodcroft.bsky.social @rhysnewell.bsky.social
🧵1/6
November 13, 2025 at 10:09 AM
“Bin Chicken” is now published in Nature Methods! It substantially improves genome recovery through rational coassembly 🧬🖥️. Applied to public 🌍 metagenomes, we recovered 24,000 novel species 🦠, including 6 new phyla.
doi.org/10.1038/s415...
@benjwoodcroft.bsky.social @rhysnewell.bsky.social
🧵1/6
doi.org/10.1038/s415...
@benjwoodcroft.bsky.social @rhysnewell.bsky.social
🧵1/6
Reposted by Ilnam Kang
We are looking for a PhD student to work on an exciting plastid endosymbiosis in microbial eukaryotes. This position involves sampling, exciting microscopy such as CARDFISH, ExM and FIBSEM, single-cell transcriptomics and more. #protistsonsky 1/2
November 12, 2025 at 9:50 AM
We are looking for a PhD student to work on an exciting plastid endosymbiosis in microbial eukaryotes. This position involves sampling, exciting microscopy such as CARDFISH, ExM and FIBSEM, single-cell transcriptomics and more. #protistsonsky 1/2
Reposted by Ilnam Kang
WOW! Fluorescein-based dyes are not valid reporters of oxidative stress in bacteria, and conclusions based on their use must be reconsidered www.pnas.org/doi/10.1073/...
November 12, 2025 at 9:57 AM
WOW! Fluorescein-based dyes are not valid reporters of oxidative stress in bacteria, and conclusions based on their use must be reconsidered www.pnas.org/doi/10.1073/...
Reposted by Ilnam Kang
Viral NblA proteins negatively affect oceanic cyanobacterial photosynthesis www.nature.com/articles/s41...
this project was led by @omernadel.bsky.social and is a joint work between the labs of @bejalab.bsky.social, Debbie Lindell and Oded Kleifeld from @biologytechnion.bsky.social
this project was led by @omernadel.bsky.social and is a joint work between the labs of @bejalab.bsky.social, Debbie Lindell and Oded Kleifeld from @biologytechnion.bsky.social
the sun is shining through the clouds in the sky above the ocean
ALT: the sun is shining through the clouds in the sky above the ocean
media.tenor.com
November 12, 2025 at 4:00 PM
Viral NblA proteins negatively affect oceanic cyanobacterial photosynthesis www.nature.com/articles/s41...
this project was led by @omernadel.bsky.social and is a joint work between the labs of @bejalab.bsky.social, Debbie Lindell and Oded Kleifeld from @biologytechnion.bsky.social
this project was led by @omernadel.bsky.social and is a joint work between the labs of @bejalab.bsky.social, Debbie Lindell and Oded Kleifeld from @biologytechnion.bsky.social
Reposted by Ilnam Kang
sponsored feature
Probing the microbial mysteries of the deep sea | Science | AAAS www.science.org/content/arti...
Probing the microbial mysteries of the deep sea | Science | AAAS www.science.org/content/arti...
Probing the microbial mysteries of the deep sea
Miles beneath the ocean’s surface, Victoria Orphan is exploring the outer bounds of where life can persist and thrive.
www.science.org
November 11, 2025 at 8:53 AM
sponsored feature
Probing the microbial mysteries of the deep sea | Science | AAAS www.science.org/content/arti...
Probing the microbial mysteries of the deep sea | Science | AAAS www.science.org/content/arti...
Reposted by Ilnam Kang
Metagenomics colleagues!
I'm looking for studies where both Illumina and ONT sequencing were performed on the same samples from soil, human, ruminent, and other sample types for comparison. Bonus if those studies include PacBio data.
Please help and share!
I'm looking for studies where both Illumina and ONT sequencing were performed on the same samples from soil, human, ruminent, and other sample types for comparison. Bonus if those studies include PacBio data.
Please help and share!
November 11, 2025 at 8:21 PM
Metagenomics colleagues!
I'm looking for studies where both Illumina and ONT sequencing were performed on the same samples from soil, human, ruminent, and other sample types for comparison. Bonus if those studies include PacBio data.
Please help and share!
I'm looking for studies where both Illumina and ONT sequencing were performed on the same samples from soil, human, ruminent, and other sample types for comparison. Bonus if those studies include PacBio data.
Please help and share!
Reposted by Ilnam Kang
Fluorescein-based dyes are not valid reporters of oxidative stress in bacteria, and conclusions based on their use must be reconsidered www.pnas.org/doi/abs/10.1... #jcampubs
Fluorescein-based dyes are not valid reporters of oxidative stress in bacteria, and conclusions based on their use must be reconsidered | PNAS
Dihydrodichlorofluorescein derivatives have been employed as reporters of intracellular
reactive oxygen species (ROS) in innumerable studies. Their...
www.pnas.org
November 11, 2025 at 3:00 PM
Fluorescein-based dyes are not valid reporters of oxidative stress in bacteria, and conclusions based on their use must be reconsidered www.pnas.org/doi/abs/10.1... #jcampubs
Scalable and systematic hierarchical virus taxonomy with vConTACT3
doi.org/10.1101/2025...
