Whole-Genome Sequence Datasets: A Powerful Resource for the Food Microbiology Laboratory Toolbox

Whole-genome sequencing (WGS) technologies are rapidly being adopted for routine use in food microbiology laboratories worldwide. Examples of how WGS is used to support food safety testing include gene marker discovery (e.g., virulence and anti-microbial resistance gene determination) and high-resol...

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Autores principales:	Catherine D. Carrillo, Burton W. Blais
Formato:	article
Lenguaje:	EN
Publicado:	Frontiers Media S.A. 2021
Materias:	whole-genome sequencing (WGS) Salmonella validation benchmark datasets Listeria (L.) monocytogenes food pathogen testing Nutrition. Foods and food supply TX341-641 Food processing and manufacture TP368-456
Acceso en línea:	https://doaj.org/article/3d67e0396e144159b63192ce36ef7bb8
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spelling	oai:doaj.org-article:3d67e0396e144159b63192ce36ef7bb82021-12-01T07:52:28ZWhole-Genome Sequence Datasets: A Powerful Resource for the Food Microbiology Laboratory Toolbox2571-581X10.3389/fsufs.2021.754988https://doaj.org/article/3d67e0396e144159b63192ce36ef7bb82021-11-01T00:00:00Zhttps://www.frontiersin.org/articles/10.3389/fsufs.2021.754988/fullhttps://doaj.org/toc/2571-581XWhole-genome sequencing (WGS) technologies are rapidly being adopted for routine use in food microbiology laboratories worldwide. Examples of how WGS is used to support food safety testing include gene marker discovery (e.g., virulence and anti-microbial resistance gene determination) and high-resolution typing (e.g., cg/wgMLST analysis). This has led to the establishment of large WGS databases representing the genomes of thousands of different types of food pathogenic and commensal bacteria. This information constitutes an invaluable resource that can be leveraged to develop and validate routine test methods used to support regulatory and industry food safety objectives. For example, well-curated raw and assembled genomic datasets of the key food pathogens (Salmonella enterica, Listeria monocytogenes, and Shiga-toxigenic Escherichia coli) have been used in our laboratory in studies to validate bioinformatics pipelines, as well as new molecular methods as a prelude to the laboratory phase of the “wet lab” validation process. The application of genomic information to food microbiology method development will decrease the cost of test development and lead to the generation of more robust methodologies supporting risk assessment and risk management actions.Catherine D. CarrilloBurton W. BlaisFrontiers Media S.A.articlewhole-genome sequencing (WGS)Salmonellavalidationbenchmark datasetsListeria (L.) monocytogenesfood pathogen testingNutrition. Foods and food supplyTX341-641Food processing and manufactureTP368-456ENFrontiers in Sustainable Food Systems, Vol 5 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	whole-genome sequencing (WGS) Salmonella validation benchmark datasets Listeria (L.) monocytogenes food pathogen testing Nutrition. Foods and food supply TX341-641 Food processing and manufacture TP368-456
spellingShingle	whole-genome sequencing (WGS) Salmonella validation benchmark datasets Listeria (L.) monocytogenes food pathogen testing Nutrition. Foods and food supply TX341-641 Food processing and manufacture TP368-456 Catherine D. Carrillo Burton W. Blais Whole-Genome Sequence Datasets: A Powerful Resource for the Food Microbiology Laboratory Toolbox
description	Whole-genome sequencing (WGS) technologies are rapidly being adopted for routine use in food microbiology laboratories worldwide. Examples of how WGS is used to support food safety testing include gene marker discovery (e.g., virulence and anti-microbial resistance gene determination) and high-resolution typing (e.g., cg/wgMLST analysis). This has led to the establishment of large WGS databases representing the genomes of thousands of different types of food pathogenic and commensal bacteria. This information constitutes an invaluable resource that can be leveraged to develop and validate routine test methods used to support regulatory and industry food safety objectives. For example, well-curated raw and assembled genomic datasets of the key food pathogens (Salmonella enterica, Listeria monocytogenes, and Shiga-toxigenic Escherichia coli) have been used in our laboratory in studies to validate bioinformatics pipelines, as well as new molecular methods as a prelude to the laboratory phase of the “wet lab” validation process. The application of genomic information to food microbiology method development will decrease the cost of test development and lead to the generation of more robust methodologies supporting risk assessment and risk management actions.
format	article
author	Catherine D. Carrillo Burton W. Blais
author_facet	Catherine D. Carrillo Burton W. Blais
author_sort	Catherine D. Carrillo
title	Whole-Genome Sequence Datasets: A Powerful Resource for the Food Microbiology Laboratory Toolbox
title_short	Whole-Genome Sequence Datasets: A Powerful Resource for the Food Microbiology Laboratory Toolbox
title_full	Whole-Genome Sequence Datasets: A Powerful Resource for the Food Microbiology Laboratory Toolbox
title_fullStr	Whole-Genome Sequence Datasets: A Powerful Resource for the Food Microbiology Laboratory Toolbox
title_full_unstemmed	Whole-Genome Sequence Datasets: A Powerful Resource for the Food Microbiology Laboratory Toolbox
title_sort	whole-genome sequence datasets: a powerful resource for the food microbiology laboratory toolbox
publisher	Frontiers Media S.A.
publishDate	2021
url	https://doaj.org/article/3d67e0396e144159b63192ce36ef7bb8
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Whole-Genome Sequence Datasets: A Powerful Resource for the Food Microbiology Laboratory Toolbox

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