Christoph Kaleta
@kaletalab.bsky.social
Medical Systems Biology research group - Constraint-based modelling - Modelling of host-microbiome-interactions - Systems Biology of Aging
Pinned
1/4 🌍 We are looking for a passionate #PhD student in #Metabolic #Microbiome #Modeling in the Marie Skłodowska-Curie Doctoral Network MenoBrain. Join us at one of Europe’s microbiome research hubs and push the boundaries of microbiome science! @uni-kiel.de
🔗 www.uniklinikum-jena.de/menobrain/en...
🔗 www.uniklinikum-jena.de/menobrain/en...
Highly interesting note of caution about research on the link between autism and the microbiome. Summary adapted from the article: Across many fields, we’ve learned that a lot of smoke doesn’t necessarily mean there’s any real fire. www.sciencedirect.com/science/arti...
Conceptual and methodological flaws undermine claims of a link between the gut microbiome and autism
The idea that the gut microbiome causally contributes to autism has gained currency in the scientific literature and popular press. Support for this h…
www.sciencedirect.com
November 20, 2025 at 8:52 AM
Highly interesting note of caution about research on the link between autism and the microbiome. Summary adapted from the article: Across many fields, we’ve learned that a lot of smoke doesn’t necessarily mean there’s any real fire. www.sciencedirect.com/science/arti...
Reposted by Christoph Kaleta
Very happy to see this piece out in @plosbiology.org, on the bacterial immune systems and microbial communities. It was a great team effort with Rafael Custodio, @brockhurstlab.bsky.social , @brownlab.bsky.social, and Edze Westra! 🦠🧫 #phagesky #mevosky
journals.plos.org/plosbiology/...
journals.plos.org/plosbiology/...
Bacterial immune systems as causes and consequences of microbiome structure
Bacterial immune systems have evolved in response to diverse molecular "parasites", yet their ecological roles remain poorly understood. This Essay explores how interactions between mobile genetic ele...
journals.plos.org
November 19, 2025 at 6:35 PM
Very happy to see this piece out in @plosbiology.org, on the bacterial immune systems and microbial communities. It was a great team effort with Rafael Custodio, @brockhurstlab.bsky.social , @brownlab.bsky.social, and Edze Westra! 🦠🧫 #phagesky #mevosky
journals.plos.org/plosbiology/...
journals.plos.org/plosbiology/...
Reposted by Christoph Kaleta
I wrote about the recent autism-microbiome paper, why I think it's the most important microbiome paper this year, and what it says about the field
open.substack.com/pub/blekhman...
open.substack.com/pub/blekhman...
The Autism-Microbiome Hypothesis Is Falling Apart
Why this new review paper should be required reading for every microbiome researcher
open.substack.com
November 19, 2025 at 5:12 PM
I wrote about the recent autism-microbiome paper, why I think it's the most important microbiome paper this year, and what it says about the field
open.substack.com/pub/blekhman...
open.substack.com/pub/blekhman...
Reposted by Christoph Kaleta
Don't miss out on our free virtual symposium (Dec. 12th) focused on microbial metabolites and their effects on the host.
Sponsors: @amiposts.bsky.social, Pendulum, & Liv (@zymoresearch.bsky.social)
Registrants will receive free memberships to Applied Microbiology International.
Details below 👇
Sponsors: @amiposts.bsky.social, Pendulum, & Liv (@zymoresearch.bsky.social)
Registrants will receive free memberships to Applied Microbiology International.
Details below 👇
Join @isbscience.org on December 12 for a Virtual Microbiome Symposium highlighting new discoveries about how gut-derived metabolites affect neural, immune, and endocrine systems. Open to microbiome-curious researchers and practitioners everywhere. isbscience.org/events/2025-...
2025 ISB Virtual Microbiome Symposium - Institute for Systems Biology (ISB)
The gut’s microbial ecosystem produces diverse metabolites that actively shape neural, immune, and endocrine function. Join leading researchers on December 12 as they share new discoveries into these ...
isbscience.org
November 18, 2025 at 11:25 PM
Don't miss out on our free virtual symposium (Dec. 12th) focused on microbial metabolites and their effects on the host.
Sponsors: @amiposts.bsky.social, Pendulum, & Liv (@zymoresearch.bsky.social)
Registrants will receive free memberships to Applied Microbiology International.
Details below 👇
Sponsors: @amiposts.bsky.social, Pendulum, & Liv (@zymoresearch.bsky.social)
Registrants will receive free memberships to Applied Microbiology International.
