Christoph Kaleta
@kaletalab.bsky.social
Medical Systems Biology research group - Constraint-based modelling - Modelling of host-microbiome-interactions - Systems Biology of Aging
2/4 You'll apply #metabolic #modeling integrating diverse OMICs data sets to reveal how the microbiome impacts cognitive function during menopause. You'll work closely with our partners at Jena University and the entire MenoBrain consortium (www.uniklinikum-jena.de/menobrain/en/). 🌟 #ScienceJobs
October 9, 2025 at 7:04 AM
2/4 You'll apply #metabolic #modeling integrating diverse OMICs data sets to reveal how the microbiome impacts cognitive function during menopause. You'll work closely with our partners at Jena University and the entire MenoBrain consortium (www.uniklinikum-jena.de/menobrain/en/). 🌟 #ScienceJobs
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...
A closer look at the modeled communities revealed a complex network of metabolic interactions, including compounds implicated in UTI pathogenesis like sorbitol. (6/7)
September 10, 2025 at 11:44 AM
A closer look at the modeled communities revealed a complex network of metabolic interactions, including compounds implicated in UTI pathogenesis like sorbitol. (6/7)
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)
September 10, 2025 at 11:44 AM
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)
Our findings reveal a diverse array of species within the uromicrobiome, extending beyond the commonly identified uropathogenic E. coli. (3/7)
September 10, 2025 at 11:44 AM
Our findings reveal a diverse array of species within the uromicrobiome, extending beyond the commonly identified uropathogenic E. coli. (3/7)
In this study, we combined metabolic modeling with metatranscriptomics to study the uromicrobiome's metabolic interactions during infections in women. (2/7)
September 10, 2025 at 11:44 AM
In this study, we combined metabolic modeling with metatranscriptomics to study the uromicrobiome's metabolic interactions during infections in women. (2/7)
(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.
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.
July 22, 2025 at 12:43 PM
(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.
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.
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.
Standout signals:
– Immune and developmental processes
– Microbial species & functions
These highlight deep connections between immunity, microbiota, and cognition in aging.
July 22, 2025 at 12:43 PM
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.
Standout signals:
– Immune and developmental processes
– Microbial species & functions
These highlight deep connections between immunity, microbiota, and cognition in aging.
(4/5) 🥗 We simulated dietary interventions that could rewire microbial metabolism and restore host balance. We found that many interventions had mixed effects both boosting inflammation-suppressed pathways but also boosting inflammation-induced pathways in a patient-specific manner.
June 4, 2025 at 7:43 AM
(4/5) 🥗 We simulated dietary interventions that could rewire microbial metabolism and restore host balance. We found that many interventions had mixed effects both boosting inflammation-suppressed pathways but also boosting inflammation-induced pathways in a patient-specific manner.
(3/5) 🦠 The gut microbiome isn’t just collateral damage—it’s tightly intertwined with host metabolism. We observed shifts in microbial NAD, amino acid & polyamine metabolism, reinforcing host metabolic stress. Bidirectional dysregulation is a key takeaway.
June 4, 2025 at 7:43 AM
(3/5) 🦠 The gut microbiome isn’t just collateral damage—it’s tightly intertwined with host metabolism. We observed shifts in microbial NAD, amino acid & polyamine metabolism, reinforcing host metabolic stress. Bidirectional dysregulation is a key takeaway.
(2/5) Host metabolism in IBD shows:
- Enhanced tryptophan catabolism → systemic Trp depletion
- Impaired NAD biosynthesis
- Reduced transamination → nitrogen imbalance
- One-carbon cycle suppression → altered phospholipid composition
- Enhanced tryptophan catabolism → systemic Trp depletion
- Impaired NAD biosynthesis
- Reduced transamination → nitrogen imbalance
- One-carbon cycle suppression → altered phospholipid composition
June 4, 2025 at 7:43 AM
(2/5) Host metabolism in IBD shows:
- Enhanced tryptophan catabolism → systemic Trp depletion
- Impaired NAD biosynthesis
- Reduced transamination → nitrogen imbalance
- One-carbon cycle suppression → altered phospholipid composition
- Enhanced tryptophan catabolism → systemic Trp depletion
- Impaired NAD biosynthesis
- Reduced transamination → nitrogen imbalance
- One-carbon cycle suppression → altered phospholipid composition
(6/7) Encouraged by these results we tested phenformin Golden Syrian hamsters in vivo and could confirm it's antiviral effect.
May 27, 2025 at 7:25 AM
(6/7) Encouraged by these results we tested phenformin Golden Syrian hamsters in vivo and could confirm it's antiviral effect.
(5/7) For two inhibitors, Phenformin and Atpenin A5, we could confirm broad antiviral activity against SARS-CoV-2, Dengue virus, Influenza A, and RSV in cell culture with negligible cellular toxicity.
May 27, 2025 at 7:25 AM
(5/7) For two inhibitors, Phenformin and Atpenin A5, we could confirm broad antiviral activity against SARS-CoV-2, Dengue virus, Influenza A, and RSV in cell culture with negligible cellular toxicity.
