A5046505647- Enterobacteriaceae and Cronobacter Research
- Escherichia coli research studies
- Bacteriophages and microbial interactions
- Salmonella and Campylobacter epidemiology
- Viral gastroenteritis research and epidemiology
- Genomics and Phylogenetic Studies
- Probiotics and Fermented Foods
- Parasitic Infections and Diagnostics
- Listeria monocytogenes in Food Safety
- RNA and protein synthesis mechanisms
- Plant Pathogenic Bacteria Studies
- Clostridium difficile and Clostridium perfringens research
- Bacterial Genetics and Biotechnology
- Bacterial biofilms and quorum sensing
- Gut microbiota and health
- Molecular Biology Techniques and Applications
- Food Safety and Hygiene
- Identification and Quantification in Food
- Milk Quality and Mastitis in Dairy Cows
- Antibiotic Resistance in Bacteria
- Animal Disease Management and Epidemiology
- Bacillus and Francisella bacterial research
- Microbial Community Ecology and Physiology
- Genetics, Aging, and Longevity in Model Organisms
- Genetic diversity and population structure
United States Food and Drug Administration
2015-2024
Center for Food Safety and Applied Nutrition
2015-2024
McMaster University
2024
Sardar Patel University
2024
The Charutar Vidya Mandal (CVM) University
2023
Marshall University
2020
University of Maryland, College Park
2003-2016
Virginia–Maryland College of Veterinary Medicine
2003-2016
Applied Research (United States)
2009
Johns Hopkins University
2009
Abstract Several studies have documented the significant impact of methodological choices in microbiome analyses. The myriad options available complicate replication results and generally limit comparability findings between independent that use differing techniques measurement pipelines. Here we describe Mosaic Standards Challenge (MSC), an international interlaboratory study designed to assess variables on results. MSC did not prescribe methods but rather asked participating labs analyze 7...
Similar to ruminants, swine have been shown be a reservoir for Shiga toxin-producing Escherichia coli (STEC), and pork products linked with outbreaks associated STEC O157 O111:H-. strains, isolated in previous study from fecal samples of late-finisher pigs, belonged total 56 serotypes, including O15:H27, O91:H14, other serogroups previously human illness. The isolates were tested by PCR high-throughput real-time system determine the toxin subtype virulence-associated putative genes they...
Enterococcus faecium is one of the more commonly used bacterial species as a probiotic in animals. The organism, common inhabitant gut animals and humans, major nosocomial pathogen responsible for variety infections humans sporadic In swine cattle, E. faecium-based products are growth promotion functional health benefits. objective this study was to utilize whole genome sequence-based analysis assess virulence potential, detect antimicrobial resistance genes, analyze phylogenetic...
Advances in microbial genomics and bioinformatics are offering greater insights into the emergence spread of foodborne pathogens outbreak scenarios. The Food Drug Administration (FDA) has developed a tool, ArrayTrackTM, which provides extensive functionalities to manage, analyze, interpret genomic data for mammalian species. ArrayTrackTM been widely adopted by research community used pharmacogenomics review FDA's Voluntary Genomics Data Submission program. extended manage analyze from...
Vibrio cholerae cytolysin (VCC) is among the accessory V. virulence factors that may contribute to disease pathogenesis in humans. VCC, encoded by hlyA gene, belongs most common class of bacterial toxins, known as pore-forming toxins (PFTs). infects and kills Caenorhabditis elegans via toxin independent manner. VCC required for lethality, growth retardation intestinal cell vacuolation during infection. However, little about host gene expression responses against VCC. To address this question...
The gene content of a diverse group 183 unique Escherichia coli and Shigella isolates was determined using the Affymetrix GeneChip®E. Genome 2.0 Array, originally designed for transcriptome analysis, as genotyping tool. probe set design utilized by this array provided opportunity to determine each strain very accurately reliably. This constitutes 10,112 independent genes representing four individual E. genomes, therefore providing ability survey several different pathogen types. entire ECOR...
Arsenic, a known human carcinogen, is widely distributed around the world and found in particularly high concentrations certain regions including Southwestern US, Eastern Europe, India, China, Taiwan Mexico. Chronic arsenic poisoning affects millions of people worldwide associated with increased risk many diseases arthrosclerosis, diabetes cancer. In this study, we explored genome level global responses to low levels exposure Caenorhabditis elegans using Affymetrix expression microarrays....
Little is known about secretion of outer membrane vesicles (OMVs) by Cronobacter. In this study, OMVs isolated from Cronobacter sakazakii, turicensis and malonaticus were examined electron microscopy (EM) their associated proteins (OMP) genes analyzed SDS-PAGE, protein sequencing, BLAST, PCR, DNA microarray. EM stained cells revealed that the are secreted as pleomorphic micro-vesicles which cascade cell's surface. SDS-PAGE analysis identified bands with molecular weights 18 kDa to >100 had...
Cronobacter (C.) sakazakii is an opportunistic pathogen and has been associated with serious infections high mortality rates predominantly in pre-term, low-birth weight and/or immune compromised neonates infants. Infections have epidemiologically linked to consumption of intrinsically- extrinsically-contaminated lots reconstituted powdered infant formula (PIF), thus contamination such products a challenging task for the PIF producing industry. We present draft genome C. H322, highly...
