A5045554670- Genomics and Phylogenetic Studies
- Bacteriophages and microbial interactions
- Insect symbiosis and bacterial influences
- Microbial Community Ecology and Physiology
- Vibrio bacteria research studies
- Bacterial Identification and Susceptibility Testing
- Antibiotic Resistance in Bacteria
- Insect and Arachnid Ecology and Behavior
- Phytoplasmas and Hemiptera pathogens
- Evolution and Genetic Dynamics
- Aquaculture disease management and microbiota
- Plant Pathogenic Bacteria Studies
- Wastewater Treatment and Reuse
- Salmonella and Campylobacter epidemiology
- Avian ecology and behavior
- Bat Biology and Ecology Studies
- Plant Virus Research Studies
- Marine animal studies overview
- Bacterial biofilms and quorum sensing
- Gut microbiota and health
- Insect and Pesticide Research
- Bacillus and Francisella bacterial research
- Mollusks and Parasites Studies
- Escherichia coli research studies
- Architecture, Modernity, and Design
Providence College
2015-2024
U.S. National Poultry Research Center
2016
Duke University
2010-2015
United States Department of Agriculture
2014
University of Georgia
2006-2012
University of Cincinnati
2010
Wake Forest University
2009
University of Mary Washington
2004
Washington College
2004
The Comprehensive Antibiotic Resistance Database (CARD; http://arpcard.mcmaster.ca) is a manually curated resource containing high quality reference data on the molecular basis of antimicrobial resistance (AMR), with an emphasis genes, proteins and mutations involved in AMR. CARD ontologically structured, model centric, spans breadth AMR drug classes mechanisms, including intrinsic, mutation-driven acquired resistance. It built upon Ontology (ARO), custom built, interconnected hierarchical...
The ability of antimicrobial resistance (AR) to transfer between bacteria on mobile genetic elements (MGEs) can cause the rapid establishment multidrug (MDR) in from animals, leading a foodborne risk human health. To investigate MDR and its association with plasmids Salmonella enterica, whole genome sequence (WGS) analysis was performed 193 S. enterica isolated U.S. food animals 1998 2011, 119 which were resistant at least one antibiotic tested. Isolates represented 86 serovars variants, as...
Gene rearrangements such as chromosomal translocations have been shown to contribute cancer development. Human fragile sites are regions of the genome especially prone breakage, and implicated in various chromosome abnormalities found cancer. However, there has no comprehensive quantitative examination location relation all aberrations.Using up-to-date databases containing cancer-specific recurrent translocations, we examined 444 unique pairs genes involved these determine correlation...
Evolution equipped Bdellovibrio bacteriovorus predatory bacteria to invade other bacteria, digesting and replicating, sealed within them thus preventing nutrient-sharing with organisms in the surrounding environment. were previously described as "obligate predators" because only by mutations, often gene bd0108, are 1 ~1x10(7) of lab strains converted prey-independent growth. A previous genomic analysis B. strain HD100 suggested that consumption prey DNA lytic enzymes made less likely than...
Indel mutations play key roles in genome and protein evolution, yet we lack a comprehensive understanding of how indels impact evolutionary processes. Genome-wide analyses enabled by next-generation sequencing can clarify the context effect indels, thereby integrating more detailed consideration with our knowledge nucleotide substitutions. To this end, sequenced Blochmannia chromaiodes, an obligate bacterial endosymbiont carpenter ants, compared it close relative, B. pennsylvanicus. The...
Bdellovibrio bacteriovorus invade Gram-negative bacteria in a predatory process requiring Type IV pili (T4P) at single invasive pole, and also glide on surfaces to locate prey. Ras-like G-protein MglA, working with MglB RomR the deltaproteobacterium Myxococcus xanthus, regulates adventurous gliding T4P-mediated social motility both M. xanthus cell poles. Our bioinformatic analyses suggested that GTPase activating protein (GAP)-encoding gene mglB was lost Bdellovibrio, but critical residues...
Stable associations between bacterial endosymbionts and insect hosts provide opportunities to explore genome evolution in the context of established mutualisms assess roles selection genetic drift across host lineages habitats. Blochmannia, obligate ants tribe Camponotini, have coevolved with their ant for ∼40 MY. To investigate early events Blochmannia this tribe, we sequenced from two divergent lineages, Colobopsis obliquus Polyrhachis turneri, compared them four published genomes...
