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Genetic Variation Between Shiga-Toxigenic E. Coli (STEC) O157 Strains of Human Clinical and Beef Origin

Investigators
Wheeler, Tommy Lee
Institutions
USDA - Agricultural Research Service
Start date
2007
End date
2008
Objective
  1. To assemble a diverse panel of 10 to 20 STEC O157 isolates from beef and beef cattle environments.
  2. To utilize Comparative Genome Sequencing (CGS) to survey the entire microbial genome of each of 10 STEC beef diversity panel strains and then identify DNA polymorphisms in each strain.
  3. To combine and integrate the new DNA polymorphism data generated from the bovine diversity panel with the existing corresponding data from human STEC O157 isolates to develop a first generation human-animal DNA polymorphism-based STEC O157 typing system.
More information
Approach: We will (a) define optimal selection criteria for and then (b) assemble a panel of at least 10 diverse STEC O157 animal and environmental origin isolates. Purified DNA from these judicially selected isolates will then be provided to NimbleGen to identify and characterize SNPs and indels in the beef isolate panel. Following NimbleGen sequencing, the SNP data will be subjected to bioinformatics data reduction and analysis to identify informative DNA polymorphisms.
Funding Source
Agricultural Research Service
Project number
5438-32000-028-03T
Accession number
411951
Categories
Escherichia coli