Salmonella enterica Virulence Databases and Bioinformatic Analysis Tools Development-Reference-Cited by-同舟云学术

Salmonella enterica Virulence Databases and Bioinformatic Analysis Tools Development

Published:2024-08-20 Issue: Volume: Page:
ISSN:
Container-title:
language:
Short-container-title:

Author:

Han Jing¹,Tang Hailin¹,Zhao Shaohua²,Foley Steven L.¹

Affiliation:

1. National Center for Toxicological Research, Food and Drug Administration

2. Center for veterinary Medicine, Food and Drug Administration, United States

Abstract

Salmonella enterica, a prominent foodborne pathogen, contributes significantly to global foodborne illnesses annually. This species exhibits significant genetic diversity, potentially impacting its infectivity, disease severity, and antimicrobial resistance. Whole genome sequencing (WGS) offers comprehensive genetic insights that can be utilized for virulence assessment. However, existing bioinformatic tools for studying Salmonella virulence have notable limitations. To address this gap, a Salmonella Virulence Database with a non-redundant, comprehensive list of putative virulence factors was constructed. Two bioinformatic analysis tools, Virulence Factor Profile Assessment and Virulence Factor Profile Comparison tools, were developed. The former provides data on similarity to the reference genes, e-value, and bite score, while the latter assesses the presence/absence of virulence genes in Salmonella isolates and facilitates comparison of virulence profiles across multiple sequences. To validate the database and associated bioinformatic tools, WGS data from 43,853 Salmonella isolates spanning 14 serovars was extracted from GenBank, and WGS data previously generated in our lab was used. Overall, the Salmonella Virulence database and our bioinformatic tools effectively facilitated virulence assessment, enhancing our understanding of virulence profiles among Salmonella isolates and serovars. The public availability of these resources will empower researchers to assess Salmonella virulence comprehensively, which could inform strategies for pathogen control and risk evaluations associated with human illnesses.

Publisher

Springer Science and Business Media LLC

Reference34 articles.

1. Centers for Disease Control and Prevention (CDC), Antibiotic Resistance Threats in the United States, 2019. 2019.

2. Interagency Food Safety Analytics Collaboration (IFSAC), Foodborne illness source attribution estimates for 2017 for Salmonella, Escherichia coli O157,Listeria monocytogenes, and Campylobacter using multi-year outbreak surveillance data,United States. 2019.

3. Centers for Disease Control and Prevention (CDC), National Salmonella Surveillance Annual Report, 2016. 2018.

4. Food animal-associated Salmonella challenges: pathogenicity and antimicrobial resistance;Foley SL;J Anim Sci,2008

5. Pathogenomics of the virulence plasmids of Escherichia coli;Johnson TJ;Microbiol Mol Biol Rev,2009