Details below 👇
Reposted by Christoph Kaleta
How can gut microbes modulate host lifespan?
@jogender-singh.bsky.social & coworkers show that in C. elegans, lifespan extension arises from microbial perturbation of iron homeostasis and oxidative stress response activation
#RefereedPreprint c/o @reviewcommons.org
www.embopress.org/doi/full/10....
@jogender-singh.bsky.social & coworkers show that in C. elegans, lifespan extension arises from microbial perturbation of iron homeostasis and oxidative stress response activation
#RefereedPreprint c/o @reviewcommons.org
www.embopress.org/doi/full/10....
November 17, 2025 at 1:22 PM
How can gut microbes modulate host lifespan?
@jogender-singh.bsky.social & coworkers show that in C. elegans, lifespan extension arises from microbial perturbation of iron homeostasis and oxidative stress response activation
#RefereedPreprint c/o @reviewcommons.org
www.embopress.org/doi/full/10....
@jogender-singh.bsky.social & coworkers show that in C. elegans, lifespan extension arises from microbial perturbation of iron homeostasis and oxidative stress response activation
#RefereedPreprint c/o @reviewcommons.org
www.embopress.org/doi/full/10....
1/4 🌍 We are looking for a passionate #PhD student in #Metabolic #Microbiome #Modeling in the Marie Skłodowska-Curie Doctoral Network MenoBrain. Join us at one of Europe’s microbiome research hubs and push the boundaries of microbiome science! @uni-kiel.de
🔗 www.uniklinikum-jena.de/menobrain/en...
🔗 www.uniklinikum-jena.de/menobrain/en...
October 9, 2025 at 7:04 AM
1/4 🌍 We are looking for a passionate #PhD student in #Metabolic #Microbiome #Modeling in the Marie Skłodowska-Curie Doctoral Network MenoBrain. Join us at one of Europe’s microbiome research hubs and push the boundaries of microbiome science! @uni-kiel.de
🔗 www.uniklinikum-jena.de/menobrain/en...
🔗 www.uniklinikum-jena.de/menobrain/en...
Excited to share a review on metabolic modelling of host-microbiome-interactions by Natchapon Srinak (@snatchapon.bsky.social) and Jan Taubenheim from the lab: www.sciencedirect.com/science/arti...
Metabolic Modeling of Host-Microbe Interactions
Host-microbe interactions play an integral role in the function and survival of eukaryotes, influencing various processes ranging from metabolism to i…
www.sciencedirect.com
October 6, 2025 at 9:37 AM
Excited to share a review on metabolic modelling of host-microbiome-interactions by Natchapon Srinak (@snatchapon.bsky.social) and Jan Taubenheim from the lab: www.sciencedirect.com/science/arti...
Reposted by Christoph Kaleta
Excellent article on quantitative production of fermentation products by the microbiota. Key takeaway: microbial fermentation products may be more important in mice than humans, amplifying microbiome effects in mice. www.cell.com/cell/fulltex...
Quantifying the varying harvest of fermentation products from the human gut microbiota
Fermentation products are the most abundant gut microbial metabolites absorbed by
the host, with important dose-dependent consequences for health. In this study, we
present a systems-level analysis in...
www.cell.com
September 22, 2025 at 7:49 AM
Excellent article on quantitative production of fermentation products by the microbiota. Key takeaway: microbial fermentation products may be more important in mice than humans, amplifying microbiome effects in mice. www.cell.com/cell/fulltex...
Reposted by Christoph Kaleta
🕰️ Is aging driven by a programmed/programmatic mechanism, or by the unavoidable burden of imperfect maintenance? Our perspective argues that aging reflects finite maintenance and reduced evolutionary pressure🧵🧪 www.nature.com/articles/s43... @bjornschumacher.bsky.social @alexeimaklakov.bsky.social
Aging by the clock and yet without a program - Nature Aging
Meyer and colleagues refute the idea that, as aging can be tracked precisely by clocks, it must be driven by a biological program. They propose that imperfect maintenance and repair processes resultin...
www.nature.com
September 18, 2025 at 9:08 AM
🕰️ Is aging driven by a programmed/programmatic mechanism, or by the unavoidable burden of imperfect maintenance? Our perspective argues that aging reflects finite maintenance and reduced evolutionary pressure🧵🧪 www.nature.com/articles/s43... @bjornschumacher.bsky.social @alexeimaklakov.bsky.social
Reposted by Christoph Kaleta
Interested in the design of defined microbial communities for fundamental research and applications? Hope this work & tool will help you 👇 As always @tcahitch.bsky.social has been a driving factor ⭐⭐⭐! github.com/ClavelLab/Mi...; academic.oup.com/ismej/advanc...