(3/7) We mapped scRNA-Seq data from virally infected cells to a metabolic network model of humans to identify pathways active during viral replication across three human pathogenic viruses: SARS-CoV-2, Dengue virus, and Influenza A.
May 27, 2025 at 7:25 AM
(3/7) We mapped scRNA-Seq data from virally infected cells to a metabolic network model of humans to identify pathways active during viral replication across three human pathogenic viruses: SARS-CoV-2, Dengue virus, and Influenza A.
4/5 ⚔️ Ecological take-home: interactions shift from cooperative (mutualism/commensalism) toward exploitative (competition/antagonism). In T2D, the microbiome becomes more “self-sufficient” and less under host control.
May 9, 2025 at 7:47 AM
4/5 ⚔️ Ecological take-home: interactions shift from cooperative (mutualism/commensalism) toward exploitative (competition/antagonism). In T2D, the microbiome becomes more “self-sufficient” and less under host control.
3/5 📉 Key result: as blood glucose climbs, gut microbes import fewer nutrients and churn out less butyrate —a crucial anti-inflammatory metabolite. At the same time, internal cross-feeding among microbes goes up.
May 9, 2025 at 7:47 AM
3/5 📉 Key result: as blood glucose climbs, gut microbes import fewer nutrients and churn out less butyrate —a crucial anti-inflammatory metabolite. At the same time, internal cross-feeding among microbes goes up.
2/5 🔍 We integrated 16S rRNA profiles from 1,866 participants (81 with T2D), detailed diet logs & blood-glucose measurements to build community flux-balance models—capturing host→microbe and microbe↔microbe metabolite exchanges.
May 9, 2025 at 7:47 AM
2/5 🔍 We integrated 16S rRNA profiles from 1,866 participants (81 with T2D), detailed diet logs & blood-glucose measurements to build community flux-balance models—capturing host→microbe and microbe↔microbe metabolite exchanges.
4/7: A multi-omics approach revealed shifts in metabolic pathways, with boosted oxidative phosphorylation and lower pro-inflammatory signals in key intestinal cells.
April 4, 2025 at 7:40 AM
4/7: A multi-omics approach revealed shifts in metabolic pathways, with boosted oxidative phosphorylation and lower pro-inflammatory signals in key intestinal cells.
3/7: Mice receiving the young microbiome showed improved coordination, a stronger intestinal barrier, and reduced markers of inflammaging compared to controls.
April 4, 2025 at 7:40 AM
3/7: Mice receiving the young microbiome showed improved coordination, a stronger intestinal barrier, and reduced markers of inflammaging compared to controls.
2/7: We explored how continuous transfer of a young microbiome can delay aging processes in mice. Thus, we treated aging mice with recurrent fecal microbial transfers from young donors (yMB) versus transfers from age-matched controls (iMB) —aiming to rejuvenate the gut ecosystem over the lifespan.
April 4, 2025 at 7:40 AM
2/7: We explored how continuous transfer of a young microbiome can delay aging processes in mice. Thus, we treated aging mice with recurrent fecal microbial transfers from young donors (yMB) versus transfers from age-matched controls (iMB) —aiming to rejuvenate the gut ecosystem over the lifespan.
11/12 Focusing on nucleotide metabolism, we found a significant depletion of microbiome-derived nucleotides in the brain, opening doors to targeted aging therapies.
March 26, 2025 at 10:51 AM
11/12 Focusing on nucleotide metabolism, we found a significant depletion of microbiome-derived nucleotides in the brain, opening doors to targeted aging therapies.
10/12 The diminishing microbiome function with age correlates with a decline in host metabolic functions depending on them, illustrating a deep interdependence.
March 26, 2025 at 10:51 AM
10/12 The diminishing microbiome function with age correlates with a decline in host metabolic functions depending on them, illustrating a deep interdependence.
9/12 Our data reveal a significant enrichment of aging-regulated genes linked to microbiome interactions, suggesting the microbiome's pivotal role in aging.
March 26, 2025 at 10:51 AM
9/12 Our data reveal a significant enrichment of aging-regulated genes linked to microbiome interactions, suggesting the microbiome's pivotal role in aging.
8/12 Changes in the gut metabolome with aging reflect these dynamics, showing a suppression of key metabolites and shifts in bile acid regulation - host-regulated bile acids accumulate while microbiome-regulated bile acids are depleted. Kudos to Alesia Walker (Schmitt-Kopplin lab) for the analysis.
March 26, 2025 at 10:51 AM
8/12 Changes in the gut metabolome with aging reflect these dynamics, showing a suppression of key metabolites and shifts in bile acid regulation - host-regulated bile acids accumulate while microbiome-regulated bile acids are depleted. Kudos to Alesia Walker (Schmitt-Kopplin lab) for the analysis.
7/12 As mice age, we observed a marked decline in these metabolic interactions, with a notable decrease in microbial activity and growth rates (panel D) going along with a considerable loss of within-microbiome metabolic interactions (panel E).
March 26, 2025 at 10:51 AM
7/12 As mice age, we observed a marked decline in these metabolic interactions, with a notable decrease in microbial activity and growth rates (panel D) going along with a considerable loss of within-microbiome metabolic interactions (panel E).