A5019964117- Vibrio bacteria research studies
- Antibiotic Resistance in Bacteria
- Bacterial biofilms and quorum sensing
- Microbial Community Ecology and Physiology
- Bacterial Genetics and Biotechnology
- Bacteriophages and microbial interactions
- Genomics and Phylogenetic Studies
- Escherichia coli research studies
- CRISPR and Genetic Engineering
- Gut microbiota and health
- Bacillus and Francisella bacterial research
- Legume Nitrogen Fixing Symbiosis
- Clostridium difficile and Clostridium perfringens research
- RNA and protein synthesis mechanisms
- Yersinia bacterium, plague, ectoparasites research
- Protist diversity and phylogeny
- Evolutionary Game Theory and Cooperation
- Evolution and Genetic Dynamics
- Microbial Natural Products and Biosynthesis
- Neonatal and Maternal Infections
- Antimicrobial Resistance in Staphylococcus
- Wastewater Treatment and Nitrogen Removal
- Probiotics and Fermented Foods
- Streptococcal Infections and Treatments
- Monoclonal and Polyclonal Antibodies Research
University of Washington
2016-2025
Howard Hughes Medical Institute
2023
Seattle University
2009-2017
J. Craig Venter Institute
2009
University of Wisconsin–Madison
2003-2008
Grinnell College
2003
Norwegian University of Science and Technology
1996
Abstract Advances in microscopy hold great promise for allowing quantitative and precise measurement of morphological molecular phenomena at the single-cell level bacteria; however, potential this approach is ultimately limited by availability methods to faithfully segment cells independent their or optical characteristics. Here, we present Omnipose, a deep neural network image-segmentation algorithm. Unique outputs such as gradient distance field allow Omnipose accurately on which current...
Patescibacteria, also known as the candidate phyla radiation (CPR), are a diverse group of bacteria that constitute disproportionately large fraction microbial dark matter. Its few cultivated members, belonging mostly to Saccharibacteria, grow epibionts on host Actinobacteria. Due lack suitable tools, genetic basis this lifestyle and other unique features Patescibacteira remain unexplored. Here, we show Saccharibacteria exhibit natural competence, exploit property for their manipulation....
The Firmicutes are a phylum of bacteria that dominate numerous polymicrobial habitats importance to human health and industry. Although these communities often densely colonized, broadly distributed contact-dependent mechanism interbacterial antagonism utilized by has not been elucidated. Here we show proteins belonging the LXG polymorphic toxin family present in Streptococcus intermedius mediate cell contact- Esx secretion pathway-dependent growth inhibition diverse Firmicute species....
Using a combination of bacterial and phage-targeted metagenomics, we analyzed two geographically remote sludge bioreactors enriched in single species Candidatus Accumulibacter phosphatis (CAP). We inferred unrestricted global movement this identified aquatic ecosystems as the primary environmental reservoirs facilitating dispersal. Highly related CAP strains differed principally genomic regions encoding phage defense mechanisms. found that populations were high density, clonal,...
The perception and response to cellular death is an important aspect of multicellular eukaryotic life. For example, damage-associated molecular patterns activate inflammatory cascade that leads removal debris promotion healing. We demonstrate lysis Pseudomonas aeruginosa cells triggers a program in the remaining population confers fitness interspecies co-culture. find this program, termed P. antagonism (PARA), involves rapid deployment antibacterial factors mediated by Gac/Rsm global...
ABSTRACT The genome of Burkholderia thailandensis codes for several LuxR-LuxI quorum-sensing systems. We used B. deletion mutants and recombinant Escherichia coli to determine the nature signals produced by one systems, BtaR2-BtaI2, show that this system controls genes required synthesis an antibiotic. BtaI2 is acyl-homoserine lactone (acyl-HSL) synthase produces two hydroxylated acyl-HSLs, N -3-hydroxy-decanoyl-HSL (3OHC 10 -HSL) -3-hydroxy-octanoyl-HSL 8 -HSL). btaI2 gene positively...
Members of the uncultured bacterial genus Candidatus Accumulibacter are capable intracellular accumulation inorganic phosphate in activated sludge wastewater treatment plants (WWTPs) performing enhanced biological phosphorus removal, but were also recently shown to inhabit freshwater and estuarine sediments. Additionally, metagenomic sequencing two bioreactor cultures enriched Accumulibacter, housed on separate continents, revealed potential for global dispersal particular strains, which we...
The manipulation and engineering of microbiomes could lead to improved human health, environmental sustainability, agricultural productivity. However, have proven difficult alter in predictable ways, their emergent properties are poorly understood. history biology has demonstrated the power model systems understand complex problems such as gene expression or development. Therefore, a defined genetically tractable community would be useful dissect microbiome assembly, maintenance, processes....
When bacterial cells come in contact, antagonism mediated by the delivery of toxins frequently ensues. The potential for such encounters to have long-term beneficial consequences recipient has not been investigated. Here, we examined effects intoxication DddA, a cytosine deaminase delivered via type VI secretion system (T6SS) Burkholderia cenocepacia . Despite its killing potential, observed that several species resist DddA and instead accumulate mutations. These mutations can lead...