A5036504241- Gut microbiota and health
- Bacterial Genetics and Biotechnology
- Bacterial Identification and Susceptibility Testing
- Heat shock proteins research
- Clostridium difficile and Clostridium perfringens research
- Genetics, Aging, and Longevity in Model Organisms
- FOXO transcription factor regulation
- Gene Regulatory Network Analysis
- Cell Image Analysis Techniques
- Retinal Development and Disorders
- Microbial Metabolic Engineering and Bioproduction
- Microbial Community Ecology and Physiology
- Neurobiology and Insect Physiology Research
- Complementary and Alternative Medicine Studies
Stanford University
2020-2023
Applied BioPhysics (United States)
2023
California Institute of Technology
2017-2020
Humans constantly encounter new microbes, but few become long-term residents of the adult gut microbiome. Classical theories predict that colonization is determined by availability open niches, it remains unclear whether other ecological barriers limit commensal in natural settings. To disentangle these effects, we used a controlled perturbation with antibiotic ciprofloxacin to investigate dynamics microbiome transmission 22 households healthy, cohabiting adults. Colonization was rare...
Abstract Background Ordered transposon-insertion collections, in which specific mutants are stored as monocultures a genome-scale collection, represent promising tool for genetic dissection of human gut microbiota members. However, publicly available collections scarce and the construction methodology remains early stages development. Results Here, we describe assembly ordered collection model anaerobe Bacteroides thetaiotaomicron VPI-5482 that created resource research community. We used...
To mitigate the deleterious effects of temperature increases on cellular organization and proteotoxicity, organisms have developed mechanisms to respond heat stress. In eukaryotes, HSF1 is master regulator shock transcriptional response, but response pathway not yet fully understood. From a forward genetic screen for suppressors heat-shock-induced gene expression in
Abstract Genomic analyses have revealed how the gut microbiota impacts human health. However, knowledge about physiology of most commensals is largely lacking. Here, we sorted cells from a pooled library to construct an ordered collection transposon-insertion mutants in model commensal Bacteroides thetaiotaomicron . We applied pooling strategy with barcode sequencing locate and created condensed single insertions 2,565 genes. This effort enabled development accurate for progenitor-collection...
Abstract To mitigate the deleterious effects of temperature increases on cellular organization and proteotoxicity, organisms have developed mechanisms to respond heat stress. In eukaryotes, HSF1 is master regulator shock transcriptional response, but response pathway not yet fully understood. From a forward genetic screen for suppressors induced gene expression in C. elegans , we identified new allele hsf-1 that alters its DNA-binding domain, three additional alleles sup-45, previously...
Designing genetic circuits to control the behaviors of microbial populations is an ongoing challenge in synthetic biology. Here we analyze which implement dosage by controlling levels a global signal population face varying cell density, growth rate, and environmental dilution. We utilize Lux quorum sensing system circuits, dynamics using both simplified analytical analysis silico simulations. demonstrate that strong negative feedback through inhibiting LuxI synthase expression along with...