kaletalab.bsky.social
Christoph Kaleta
@kaletalab.bsky.social
460 followers 510 following 83 posts
Medical Systems Biology research group - Constraint-based modelling - Modelling of host-microbiome-interactions - Systems Biology of Aging
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kaletalab.bsky.social
Christoph Kaleta @kaletalab.bsky.social · May 27
(1/7) Ever wondered whether there are compounds that broadly inhibit viral replication like antibiotics do in bacteria? We identified several compounds broadly active against quite diverse viruses using metabolic modeling and wet-lab experiments.
Manuscript available at rdcu.be/enhSp
Metabolic modeling elucidates phenformin and atpenin A5 as broad-spectrum antiviral drugs against RNA viruses
Communications Biology - A metabolic modeling approach reveals druggable host cell pathways essential for viral replication across various viruses with minimal cytotoxicity. These findings...
rdcu.be
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kaletalab.bsky.social
Christoph Kaleta @kaletalab.bsky.social · 2d
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
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Reposted by Christoph Kaleta
maburto.bsky.social
María R. Aburto @maburto.bsky.social · 12d
www.cell.com/cell-reports...
The multiomics blueprint of the individual with the most extreme lifespan
In brief, Santos-Pujol and colleagues characterize the multiomics landscape of the human with the most extreme longevity. The study enables the association of advantageous genetic variants, an engaged...
www.cell.com
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kaletalab.bsky.social
Christoph Kaleta @kaletalab.bsky.social · 16d
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
3 4
Reposted by Christoph Kaleta
meyerdh.bsky.social
David Meyer @meyerdh.bsky.social · 20d
🕰️ 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
2 9 25
Reposted by Christoph Kaleta
tclavel.bsky.social
Thomas Clavel @tclavel.bsky.social · 20d
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
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Reposted by Christoph Kaleta
dmartimarti.bsky.social
Daniel Martínez @dmartimarti.bsky.social · 27d
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?
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kaletalab.bsky.social
Christoph Kaleta @kaletalab.bsky.social · 27d
Happy to have contributed!
dmartimarti.bsky.social
Daniel Martínez @dmartimarti.bsky.social · 27d
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
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
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Reposted by Christoph Kaleta
dmartimarti.bsky.social
Daniel Martínez @dmartimarti.bsky.social · 27d
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
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
1 4 6
Reposted by Christoph Kaleta
cochemelab.bsky.social
Helena Cocheme @cochemelab.bsky.social · 27d
🚨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...
2 7 16
kaletalab.bsky.social
Christoph Kaleta @kaletalab.bsky.social · 28d
Our results suggest that uropathogens may depend on a broad network of metabolic interactions during infection, potentially unlocking new treatment strategies for UTIs. (7/7)
kaletalab.bsky.social
Christoph Kaleta @kaletalab.bsky.social · 28d
A closer look at the modeled communities revealed a complex network of metabolic interactions, including compounds implicated in UTI pathogenesis like sorbitol. (6/7)
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kaletalab.bsky.social
Christoph Kaleta @kaletalab.bsky.social · 28d
Although the predicted metabolic fluxes showed mostly small differences post-metatranscriptomic data integration, we observed a notable reduction in overall flux due to the fastcore algorithm. (5/7)
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kaletalab.bsky.social
Christoph Kaleta @kaletalab.bsky.social · 28d
We simulated the bacterial community using BacArena, integrating both metabolic models and context-specific metatranscriptomic data. (4/7)
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kaletalab.bsky.social
Christoph Kaleta @kaletalab.bsky.social · 28d
Our findings reveal a diverse array of species within the uromicrobiome, extending beyond the commonly identified uropathogenic E. coli. (3/7)
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kaletalab.bsky.social
Christoph Kaleta @kaletalab.bsky.social · 28d
In this study, we combined metabolic modeling with metatranscriptomics to study the uromicrobiome's metabolic interactions during infections in women. (2/7)
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kaletalab.bsky.social
Christoph Kaleta @kaletalab.bsky.social · 28d
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
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
1 1 1
Reposted by Christoph Kaleta
kostchristian.bsky.social
Christian Kost @kostchristian.bsky.social · Sep 1
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
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Reposted by Christoph Kaleta
kostchristian.bsky.social
Christian Kost @kostchristian.bsky.social · Aug 8
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
116 FB 5 Research Assistant (m/f/d) field of Theoretical Ecology and Evolution or Computational Biology: Uni Osnabrück
shorturl.at
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Reposted by Christoph Kaleta
gibbological.bsky.social
Sean Gibbons 🦠💩 @gibbological.bsky.social · Aug 6
💥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...

🧵...
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
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Reposted by Christoph Kaleta
beingkyo.bsky.social
Kyojiro N Ikeda @beingkyo.bsky.social · Aug 6
Out stody Is now on National Geographic!!!

www.nationalgeographic.com/animals/arti...
This creature can 3D-print its own body parts
Bristle worms have protrusions that act like a 3D printer, helping us to understand how cells regenerate.
www.nationalgeographic.com
6 10
Reposted by Christoph Kaleta
gibbological.bsky.social
Sean Gibbons 🦠💩 @gibbological.bsky.social · Jul 31
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/...
🧵
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
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kaletalab.bsky.social
Christoph Kaleta @kaletalab.bsky.social · Jul 22
(5/5)
🔍 Summary:
Our findings support a central role for the gut, especially the colon, in cognitive aging.
Microbiome-driven systemic inflammation may be a key mechanism linking gut and brain in age-related cognitive decline.
🧠🌱 Time to rethink the gut-brain axis!
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kaletalab.bsky.social
Christoph Kaleta @kaletalab.bsky.social · Jul 22
(4/5)
When analyzing all layers together, microbial signals dropped out (b) in the plot). Instead, strongest predictors came from the colon, with relatively few from the brain. This suggests that microbial effects on cognition are indirect—mediated through host responses in the gut.
Barplot of identified variables predictive of cognitive function from the individual data layers.
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kaletalab.bsky.social
Christoph Kaleta @kaletalab.bsky.social · Jul 22
Using random forests, we identified strong predictors of cognitive performance across all layers.
Standout signals:
– Immune and developmental processes
– Microbial species & functions
These highlight deep connections between immunity, microbiota, and cognition in aging.
Circle plot of associations between microbial species & functions with cognition.
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