A5089457685- Salmonella and Campylobacter epidemiology
- Escherichia coli research studies
- Vibrio bacteria research studies
- Bacteriophages and microbial interactions
- Viral gastroenteritis research and epidemiology
- Aquaculture disease management and microbiota
- Genomics and Phylogenetic Studies
- Listeria monocytogenes in Food Safety
- Antibiotic Resistance in Bacteria
- Enterobacteriaceae and Cronobacter Research
- Molecular Biology Techniques and Applications
- Probiotics and Fermented Foods
- Identification and Quantification in Food
- Streptococcal Infections and Treatments
- Botulinum Toxin and Related Neurological Disorders
- Microbial Community Ecology and Physiology
- Gene expression and cancer classification
- Bacterial Identification and Susceptibility Testing
- Plant Pathogenic Bacteria Studies
- Fecal contamination and water quality
- Mosquito-borne diseases and control
- Microbial infections and disease research
- Clostridium difficile and Clostridium perfringens research
- Diphtheria, Corynebacterium, and Tetanus
- Food Safety and Hygiene
United States Food and Drug Administration
2016-2025
Center for Food Safety and Applied Nutrition
2015-2024
Food and Drug Administration
2017-2024
National Center for Biotechnology Information
2023
National Institutes of Health
2023
Office of Science
2021
Centre for Innovation in Regulatory Science
2020
Universidade de Santiago de Compostela
2009-2018
NOAA Atlantic Oceanographic and Meteorological Laboratories
2018
National Oceanic and Atmospheric Administration
2018
Abstract Antimicrobial resistance (AMR) is a significant public health threat. With the rise of affordable whole genome sequencing, in silico approaches to assessing AMR gene content can be used detect known mechanisms and potentially identify novel mechanisms. To enable accurate assessment content, as part multi-agency collaboration, NCBI developed comprehensive database, Bacterial Resistance Reference Gene Database detection tool AMRFinder. Here, we describe expansion Database, now called...
ABSTRACT Vibrio parahaemolyticus is an important human pathogen whose transmission associated with the consumption of contaminated seafood. There a growing public health concern due to emergence pandemic strain causing severe outbreaks worldwide. Many questions remain unanswered regarding evolution and population structure V. . In this work, we describe multilocus sequence typing (MLST) scheme for based on internal fragment sequences seven housekeeping genes. This MLST was applied 100...
Abstract Analysis of clinical isolates Vibrio parahaemolyticus from outbreaks in Chile the cities Puerto Montt 2004 and Antofagasta 1998 indicated that 23 24 19 20 belonged to pandemic clonal complex emerged Southeast Asia 1996.
Background. Using a novel combination of whole-genome sequencing (WGS) analysis and geographic metadata, we traced the origins Salmonella Bareilly isolates collected in 2012 during widespread food-borne outbreak United States associated with scraped tuna imported from India. Methods. next-generation sequencing, sequenced complete genome 100 obtained patients who consumed contaminated product, natural sources, unrelated historically geographically disparate foods. Pathogen genomes were linked...
Many listeriosis outbreaks are caused by a few globally distributed clonal groups, designated complexes or epidemic clones, of Listeria monocytogenes, several which have been defined classic multilocus sequence typing (MLST) schemes targeting 6 to 8 housekeeping virulence genes. We developed and evaluated core genome MLST (cgMLST) applied them isolates from multiple including those associated with 39 outbreaks. The cgMLST clusters were congruent MLST-defined had various degrees diversity at...
Vibrio parahaemolyticus is a common marine bacterium and leading cause of seafood-borne bacterial gastroenteritis worldwide. Although this has been the subject much research, population structure cold-water populations remains largely undescribed. We present broad phylogenetic analysis clinical environmental V. originating from Pacific Northwest coast United States. Repetitive extragenic palindromic PCR (REP-PCR) separated 167 isolates into 39 groups subsequent multilocus sequence typing...
Journal Article A versatile internal control for use as DNA in real‐time PCR and RNA reverse transcription assays Get access D.M. Deer, Deer Center Food Safety Applied Nutrition, Drug Administration, College Park, MD, USA Search other works by this author on: Oxford Academic Google Scholar K.A. Lampel, Lampel N. González‐Escalona Narjol González‐Escalona, FDA CFSAN, 5100 Paint Branch Parkway, MD 20740, USA. E‐mail: narjol.gonzalez‐escalona@fda.hhs.gov Letters Microbiology, Volume 50, Issue...
Salmonella enterica contamination in foods is a significant concern for public health. When DNA detection methods are used analysis of foods, one the major concerns false-positive results from dead cells. To circumvent this crucial issue, TaqMan quantitative real-time RT-PCR (qRT-PCR) assay with an RNA internal control was developed. invA standards were to determine limit as well mRNA levels mid-exponential-, late-exponential-, and stationary-phase This has 40 copies per reaction. The S....
Contamination of foods, especially produce, with Salmonella spp. is a major concern for public health. Several methods are available the detection in but their relative efficiency detecting commonly consumed vegetables, often associated outbreaks food poisoning, needs to be confirmed. In this study, effectiveness three molecular six produce matrices was evaluated and compared FDA microbiological method. Samples cilantro (coriander leaves), lettuce, parsley, spinach, tomato, jalapeno pepper...
