A5016951619- Gut microbiota and health
- Clostridium difficile and Clostridium perfringens research
- Pharmacological Effects of Natural Compounds
- Microbial Community Ecology and Physiology
- Porphyrin Metabolism and Disorders
- RNA and protein synthesis mechanisms
- Bacteriophages and microbial interactions
- Microbial metabolism and enzyme function
- Probiotics and Fermented Foods
- Bacterial Genetics and Biotechnology
- Metal-Catalyzed Oxygenation Mechanisms
- Diet and metabolism studies
- Microbial Metabolic Engineering and Bioproduction
- Helicobacter pylori-related gastroenterology studies
University of Wisconsin–Madison
2017-2023
Calvin University
2017
Article21 June 2018Open Access Transparent process Deciphering microbial interactions in synthetic human gut microbiome communities Ophelia S Venturelli Corresponding Author [email protected] orcid.org/0000-0003-2200-1963 Department of Biochemistry, University Wisconsin-Madison, Madison, WI, USA Search for more papers by this author Alex V Carr Environmental Genomics and Systems Biology, Lawrence Berkeley National Laboratory, Berkeley, CA, Garth Fisher Ryan H Hsu...
The capability to design microbiomes with predictable functions would enable new technologies for applications in health, agriculture, and bioprocessing. Towards this goal, we develop a model-guided approach synthetic human gut production of the health-relevant metabolite butyrate. Our data-driven model quantifies microbial interactions impacting growth butyrate separately, providing key insights into ecological mechanisms driving production. We use our explore vast community space using...
In the human gut, growth of pathogen Clostridioides difficile is impacted by a complex web interspecies interactions with members gut microbiota. We investigate contribution on antibiotic response C . to clinically relevant antibiotics using bottom-up assembly communities. identify 2 classes microbial that alter ’s susceptibility: resulting in increased ability grow at high concentrations (rare) and enhancement low (common). Based genome-wide transcriptional profiling data, we demonstrate...
Genetic competence is a process in which cells are able to take up DNA from their environment, resulting horizontal gene transfer, major mechanism for generating diversity bacteria. Many bacteria carry homologs of the central uptake machinery that has been well characterized
ABSTRACT The assembly of microbial communities and functions emerge from a complex dynamic web interactions. A major challenge in microbiome engineering is identifying organism configurations with community-level behaviors that achieve desired function. number possible subcommunities scales exponentially the species system, creating vast experimental design space challenging to even sparsely traverse. We develop model-guided framework for apply this method explore functional landscape...
Abstract Understanding the principles of colonization resistance gut microbiome to pathogen Clostridioides difficile will enable design next generation defined bacterial therapeutics. We investigate ecological community C. invasion using a diverse synthetic human microbiome. Our results show that species richness is key determinant growth across wide range contexts. Using dynamic computational model, we demonstrate receives largest number and magnitude incoming negative interactions....
ABSTRACT In the human gut, growth of Clostridioides difficile is impacted by a complex web inter-species interactions with members gut microbiota. We investigate contribution on antibiotic response C. to clinically relevant antibiotics using bottom-up assembly communities. discover two classes microbial that alter difficile’s susceptibility: infrequent increases in tolerance at high concentrations and frequent enhancements low concentrations. Based genome-wide transcriptional profiling data,...