[HTML][HTML] Advances in constraint-based modelling of microbial communities

A Heinken, A Basile, I Thiele - Current Opinion in Systems Biology, 2021 - Elsevier
Microbial communities are near universally present in nature. A wealth of meta-omics data
has been gathered from numerous ecosystems, such as the human gut, ocean or soil …

Metagenomics and metabolomics approaches in the study of Candida albicans colonization of host niches: a framework for finding microbiome-based antifungal …

M Delavy, N Sertour, C d'Enfert, ME Bougnoux - Trends in Microbiology, 2023 - cell.com
In silico and experimental approaches have allowed an ever-growing understanding of the
interactions within the microbiota. For instance, recently acquired data have increased …

Microbiome and metabolome features in inflammatory bowel disease via multi-omics integration analyses across cohorts

L Ning, YL Zhou, H Sun, Y Zhang, C Shen… - Nature …, 2023 - nature.com
The perturbations of the gut microbiota and metabolites are closely associated with the
progression of inflammatory bowel disease (IBD). However, inconsistent findings across …

Lactobacillus rhamnosus colonisation antagonizes Candida albicans by forcing metabolic adaptations that compromise pathogenicity

R Alonso-Roman, A Last, MH Mirhakkak… - Nature …, 2022 - nature.com
Intestinal microbiota dysbiosis can initiate overgrowth of commensal Candida species–a
major predisposing factor for disseminated candidiasis. Commensal bacteria such as …

Genome-scale metabolic modeling of Aspergillus fumigatus strains reveals growth dependencies on the lung microbiome

MH Mirhakkak, X Chen, Y Ni, T Heinekamp… - Nature …, 2023 - nature.com
Aspergillus fumigatus, an opportunistic human pathogen, frequently infects the lungs of
people with cystic fibrosis and is one of the most common causes of infectious-disease …

Candida expansion in the gut of lung cancer patients associates with an ecological signature that supports growth under dysbiotic conditions

B Seelbinder, Z Lohinai, R Vazquez-Uribe… - Nature …, 2023 - nature.com
Candida species overgrowth in the human gut is considered a prerequisite for invasive
candidiasis, but our understanding of gut bacteria promoting or restricting this overgrowth is …

The interplay between gut bacteria and the yeast Candida albicans

JC Pérez - Gut Microbes, 2021 - Taylor & Francis
The fungus Candida albicans is a ubiquitous member of the human gut microbiota.
Hundreds or thousands of bacterial taxa reside together with this fungus in the intestine …

Characterization of antifungal cyclic dipeptides of Lacticaseibacillus paracasei ZX1231 and active packaging film prepared with its cell-free supernatant and bacterial …

X Zheng, W Nie, J Xu, H Zhang, X Liang… - Food Research …, 2022 - Elsevier
Fungal infection and/or spoilage are major concerns of crop and food security worldwide,
prompting the developments and application of various antimicrobial agents. In this study …

Metabolic dissimilarity determines the establishment of cross-feeding interactions in bacteria

S Giri, L Oña, S Waschina, S Shitut, G Yousif, C Kaleta… - Current Biology, 2021 - cell.com
The exchange of metabolites among different bacterial genotypes profoundly impacts the
structure and function of microbial communities. However, the factors governing the …

A clinical study provides the first direct evidence that interindividual variations in fecal β-lactamase activity affect the gut mycobiota dynamics in response to β-lactam …

M Delavy, C Burdet, N Sertour, S Devente, JD Docquier… - MBio, 2022 - Am Soc Microbiol
Antibiotics disturb the intestinal bacterial microbiota, leading to gut dysbiosis and an
increased risk for the overgrowth of opportunistic pathogens. It is not fully understood to what …