Validate User
academic.oup.com
September 18, 2025 at 12:11 PM
Interested in the design of defined microbial communities for fundamental research and applications? Hope this work & tool will help you 👇 As always @tcahitch.bsky.social has been a driving factor ⭐⭐⭐! github.com/ClavelLab/Mi...; academic.oup.com/ismej/advanc...
Reposted by Christoph Kaleta
So, is this bacterial metabolite relevant in humans? With help from @kaletalab.bsky.social we predicted its production is significantly higher in the gut microbiomes of colorectal cancer patients. It is also present in cancer-associated microbiomes.
What does it actually do to cancer cells?
What does it actually do to cancer cells?
September 10, 2025 at 7:28 PM
So, is this bacterial metabolite relevant in humans? With help from @kaletalab.bsky.social we predicted its production is significantly higher in the gut microbiomes of colorectal cancer patients. It is also present in cancer-associated microbiomes.
What does it actually do to cancer cells?
What does it actually do to cancer cells?
Happy to have contributed!
Excited to share our latest work at Cabreiro lab!
Chemotherapy modulation by a cancer-associated microbiota metabolite
www.cell.com/cell-systems...
Here's what we discovered 🧵
Chemotherapy modulation by a cancer-associated microbiota metabolite
www.cell.com/cell-systems...
Here's what we discovered 🧵
Chemotherapy modulation by a cancer-associated microbiota metabolite
Martinez-Martinez et al. combine a host-microbe-drug-nutrient screen with multi-omics
to reveal how the cancer-associated microbiota modulates chemotherapy. They identify
2-methylisocitrate, a microbi...
www.cell.com
September 11, 2025 at 5:27 AM
Happy to have contributed!
Reposted by Christoph Kaleta
Excited to share our latest work at Cabreiro lab!
Chemotherapy modulation by a cancer-associated microbiota metabolite
www.cell.com/cell-systems...
Here's what we discovered 🧵
Chemotherapy modulation by a cancer-associated microbiota metabolite
www.cell.com/cell-systems...
Here's what we discovered 🧵
Chemotherapy modulation by a cancer-associated microbiota metabolite
Martinez-Martinez et al. combine a host-microbe-drug-nutrient screen with multi-omics
to reveal how the cancer-associated microbiota modulates chemotherapy. They identify
2-methylisocitrate, a microbi...
www.cell.com
September 10, 2025 at 7:28 PM
Excited to share our latest work at Cabreiro lab!
Chemotherapy modulation by a cancer-associated microbiota metabolite
www.cell.com/cell-systems...
Here's what we discovered 🧵
Chemotherapy modulation by a cancer-associated microbiota metabolite
www.cell.com/cell-systems...
Here's what we discovered 🧵
Reposted by Christoph Kaleta
🚨New paper published today on cancer bugs and drugs!🚨
“Chemotherapy modulation by a cancer-associated microbiota metabolite”
Congrats to the Cabreiro lab on this exciting study!
#Cancer #Microbiome #Metabolism #Chemotherapy
#MRC_LMS #ImperialCollege #CECAD_Cologne
www.cell.com/cell-systems...
“Chemotherapy modulation by a cancer-associated microbiota metabolite”
Congrats to the Cabreiro lab on this exciting study!
#Cancer #Microbiome #Metabolism #Chemotherapy
#MRC_LMS #ImperialCollege #CECAD_Cologne
www.cell.com/cell-systems...
September 10, 2025 at 5:16 PM
🚨New paper published today on cancer bugs and drugs!🚨
“Chemotherapy modulation by a cancer-associated microbiota metabolite”
Congrats to the Cabreiro lab on this exciting study!
#Cancer #Microbiome #Metabolism #Chemotherapy
#MRC_LMS #ImperialCollege #CECAD_Cologne
www.cell.com/cell-systems...
“Chemotherapy modulation by a cancer-associated microbiota metabolite”
Congrats to the Cabreiro lab on this exciting study!
#Cancer #Microbiome #Metabolism #Chemotherapy
#MRC_LMS #ImperialCollege #CECAD_Cologne
www.cell.com/cell-systems...