Whole genome sequencing can provide essential public health information. However, it is now known that widely used short-read methods have the potential to miss some randomly-distributed segments of genomes. This prevent phages, plasmids, and virulence factors from being detected or properly identified. Here, we compared assemblies three complete Shiga toxin-producing Escherichia coli (STEC) O26:H11/H- genomes two different sequence types (ST21 29), each acquired using Nextera XT MiSeq,...
Colistin has become the last-line antimicrobial for treatment of multidrug resistant (MDR) enterobacterales in human medicine. Several colistin resistance genes have been detected, with mcr-1 distributed worldwide. The aim this study was to characterize mcr-mediated plasmids from E. coli animal origin Spain. From our strain collection, 70 pig collected between 2005 and 2014 were randomly selected screened presence mcr-genes. Additionally, 20 isolated 2011 white storks same urban household...
is the leading cause of seafood-related infections with illnesses undergoing a geographic expansion. In this process expansion, most fundamental change has been transition from caused by local strains to surge pandemic clonal types. Pandemic clone sequence type 3 (ST3) was only example transcontinental spreading until 2012, when ST36 detected outside region where it endemic in U.S. Pacific Northwest causing along northeast coast and Spain. Here, we used genome-wide analyses reconstruct...
Salmonella enterica subsp. serotype Enteritidis is a major cause of human salmonellosis worldwide; however, little known about the genetic relationships between S clinical strains and from other sources in Chile. We compared whole genomes 30 isolated gulls, domestic chicken eggs, humans Chile, to investigate their phylogenetic establish relatedness international strains. Core genome multilocus sequence typing (cgMLST) analysis showed that only 246/4,065 shared loci differed among these...
Shiga toxin-producing Escherichia coli (STEC) contamination of agricultural water might be an important factor to recent foodborne illness and outbreaks involving leafy greens. Closed bacterial genomes from whole genome sequencing play role in source tracking. We aimed determine the limits detection classification STECs by qPCR nanopore using 24 hour enriched irrigation artificially contaminated with E . O157:H7 (EDL933). determined limit STEC 30 CFU/reaction, which is equivalent 10 5 CFU/ml...
Campylobacter is the leading cause of human bacterial gastroenteritis worldwide and has a major impact on global public health. Whole Genome Sequencing (WGS) powerful tool applied in study foodborne pathogens. The objective present was to apply WGS determine genetic diversity, virulence factors determinants antimicrobial resistance populations C. jejuni coli Peru. A total 129 strains (108 21 coli) were sequenced using Illumina Miseq platform. In silico MLST analysis identified high diversity...
We performed a comparative analysis of the Vibrio cholerae strain El Tor 3083 entering viable but non-culturable (VBNC) state and starvation after incubation in artificial seawater (ASW) at 4 15 degrees C respectively. To this end, we determined bacterial culturability membrane integrity, as well cellular levels 16S rRNA mRNA for tuf, rpoS relA genes, which were assessed by real-time quantitative reverse transcription polymerase chain reaction (Q-RT-PCR). Bacterial cells VBNC showed 154, 5.1...
ABSTRACT A Vibrio strain isolated from Alaskan oysters and classified by its biochemical characteristics as alginolyticus possessed a thermostable direct hemolysin-related hemolysin ( trh ) gene previously reported only in parahaemolyticus . This -like was cloned sequenced 98% identical to the trh2 of V. seems be functional since it transcriptionally active early-stationary-phase growing cells. To our knowledge, this is first report possessing gene.
Abstract Disease outbreaks caused by Vibrio parahaemolyticus in Puerto Montt, Chile, began 2004 and reached a peak 2005 at 3,600 clinical cases. Until 2006, every analyzed case was the serovar O3:K6 pandemic strain. In summer of 2007, only 475 cases were reported; 73% corresponded to This decrease associated with change serotype many isolates O3:K59 emergence new strains. One these strains, 11% cases, genotypically different from strain but contained genes that identical those found on its...
ABSTRACT Vibrio parahaemolyticus is an important human foodborne pathogen whose transmission associated with the consumption of contaminated seafood, a growing number infections reported over recent years worldwide. A multilocus sequence typing (MLST) database for V. was created in 2008, and large clones have been identified, causing severe outbreaks worldwide (sequence type 3 [ST3]), recurrent certain regions (e.g., ST36), or spreading to other where they are nonendemic ST88 ST189). The...
Illnesses caused by Shiga toxin-producing Escherichia coli (STECs) can be life threatening, such as hemolytic uremic syndrome (HUS). The STECs most frequently identified USDA’s Microbiological Data Program (MDP) carried toxin gene subtypes stx1a and/or stx2a. Here we described the genome sequences of 331 isolated from foods regulated FDA 2010–2017, and determined their genomic identity, serotype, sequence type, virulence potential, prevalence antimicrobial resistance. Isolates were selected...
Abstract We report transcontinental expansion of Vibrio parahaemolyticus sequence type 36 into Lima, Peru. From national collections, we identified 7 isolates from 2 different Pacific Northwest complex lineages that surfaced during 2011–2016. Sequence is likely established in environmental reservoirs. Systematic surveillance enabled detection these epidemic isolates.