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United States Department of Agriculture

Agricultural Research Service

Research Project: Dna-Based Identification and Classification of Bacterial Pathogen Subtypes That Cause Respiratory Disease in Cattle

Location: Genetics, Breeding, & Animal Health

Project Number: 5438-32000-031-02
Project Type: Nonfunded Cooperative Agreement

Start Date: Nov 01, 2012
End Date: Oct 31, 2017

Objective:
To discover single nucleotide polymorphisms (SNPs) that identify and classify bacterial pathogen genetic subtypes into their clinically important and biologically relevant groups.

Approach:
The genomes of epidemiologically unlinked bacterial pathogen strains originating from either clinically ill or asymptomatic cattle will be sequenced and mapped to finished reference genomes. Thousands of SNP differences will likely be identified among these strains and used to produce a phylogenetic tree of pathogen genetic subtypes. The SNPs will be evaluated in silico for their utility in distinguishing and classifying all of the genetic subtypes discovered in this study. BioLog data will be used to characterize the subtypes and calibrate the tree. Clades of the tree that represent related subtypes will be tested for an association with pathogenicity.

Last Modified: 4/19/2014
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