Delighted to share: "Metatranscriptomics-based Metabolic Modeling of Patient-Specific Urinary Microbiomes during Infection". Great work led by Jonathan Josephs-Spaulding, in collaboration with the Rupp lab. @uni-kiel.de @crc1182.bsky.social @uniluebeck.bsky.social (1/7)
rdcu.be/eFnXZ
rdcu.be/eFnXZ
Metatranscriptomics-based metabolic modeling of patient-specific urinary microbiome during infection
npj Biofilms and Microbiomes - Metatranscriptomics-based metabolic modeling of patient-specific urinary microbiome during infection
rdcu.be
September 10, 2025 at 11:44 AM
Delighted to share: "Metatranscriptomics-based Metabolic Modeling of Patient-Specific Urinary Microbiomes during Infection". Great work led by Jonathan Josephs-Spaulding, in collaboration with the Rupp lab. @uni-kiel.de @crc1182.bsky.social @uniluebeck.bsky.social (1/7)
rdcu.be/eFnXZ
rdcu.be/eFnXZ
Reposted by Christoph Kaleta
Only 10 days left to apply:
We are searching for a senior postdoc (3 +3 years) in the field of theoretical ecology and evolution.
The position provides the opportunity to closely interact with experimentalists and develop own research projects.
Please RT.
Details 👇:
shorturl.at/iiiOv
We are searching for a senior postdoc (3 +3 years) in the field of theoretical ecology and evolution.
The position provides the opportunity to closely interact with experimentalists and develop own research projects.
Please RT.
Details 👇:
shorturl.at/iiiOv
September 1, 2025 at 5:54 AM
Only 10 days left to apply:
We are searching for a senior postdoc (3 +3 years) in the field of theoretical ecology and evolution.
The position provides the opportunity to closely interact with experimentalists and develop own research projects.
Please RT.
Details 👇:
shorturl.at/iiiOv
We are searching for a senior postdoc (3 +3 years) in the field of theoretical ecology and evolution.
The position provides the opportunity to closely interact with experimentalists and develop own research projects.
Please RT.
Details 👇:
shorturl.at/iiiOv
Reposted by Christoph Kaleta
I am excited to announce that the position of a senior postdoc (3 +3 years) in the field of theoretical biology is available in my group.
The position provides the opportunity to closely interact with experimentalists and develop own research projects.
Please RT.
Details 👇:
shorturl.at/iiiOv
The position provides the opportunity to closely interact with experimentalists and develop own research projects.
Please RT.
Details 👇:
shorturl.at/iiiOv
116 FB 5 Research Assistant (m/f/d) field of Theoretical Ecology and Evolution or Computational Biology: Uni Osnabrück
shorturl.at
August 8, 2025 at 10:09 AM
I am excited to announce that the position of a senior postdoc (3 +3 years) in the field of theoretical biology is available in my group.
The position provides the opportunity to closely interact with experimentalists and develop own research projects.
Please RT.
Details 👇:
shorturl.at/iiiOv
The position provides the opportunity to closely interact with experimentalists and develop own research projects.
Please RT.
Details 👇:
shorturl.at/iiiOv
Reposted by Christoph Kaleta
💥Personalized C. difficile colonization risk prediction and probiotic therapy assessment in the human gut💥
I'm very excited about this work, driven by Alex Carr & co-supervised by @cdiener.com
@cp-cellsystems.bsky.social @isbscience.org @nitinbaliga.bsky.social
www.cell.com/cell-systems...
🧵...
I'm very excited about this work, driven by Alex Carr & co-supervised by @cdiener.com
@cp-cellsystems.bsky.social @isbscience.org @nitinbaliga.bsky.social
www.cell.com/cell-systems...
🧵...
Personalized Clostridioides difficile colonization risk prediction and probiotic therapy assessment in the human gut
Carr et al. show how microbial community-scale metabolic models (MCMMs) predict personalized
Clostridioides difficile colonization risk and probiotic efficacy. MCMMs reveal key
metabolic strategies ex...
www.cell.com
August 6, 2025 at 4:51 PM
💥Personalized C. difficile colonization risk prediction and probiotic therapy assessment in the human gut💥
I'm very excited about this work, driven by Alex Carr & co-supervised by @cdiener.com
@cp-cellsystems.bsky.social @isbscience.org @nitinbaliga.bsky.social
www.cell.com/cell-systems...
🧵...
