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United States Department of Agriculture

Agricultural Research Service

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Research Project: Reference Data Resource Creation: Genomic and Phenotypic Characterization of Salmonella enterica Serotypes for Examining Salmonella Virulence

Location: Meat Safety & Quality Research

Project Number: 5438-42000-015-09
Project Type: Trust

Start Date: May 01, 2013
End Date: May 31, 2014

Objective:
To create a reference data resource for characterizing genomic and phenotypic differences between pathogenic and “commensal” serotypes of Salmonella enterica commonly associated with cattle.

Approach:
1) A reference collection of 48 Salmonella enterica strains of four serotypes, frequently associated with cattle, will be assembled for this study. 2) Genomic DNA will be sequenced from each of the 48 strains using the PacBio and Illumina MiSeq platforms. Genome sequence data will be assembled and annotated using the USMARC genome data analysis pipeline. 3) Metabolic and chemical sensitivity phenotypes will be characterized for each of the 48 strains using the BioLog Phenotype Microarray platform. 4) Biofilm formation, heat and sanitizer resistance phenotypes will also be generated for each of the strains in the reference collection. 5) The reference genome sequence data collected will be deposited into GenBank as well as integrated and curated in a dedicated database that will be web accessible to other research scientists, via the Intrepid Bioinformatics portal.

Last Modified: 7/28/2014
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