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...
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
Reposted by Christoph Kaleta
Very excited to share the first paper out of my Postdoc @CMR:
GenomeFISH: genome-based fluorescence in situ hybridisation for strain-level visualisation of microbial communities.
@sjmcilroy.bsky.social @jamesvolmer.bsky.social @benjwoodcroft.bsky.social
doi.org/10.1093/isme...
🧵1/7
GenomeFISH: genome-based fluorescence in situ hybridisation for strain-level visualisation of microbial communities.
@sjmcilroy.bsky.social @jamesvolmer.bsky.social @benjwoodcroft.bsky.social
doi.org/10.1093/isme...
🧵1/7
GenomeFISH: genome-based fluorescence in situ hybridisation for strain-level visualisation of microbial communities
Abstract. Fluorescence in situ hybridisation (FISH) is a powerful tool for visualising the spatial organisation of microbial communities. However, traditio
doi.org
July 8, 2025 at 2:30 AM
Very excited to share the first paper out of my Postdoc @CMR:
GenomeFISH: genome-based fluorescence in situ hybridisation for strain-level visualisation of microbial communities.
@sjmcilroy.bsky.social @jamesvolmer.bsky.social @benjwoodcroft.bsky.social
doi.org/10.1093/isme...
🧵1/7
GenomeFISH: genome-based fluorescence in situ hybridisation for strain-level visualisation of microbial communities.
@sjmcilroy.bsky.social @jamesvolmer.bsky.social @benjwoodcroft.bsky.social
doi.org/10.1093/isme...
🧵1/7
Reposted by Christoph Kaleta
🧬🖥️ Postdoc positions available SOON!!
Looking for researchers with strong computational skills (programming essential) to work on microbiome & phylogenetics projects.
📅 Start on Nov 1, 2025 (flexible)
📍 Trento, Italy
DM me for details or share!
#postdocjobs #microbiome #metagenomics #phylogenetics
Looking for researchers with strong computational skills (programming essential) to work on microbiome & phylogenetics projects.
📅 Start on Nov 1, 2025 (flexible)
📍 Trento, Italy
DM me for details or share!
#postdocjobs #microbiome #metagenomics #phylogenetics
July 4, 2025 at 9:11 AM
🧬🖥️ Postdoc positions available SOON!!
Looking for researchers with strong computational skills (programming essential) to work on microbiome & phylogenetics projects.
📅 Start on Nov 1, 2025 (flexible)
📍 Trento, Italy
DM me for details or share!
#postdocjobs #microbiome #metagenomics #phylogenetics
Looking for researchers with strong computational skills (programming essential) to work on microbiome & phylogenetics projects.
📅 Start on Nov 1, 2025 (flexible)
📍 Trento, Italy
DM me for details or share!
#postdocjobs #microbiome #metagenomics #phylogenetics
Reposted by Christoph Kaleta
Words cannot describe how excited I am to share the findings from the second half of my postdoc in @aaronwhiteley.bsky.social's lab where we discover that bacteria use functional amyloids to defend themselves from predatory bacteria. rdcu.be/euu5Y. See thread for details on this epic adventure 1/.
Functional amyloid proteins confer defence against predatory bacteria
Nature - Escherichia coli uses curli fibres, oligomers of the functional amyloid CsgA, as a barrier to protect against the predatory bacteria Bdellovibrio bacteriovorus and Myxococcus xanthus in a...
rdcu.be
July 2, 2025 at 8:10 PM
Words cannot describe how excited I am to share the findings from the second half of my postdoc in @aaronwhiteley.bsky.social's lab where we discover that bacteria use functional amyloids to defend themselves from predatory bacteria. rdcu.be/euu5Y. See thread for details on this epic adventure 1/.
Reposted by Christoph Kaleta
www.nature.com/articles/s41... Our new paper on the risks and socio-demographic dimensions of antibiotic resistance in the human gut is now out in @natcomms.nature.com!
Variation and prognostic potential of the gut antibiotic resistome in the FINRISK 2002 cohort - Nature Communications
Here, in a representative cohort of 7,095 Finnish adults, the authors reveal that gut antibiotic resistance is shaped not only by antibiotic use but also by the microbiome, diet, lifestyle, household ...
www.nature.com
July 2, 2025 at 5:30 AM
www.nature.com/articles/s41... Our new paper on the risks and socio-demographic dimensions of antibiotic resistance in the human gut is now out in @natcomms.nature.com!
Reposted by Christoph Kaleta
Well what do you know!? This might be the most interesting unorthodox orthodox metabolism paper this year.
Triglycerides are an important fuel reserve for synapse function in the brain - Nature Metabolism
Kumar et al. show that under glucose-depleted conditions, neurons can use fatty acids as an alternative source of energy to support synaptic function.
www.nature.com
July 2, 2025 at 4:16 AM
Well what do you know!? This might be the most interesting unorthodox orthodox metabolism paper this year.