Most Escherichia coli strains are nonpathogenic. However, for clinical diagnosis and food safety analysis, current identification methods pathogenic E. either time-consuming and/or provide limited information. Here, we utilized a custom DNA microarray with informative genetic features extracted from 368 sequence sets rapid high-throughput pathogen identification. The FDA Identification (FDA-ECID) platform contains three of molecularly that together stratify strain relatedness. First, 53...
The quorum sensing molecule Autoinducer-2 (AI-2) is generated as a byproduct of activated methyl cycle by the action LuxS in Escherichia coli. AI-2 synthesized, released and later internalized cell-density dependent manner. Here, mutational analysis genes, uvrY csrA, we describe regulatory circuit accumulation uptake AI-2. We constructed single-copy chromosomal luxS-lacZ fusion luxS + merodiploid strain evaluated its relative expression csrA mutants. At entry stationary phase, was positively...
Cronobacter species are opportunistic pathogens capable of causing life-threatening infections in humans, with serious complications arising neonates, infants, immuno-compromised individuals, and elderly adults. The genus is comprised seven species: sakazakii, malonaticus, turicensis, muytjensii, dublinensis, universalis, condimenti. Despite a multiplicity genomic data for the genus, little known about likely transmission vectors. Using DNA microarray analysis, parallel whole genome...
An oligonucleotide array (microarray) incorporating 13,000 elements representing selected strains of hepatitis A virus (HAV), human coxsackieviruses and B (CVA CVB), genogroups I II Norovirus (NV), rotavirus (RV) gene segments 3,4,10, 11 was designed based on the principle tiling. Each 29 bases long, starting at every 5th base sequence, resulting in an overlap 24 two consecutive oligonucleotides. The applicability for identification examined using PCR amplified products from multiple HAV CV...
β-methylthiolation is a novel post-translational modification mapping to universally conserved Asp 88 of the bacterial ribosomal protein S12. This S12 specific has been identified on orthologs from multiple species. The origin and functional significance was investigated with both proteomic strategy identify candidate interactors expression microarrays search for phenotypes that result targeted gene knockouts select candidates. Utilizing an endogenous recombinant E. coli affinity tag as...
Cronobacter species cause infections in all age groups; however neonates are at highest risk and remain the most susceptible group for life-threatening invasive disease. The genus contains seven species: C. sakazakii, malonaticus, turicensis muytjensii, dublinensis, universalis, condimenti. Despite an abundance of published genomes these species, genomics-based epidemiology is not well established. gene content a diverse 126 unique taxonomically-related isolates was determined using pan...
Here, we report the genomes of all 72 isolates belonging to Escherichia coli reference (ECOR) collection. Strains in this collection were isolated from diverse hosts and geographic locations have been used for more than 30 years represent phylogenetic diversity E. coli.
Bacteria belonging to the genus Cronobacter have been recognized as causative agents of life-threatening systemic infections primarily in premature, low-birth weight and immune-compromised neonates. Apparently not all species are linked infantile it has proposed that virulence varies among strains. Whole genome comparisons silico analysis proven be powerful tools elucidating potential determinants, presence/absence which may explain differential behaviour However, validation these factors...
Two technologies, involving DNA microarray and optical mapping, were used to quickly assess gene content genomic architecture of recent emergent Escherichia coli O104:H4 related strains. In real-time outbreak investigations, these technologies can provide congruent perspectives on strain, serotype, pathotype relationships. Our data demonstrated clear discrimination between clinically, temporally, geographically distinct isolates rapid characterization strain differences.
Cronobacter sakazakii is a Gram-negative opportunistic pathogen that causes life- threatening infantile infections, such as meningitis, septicemia, and necrotizing enterocolitis, well pneumonia, urinary tract wound infections in adults. Here, we report 26 draft genome sequences of C. sakazakii, which were obtained from dried spices the USA, Middle East, China, Republic Korea. The average size genomes was 4393 kb, with an 4055 protein coding genes, G + C content 56.9%. contained genes related...
We report here the genome sequences of 55 strains belonging to genus Escherichia from multiple animal and environmental sources. These include representatives albertii, fergusonii, six additional genetically distinct lineages spp., one which is newly discovered being reported for first time here.
In the United States, Salmonella enterica ser. Enteritidis (SE) is among leading bacterial cause of foodborne illness via consumption raw or undercooked eggs. The top serovars implicated in U.S. outbreaks associated with chicken include SE, Typhimurium (ST), Heidelberg (SH), Montevideo, Mbandka, Braenderup, and Newport. While enforcement actions target eradication SE from layer hens, there a growing concern that other could occupy this niche be egg-transmitted human salmonellosis. Therefore,...
Abstract Background Several studies have documented the significant impact of methodological choices in microbiome analyses. The myriad options available complicate replication results and generally limit comparability findings between independent that use differing techniques measurement pipelines. Here we describe Mosaic Standards Challenge (MSC), an international interlaboratory study designed to assess variables on results. MSC did not prescribe methods but rather asked participating...