A5020453926- Gut microbiota and health
- Microbial Metabolic Engineering and Bioproduction
- Evolution and Genetic Dynamics
- Bacterial Genetics and Biotechnology
- Microbial Community Ecology and Physiology
- Art, Politics, and Modernism
- Cell Image Analysis Techniques
- Gene Regulatory Network Analysis
- French Historical and Cultural Studies
- Biocrusts and Microbial Ecology
- Evolutionary Game Theory and Cooperation
- Cultural Insights and Digital Impacts
- Venomous Animal Envenomation and Studies
- Yersinia bacterium, plague, ectoparasites research
- Microbial Natural Products and Biosynthesis
- Plant-based Medicinal Research
- Microbial Metabolism and Applications
- Stroke Rehabilitation and Recovery
- Bacteriophages and microbial interactions
- Bacterial biofilms and quorum sensing
- Bioinformatics and Genomic Networks
- Biochemical and biochemical processes
- Probiotics and Fermented Foods
- Philosophical and Cultural Analysis
- Microbial infections and disease research
University of California, San Diego
2018-2024
Arcadia Science
2023-2024
Arcadia
2023-2024
Institut National des Sciences Appliquées de Toulouse
2017-2022
Centre National de la Recherche Scientifique
2016-2022
Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement
2020-2022
Université Grenoble Alpes
2017-2020
Centre Inria de l'Université Grenoble Alpes
2016-2020
Université de Toulouse
2016-2018
Laboratoire d'Ingénierie des Systèmes Biologiques et des Procédés
2015-2018
Microbial community structure and function rely on complex interactions whose underlying molecular mechanisms are poorly understood. To investigate these in a simple microbiome, we introduced E. coli into an experimental based cheese rind identified the differences coli's genetic requirements for growth interactive non-interactive contexts using Random Barcode Transposon Sequencing (RB-TnSeq) RNASeq. Genetic varied among pairwise conditions between conditions. Our analysis points to by which...
Non-pairwise interactions, or higher-order interactions (HOIs), in microbial communities have been described as significant drivers of emergent features microbiomes. Yet, the re-organization between pairwise cultures and larger remains largely unexplored from a molecular perspective but is central to our understanding further manipulation communities. Here, we used bottom-up approach investigate interaction mechanisms up 4-species simple microbiome (Hafnia alvei, Geotrichum candidum,...
Metabolic control in Escherichia coli is a complex process involving multilevel regulatory systems but the involvement of post-transcriptional regulation uncertain. The factor CsrA stated as being only regulator essential for use glycolytic substrates. A dozen enzymes central carbon metabolism (CCM) have been reported potentially controlled by CsrA, its impact on CCM functioning has not demonstrated. Here, multiscale analysis was performed wild-type strain and isogenic mutant attenuated...
ABSTRACT In the bacterium Escherichia coli , posttranscriptional regulatory system Csr was postulated to influence transition from glycolysis gluconeogenesis. Here, we explored role of in glucose-acetate as a model glycolysis-to-gluconeogenesis switch. Mutations reorganization gene expression after glucose exhaustion and disturb timing acetate reconsumption exhaustion. Analysis metabolite concentrations during revealed that has major effect on energy levels cells This demonstrated result...
Bacteria have to continuously adjust nutrient fluctuations from favorable less-favorable conditions and in response carbon starvation. The glucose-acetate transition followed by starvation is representative of such observed Escherichia coli many environments. Regulation gene expression through fine-tuning mRNA pools constitutes one the regulation levels required for a metabolic adaptation. It results both transcription degradation controls. However, contribution transcript stability poorly...
Bacterial–fungal interactions (BFIs) were explored in pairwise co-cultures of species from the cheese rind microbiome, revealing that fungi are key contributors to small molecule mediate BFIs and important microbiomes.
ABSTRACT Non-pairwise interactions, or higher-order interactions (HOIs), in microbial communities have been claimed to explain the emergent features microbiomes. Yet, re-organization of between pairwise cultures and larger remains largely unexplored from a molecular perspective but is central our understanding further manipulation communities. Here, we used bottom-up approach investigate interaction mechanisms up 4-species simple microbiome ( Hafnia alvei, Geotrichum candidum, Pencillium...
ABSTRACT Microbial interactions are major determinants in shaping microbiome structure and function. Although fungi found across diverse microbiomes, the mechanisms through which interact with other species remain largely uncharacterized. In this work, we explore diversity of ways can impact bacteria by characterizing interaction 16 different bacterial-fungal pairs, involving 8 2 ( Escherichia coli Pseudomonas psychrophila ). Using random barcode transposon-site sequencing (RB-TnSeq),...
Bacterial-fungal interactions (BFIs) can shape the structure of microbial communities, but small molecules mediating these BFIs are often understudied. We explored various optimization steps for our culture and chemical extraction protocols bacterial-fungal co-cultures, liquid chromatography-tandem mass spectrometry (LC-MS/MS) revealed that metabolomic profiles mainly comprised fungi derived features, indicating key contributors to molecule mediated BFIs. LC-inductively coupled plasma MS...
Abstract Diverse populations of bacteriophages infect and coevolve with their bacterial hosts. Although host recognition infection occur within microbiomes, the molecular mechanisms underlying host–phage interactions a community context remain poorly studied. The biofilms (rinds) aged cheeses contain taxonomically diverse microbial communities that follow reproducible growth patterns can be manipulated under laboratory conditions. In this study, we use cheese as model for studying...
ABSTRACT Microbial community structure and function rely on complex interactions whose underlying molecular mechanisms are poorly understood. To investigate these in a simple microbiome, we introduced E. coli into an experimental based cheese rind identified the differences coli’ s genetic requirements for growth interactive non-interactive contexts using Random Barcode Transposon Sequencing (RB-TnSeq) RNASeq. coli’s varied among pairwise conditions between conditions. Our analysis points to...
Abstract Diverse populations of bacteriophages infect and co-evolve with their bacterial hosts. Although host recognition infection occurs within microbiomes, the molecular mechanisms underlying host-phage interactions a community context remain poorly studied. The biofilms (rinds) aged cheeses contain taxonomically diverse microbial communities that follow reproducible growth patterns can be manipulated under laboratory conditions. In this study, we use cheese as model for studying...