Blochmannia are obligately intracellular bacterial mutualists of ants the tribe Camponotini. perform key nutritional functions for host, including synthesis several essential amino acids. We used Illumina technology to sequence genome associated with Camponotus vafer. Although vafer retains many functions, it is missing glutamine synthetase (glnA), a component nitrogen recycling pathway encoded by previously sequenced B. floridanus and pennsylvanicus. With exception Ureaplasma, only...
ABSTRACT Sequencing of the large (>50 kb), low-copy-number (<5 per cell) plasmids that mediate horizontal gene transfer has been hindered by difficulty and expense isolating DNA from individual this class. We report here a kit method previously devised for purification bacterial artificial chromosomes (BACs) can be adapted effective preparation up to 220 kb wild gram-negative gram-positive bacteria. Individual plasmid recovered less than 10 ml Escherichia coli , Staphylococcus...
Defining phenotypic and associated genotypic variation among
Over the past few years, microbiome studies have broadened our understanding of interactions between microbial communities and their animal plant hosts. The sequencing technology underlying these is powerful sensitive. Based on detection contaminants in genomic DNA prep kits, it now strongly recommended to include negative kit controls alongside samples studies. Although importance undisputed, questions remain regarding how data should be used process interpret sample data. A conventional...
Experimental evolution provides a powerful tool for examining how Bdellovibrio evolves in response to unique selective pressures associated with its predatory lifestyle. We tested sp. NC01 adapts long-term coculture Pseudomonas NC02, which is less susceptible predation compared other Gram-negative bacteria. Analyzing six replicate populations across time points spanning 40 passages and 2,880 h of coculture, we detected 30 new mutations each population that exceeded frequency 5%....
Comparative genomics of predatory bacteria is important to understand their ecology and evolution explore potential treat drug-resistant infections. We compared chromosomes 18 obligate predators from phylum
Halobacteriovorax strains are saltwater-adapted predatory bacteria that attack Gram-negative and may play an important role in shaping microbial communities. To understand how impact ecosystems develop them as biocontrol agents, it is to characterize variation predation phenotypes investigate genome evolution. We isolated marinus BE01 from estuary Rhode Island using Vibrio the same site prey. Small, fast-moving, attack-phase cells attach invade prey cells, consistent with intraperiplasmic...
Shallow facultative rest-phase hypothermia has been reported in a number of passerine families, but few published data exist about its use by free- ranging birds. We used temperature-sensitive radio- transmitters to determine whether White-throated Sparrows (Zonotrichia albicollis) employ nocturnal during winter. measured skin temperatures 24 free-ranging sparrows between 13:00 and 14:00 02:00 03:00 for each three days nights per subject. The average nightly skin- temperature reduction...
ABSTRACT We report here the complete genome sequence of facultative predatory bacterium Ensifer adhaerens strain Casida A. The was assembled into three circular contigs, with a main chromosome as well two large secondary replicons, that totaled 7,267,502 bp 6,641 predicted open reading frames.
Abstract Background Halobacteriovorax are saltwater-adapted predatory bacteria that attack Gram-negative and therefore may play an important role in shaping microbial communities. To understand the impact of on ecosystems develop them as biocontrol agents, it is to characterize variation predation phenotypes such prey range investigate forces impacting genome evolution across different phylogenetic distances. Results We isolated H. marinus BE01 from estuary Rhode Island using Vibrio same...
We report here the complete genome sequence of Escherichia coli strain ML35. assembled PacBio reads into a single closed contig with 169× mean coverage and then polished this using Illumina MiSeq reads, yielding 4,918,774-bp 50.8% GC content.
We report here the complete genome sequence of
Abstract Shallow facultative rest-phase hypothermia has been reported in a number of passerine families, but few published data exist about its use by free- ranging birds. We used temperature-sensitive radio- transmitters to determine whether White-throated Sparrows (Zonotrichia albicollis) employ nocturnal during winter. measured skin temperatures 24 free-ranging sparrows between 13:00 and 14:00 02:00 03:00 for each three days nights per subject. The average nightly skin- temperature...
Lack of access to clean water and sanitation is a major factor impacting public health in communities worldwide. To address this, the S-Lab at Providence College Global Sustainable Aid Project developed microflush composting toilet system isolate treat human waste. Solid waste composted within filter-digester bed via an aerobic process involving microbes invertebrates. Liquid may be sanitized by solar disinfection (SODIS) or slow sand filtration (SSF). Here, we used 16S rRNA amplicon...
We report the complete genome sequence of predatory bacterium Bdellovibrio sp. strain KM01, isolated from soil collected near a pond. The is 3,961,288 bp long with 45.5% GC content. Comparative genomics among strains will help us understand how genotypic differences affect in phenotypes.