I haven't tried this tool yet, but the main output file would likely be handy.
vcontact3.readthedocs.io/en/latest/re...
doi.org/10.1101/2025...
I haven't tried this tool yet, but the main output file would likely be handy.
vcontact3.readthedocs.io/en/latest/re...
Results & Reports — vConTACT3 3.0.1 documentation
vcontact3.readthedocs.io
November 11, 2025 at 6:33 AM
Scalable and systematic hierarchical virus taxonomy with vConTACT3
doi.org/10.1101/2025...
I haven't tried this tool yet, but the main output file would likely be handy.
vcontact3.readthedocs.io/en/latest/re...
doi.org/10.1101/2025...
I haven't tried this tool yet, but the main output file would likely be handy.
vcontact3.readthedocs.io/en/latest/re...
Reposted by Ilnam Kang
A century of research on Planctomycetota bacterial phylum, previously known as Planctomycetes academic.oup.com/femsre/advan... #jcampubs
November 10, 2025 at 4:43 PM
A century of research on Planctomycetota bacterial phylum, previously known as Planctomycetes academic.oup.com/femsre/advan... #jcampubs
Reposted by Ilnam Kang
Characterization of Phytoplankton-Excreted Metabolites Mediating Carbon Flux through the Surface Ocean www.biorxiv.org/content/10.1... #jcampubs 🌊
November 6, 2025 at 3:17 PM
Characterization of Phytoplankton-Excreted Metabolites Mediating Carbon Flux through the Surface Ocean www.biorxiv.org/content/10.1... #jcampubs 🌊
Reposted by Ilnam Kang
🚨New preprint out!
We present a foundational genomic resource of human gut microbiome viruses. It delivers high-quality, deeply curated data spanning taxonomy, predicted hosts, structures, and functions, providing a reference for gut virome research. (1/8)
www.biorxiv.org/content/10.1...
We present a foundational genomic resource of human gut microbiome viruses. It delivers high-quality, deeply curated data spanning taxonomy, predicted hosts, structures, and functions, providing a reference for gut virome research. (1/8)
www.biorxiv.org/content/10.1...
November 6, 2025 at 5:26 PM
🚨New preprint out!
We present a foundational genomic resource of human gut microbiome viruses. It delivers high-quality, deeply curated data spanning taxonomy, predicted hosts, structures, and functions, providing a reference for gut virome research. (1/8)
www.biorxiv.org/content/10.1...
We present a foundational genomic resource of human gut microbiome viruses. It delivers high-quality, deeply curated data spanning taxonomy, predicted hosts, structures, and functions, providing a reference for gut virome research. (1/8)
www.biorxiv.org/content/10.1...
Reposted by Ilnam Kang
After 5 years of waiting, the new #CRISPR classification by Makarova et al. is out @natmicrobiol.nature.com www.nature.com/articles/s41...
An updated evolutionary classification of CRISPR–Cas systems including rare variants - Nature Microbiology
An exploration of previously undescribed variants from the long tail of the CRISPR–Cas distribution.
www.nature.com
November 6, 2025 at 1:49 PM
After 5 years of waiting, the new #CRISPR classification by Makarova et al. is out @natmicrobiol.nature.com www.nature.com/articles/s41...
Reposted by Ilnam Kang
Single-particle genomics uncovers abundant non-canonical marine viruses from nanolitre volumes
Very cool paper and method. I was looking forward to this coming out of preprint (short thread below on why)
www.nature.com/articles/s41...
Very cool paper and method. I was looking forward to this coming out of preprint (short thread below on why)
www.nature.com/articles/s41...
Single-particle genomics uncovers abundant non-canonical marine viruses from nanolitre volumes - Nature Microbiology
Environmental micro-compartment genomics provides efficient and high-throughput single-particle DNA sequencing that captures overlooked members of microbial communities.
www.nature.com
November 5, 2025 at 3:34 PM
Single-particle genomics uncovers abundant non-canonical marine viruses from nanolitre volumes
Very cool paper and method. I was looking forward to this coming out of preprint (short thread below on why)
www.nature.com/articles/s41...
Very cool paper and method. I was looking forward to this coming out of preprint (short thread below on why)
www.nature.com/articles/s41...
Single-particle genomics uncovers abundant non-canonical marine viruses from nanolitre volumes
doi.org/10.1038/s415...
doi.org/10.1038/s415...
