Gen-FS coordinated proficiency test data for genomic foodborne pathogen surveillance, 2017 and 2018 exercises

Scientific Data
Ruth E TimmeEija Trees

Abstract

The US PulseNet and GenomeTrakr laboratory networks work together within the Genomics for Food Safety (Gen-FS) consortium to collect and analyze genomic data for foodborne pathogen surveillance (species include Salmonella enterica, Listeria monocytogenes, Escherichia coli (STECs), and Campylobactor). In 2017 these two laboratory networks started harmonizing their respective proficiency test exercises, agreeing on distributing a single strain-set and following the same standard operating procedure (SOP) for genomic data collection, running a jointly coordinated annual proficiency test exercise. In this data release we are publishing the reference genomes and raw data submissions for the 2017 and 2018 proficiency test exercises.

References

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Apr 19, 2015·BMC Infectious Diseases·Jacob Moran-GiladUNKNOWN Global Microbial Identifier initiative’s Working Group 4 (GMI-WG4)
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Citations

Sep 15, 2021·Foodborne Pathogens and Disease·Ashley SabolEija Trees

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Software Mentioned

BaseSpace
FS
HGAP
GenomeTrakr
PulseNet
Gen
Pathogen Detection
Bowtie2
SMRT Analysis
Gepard

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