I'm very excited about this work, driven by Alex Carr & co-supervised by @cdiener.com
@cp-cellsystems.bsky.social @isbscience.org @nitinbaliga.bsky.social
www.cell.com/cell-systems...
🧵...
Reposted by Christoph Kaleta
Reposted by Christoph Kaleta
You can get an accurate estimate of total bacterial biomass from stool metagenomes by simply normalizing by host read count, without needing any additional measurements.
Excellent work by UW Master's student Gechlang Tang in @asm.org #mSystems Journal.
journals.asm.org/doi/10.1128/...
🧵
Excellent work by UW Master's student Gechlang Tang in @asm.org #mSystems Journal.
journals.asm.org/doi/10.1128/...
🧵
Metagenomic estimation of absolute bacterial biomass in the mammalian gut through host-derived read normalization | mSystems
In this study, we asked whether normalization by host reads alone was sufficient to
estimate absolute bacterial biomass directly from stool metagenomic data, without
the need for synthetic spike-ins, ...
journals.asm.org
July 31, 2025 at 3:33 PM
You can get an accurate estimate of total bacterial biomass from stool metagenomes by simply normalizing by host read count, without needing any additional measurements.
Excellent work by UW Master's student Gechlang Tang in @asm.org #mSystems Journal.
journals.asm.org/doi/10.1128/...
🧵
Excellent work by UW Master's student Gechlang Tang in @asm.org #mSystems Journal.
journals.asm.org/doi/10.1128/...
🧵
(1/5)
🧠 Excited to share our new preprint on molecular drivers of cognitive function in aging mice!
Led by Stefano Flor & @sciwitch.bsky.social, with the Frahm lab @uni-kiel.de @crc1182.bsky.social
📄 www.biorxiv.org/content/10.1...
🧠 Excited to share our new preprint on molecular drivers of cognitive function in aging mice!
Led by Stefano Flor & @sciwitch.bsky.social, with the Frahm lab @uni-kiel.de @crc1182.bsky.social
📄 www.biorxiv.org/content/10.1...
Multi-omics analysis highlights the link of aging-related cognitive decline with systemic inflammation and alterations of tissue-maintenance
Aging-related cognitive decline is associated with changes across different tissues and the gut microbiome, including dysfunction of the gut-brain axis. However, only few studies have linked multi-org...
www.biorxiv.org
July 22, 2025 at 12:43 PM
(1/5)
🧠 Excited to share our new preprint on molecular drivers of cognitive function in aging mice!
Led by Stefano Flor & @sciwitch.bsky.social, with the Frahm lab @uni-kiel.de @crc1182.bsky.social
📄 www.biorxiv.org/content/10.1...
🧠 Excited to share our new preprint on molecular drivers of cognitive function in aging mice!
Led by Stefano Flor & @sciwitch.bsky.social, with the Frahm lab @uni-kiel.de @crc1182.bsky.social
📄 www.biorxiv.org/content/10.1...
Interesting perspective calling into question the hologenome/holobiont concept. They argue that the holobiont does not qualify as a unit of selection and rather traditional approaches from genetics and ecology are more suitable to study host-microbiome-interactions: journals.asm.org/doi/10.1128/...
Holes in the Hologenome: Why Host-Microbe Symbioses Are Not Holobionts | mBio
ABSTRACT The advent of relatively inexpensive tools for characterizing microbial communities has led to an explosion of research exploring the diversity, ecology, and evolution of microbe-host systems. Some now question whether existing conceptual ...
journals.asm.org
July 14, 2025 at 10:20 AM
Interesting perspective calling into question the hologenome/holobiont concept. They argue that the holobiont does not qualify as a unit of selection and rather traditional approaches from genetics and ecology are more suitable to study host-microbiome-interactions: journals.asm.org/doi/10.1128/...
Reposted by Christoph Kaleta
www.nature.com/articles/s41...
The role of metabolism in shaping enzyme structures over 400 million years
The role of metabolism in shaping enzyme structures over 400 million years
The role of metabolism in shaping enzyme structures over 400 million years - Nature
By combining structural biology and evolutionary genomics analyses, the evolution of enzymes over 400 million years is shown to be governed by catalytic function, metabolic network architecture, cost ...
www.nature.com
July 9, 2025 at 4:02 PM
www.nature.com/articles/s41...
The role of metabolism in shaping enzyme structures over 400 million years
The role of metabolism in shaping enzyme structures over 400 million years