Single-particle genomics uncovers abundant non-canonical marine viruses from nanolitre volumes - Nature Microbiology
Environmental micro-compartment genomics provides efficient and high-throughput single-particle DNA sequencing that captures overlooked members of microbial communities.
doi.org
November 5, 2025 at 10:30 AM
Single-particle genomics uncovers abundant non-canonical marine viruses from nanolitre volumes
doi.org/10.1038/s415...
doi.org/10.1038/s415...
Reposted by Ilnam Kang
Underestimated input of terrestrial dissolved organic carbon to the ocean www.pnas.org/doi/abs/10.1... #jcampubs 🌊
Underestimated input of terrestrial dissolved organic carbon to the ocean | PNAS
The contribution of terrestrial dissolved organic matter (DOM) to the ocean has been
an enigma for decades. Tracking terrestrial DOM in the ocean h...
www.pnas.org
November 4, 2025 at 1:50 PM
Underestimated input of terrestrial dissolved organic carbon to the ocean www.pnas.org/doi/abs/10.1... #jcampubs 🌊
Reposted by Ilnam Kang
Come work with me!
I am hiring a senior research technician to help me discover novel phage genes with antibiofilm properties. We will create metagenomic libraries, program robots, sequence viral metagenomes and many more fun things.
The application deadline is 02-Dec-25.
shorturl.at/GErUo
I am hiring a senior research technician to help me discover novel phage genes with antibiofilm properties. We will create metagenomic libraries, program robots, sequence viral metagenomes and many more fun things.
The application deadline is 02-Dec-25.
shorturl.at/GErUo
Senior Research Technician (111019-1125) - University of Warwick
Title: Senior Research Technician (111019-1125). Application Deadline: . Position Type: Fixed Term
shorturl.at
November 4, 2025 at 1:37 PM
Come work with me!
I am hiring a senior research technician to help me discover novel phage genes with antibiofilm properties. We will create metagenomic libraries, program robots, sequence viral metagenomes and many more fun things.
The application deadline is 02-Dec-25.
shorturl.at/GErUo
I am hiring a senior research technician to help me discover novel phage genes with antibiofilm properties. We will create metagenomic libraries, program robots, sequence viral metagenomes and many more fun things.
The application deadline is 02-Dec-25.
shorturl.at/GErUo
doi.org/10.1038/s415...
"Optimal growth was achieved on 0.1–0.5 µM pyruvate and oxaloacetate and 0.5–1 µM of sulfur-containing amino acids. Cell densities of both strains were significantly lower at 5 µM concentrations of any carbon or sulfur source, ~~."
"Optimal growth was achieved on 0.1–0.5 µM pyruvate and oxaloacetate and 0.5–1 µM of sulfur-containing amino acids. Cell densities of both strains were significantly lower at 5 µM concentrations of any carbon or sulfur source, ~~."
Ecophysiology and global dispersal of the freshwater SAR11-IIIb genus Fontibacterium - Nature Microbiology
Isolates and metagenome-assembled genomes from a global survey show quasi-endemic and cosmopolitan lineages of SAR11-IIIb, with patterns driven by temperature and latitude.
doi.org
November 4, 2025 at 7:52 AM
doi.org/10.1038/s415...
"Optimal growth was achieved on 0.1–0.5 µM pyruvate and oxaloacetate and 0.5–1 µM of sulfur-containing amino acids. Cell densities of both strains were significantly lower at 5 µM concentrations of any carbon or sulfur source, ~~."
"Optimal growth was achieved on 0.1–0.5 µM pyruvate and oxaloacetate and 0.5–1 µM of sulfur-containing amino acids. Cell densities of both strains were significantly lower at 5 µM concentrations of any carbon or sulfur source, ~~."
Reposted by Ilnam Kang
Are you interested in studying RNA phages? We are looking for a PhD student and a postdoc to join the lab!
For more information and how to apply, see below 👇
Please RT!
For more information and how to apply, see below 👇
Please RT!
📢 The #HIRI is looking for a #postdoc & a #PhD student to join the research group of @jenshoer.bsky.social. His lab focuses on understanding the molecular mechanisms of #phages with #RNA genomes during infection, host takeover & anti-phage defense. 🧫🦠 More info: www.helmholtz-hiri.de/en/jobs-tale...
Working at HIRI
At the HIRI, we do not just value excellent research. Short distances, an open door policy, and a good working atmosphere—this is what distinguishes us from others. Have a look at our current job…
www.helmholtz-hiri.de
October 17, 2025 at 12:52 PM
Are you interested in studying RNA phages? We are looking for a PhD student and a postdoc to join the lab!
For more information and how to apply, see below 👇
Please RT!
For more information and how to apply, see below 👇
Please RT!