[HTML][HTML] AMRFinderPlus and the Reference Gene Catalog facilitate examination of the genomic links among antimicrobial resistance, stress response, and virulence
…, J Haendiges, DH Haft, M Hoffmann, JB Pettengill… - Scientific reports, 2021 - nature.com
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 …
whole genome sequencing, in silico approaches to assessing AMR gene content can be …
[HTML][HTML] Baseline survey of the anatomical microbial ecology of an important food plant: Solanum lycopersicum (tomato)
Background Research to understand and control microbiological risks associated with the
consumption of fresh fruits and vegetables has examined many environments in the farm to …
consumption of fresh fruits and vegetables has examined many environments in the farm to …
[HTML][HTML] CFSAN SNP Pipeline: an automated method for constructing SNP matrices from next-generation sequence data
S Davis, JB Pettengill, Y Luo, J Payne… - PeerJ Computer …, 2015 - peerj.com
The analysis of next-generation sequence (NGS) data is often a fragmented step-wise process.
For example, multiple pieces of software are typically needed to map NGS reads, extract …
For example, multiple pieces of software are typically needed to map NGS reads, extract …
[HTML][HTML] Interpreting whole-genome sequence analyses of foodborne bacteria for regulatory applications and outbreak investigations
AW Pightling, JB Pettengill, Y Luo, JD Baugher… - Frontiers in …, 2018 - frontiersin.org
Whole-genome sequence (WGS) analysis has revolutionized the food safety industry by
enabling high-resolution typing of foodborne bacteria. Higher resolving power allows …
enabling high-resolution typing of foodborne bacteria. Higher resolving power allows …
[HTML][HTML] On the Evolutionary History, Population Genetics and Diversity among Isolates of Salmonella Enteritidis PFGE Pattern JEGX01.0004
Facile laboratory tools are needed to augment identification in contamination events to trace
the contamination back to the source (traceback) of Salmonella enterica subsp. enterica …
the contamination back to the source (traceback) of Salmonella enterica subsp. enterica …
Phylogenetic Diversity of the Enteric Pathogen Salmonella enterica subsp. enterica Inferred from Genome-Wide Reference-Free SNP Characters
The enteric pathogen Salmonella enterica is one of the leading causes of foodborne illness
in the world. The species is extremely diverse, containing more than 2,500 named serovars …
in the world. The species is extremely diverse, containing more than 2,500 named serovars …
Comparative Genomic Analysis and Virulence Differences in Closely Related Salmonella enterica Serotype Heidelberg Isolates from Humans, Retail Meats, and …
M Hoffmann, S Zhao, J Pettengill, Y Luo… - Genome biology and …, 2014 - academic.oup.com
Salmonella enterica subsp. enterica serovar Heidelberg (S. Heidelberg) is one of the top
serovars causing human salmonellosis. Recently, an antibiotic-resistant strain of this serovar …
serovars causing human salmonellosis. Recently, an antibiotic-resistant strain of this serovar …
Characterization and evolution of Salmonella CRISPR-Cas systems
Prokaryotic CRISPR-Cas (clustered regularly interspaced short palindromic repeats and
CRISPR-associated genes) systems provide adaptive immunity from invasive genetic elements …
CRISPR-associated genes) systems provide adaptive immunity from invasive genetic elements …
[HTML][HTML] Phylogenetic analyses of Shigella and enteroinvasive Escherichia coli for the identification of molecular epidemiological markers: whole-genome comparative …
EA Pettengill, JB Pettengill, R Binet - Frontiers in microbiology, 2016 - frontiersin.org
As a leading cause of bacterial dysentery, Shigella represents a significant threat to public
health and food safety. Related, but often overlooked, enteroinvasive Escherichia coli (EIEC) …
health and food safety. Related, but often overlooked, enteroinvasive Escherichia coli (EIEC) …
[HTML][HTML] Cilantro microbiome before and after nonselective pre-enrichment for Salmonella using 16S rRNA and metagenomic sequencing
…, L Ewing, AR Ottesen, JJG Beaubrun, JB Pettengill… - BMC microbiology, 2015 - Springer
Background Salmonella enterica is a common cause of foodborne gastroenteritis in the
United States and is associated with outbreaks in fresh produce such as cilantro. Salmonella …
United States and is associated with outbreaks in fresh produce such as cilantro. Salmonella …