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ARS Home » Plains Area » Clay Center, Nebraska » U.S. Meat Animal Research Center » Genetics and Animal Breeding » Research » Publications at this Location » Publication #325060
Title: Identification of the pan and core genomes for Mannheimia haemolytica genotypes 1 and 2

Author
item Clawson, Michael - Mike
item Schuller, Genevieve - Gennie
item Dickey, Aaron
item Bono, James - Jim
item MURRAY, ROBERT - Zoetis
item SWEENEY, MICHAEL - Zoetis
item APLEY, MICHAEL - Kansas State University
item DEDONDER, KEITH - Kansas State University
item CAPIK, SARA - Kansas State University
item LARSON, ROBERT - Kansas State University
item LUBBERS, BRIAN - Kansas State University
item WHITE, BRADLEY - Kansas State University
item Harhay, Gregory
item Heaton, Michael - Mike
item Chitko-Mckown, Carol
item Harhay, Dayna
item Smith, Timothy - Tim

Submitted to: Meeting Abstract
Publication Type: Abstract Only
Publication Acceptance Date: 3/15/2016
Publication Date: 7/16/2016
Citation: Clawson, M.L., Schuller, G., Dickey, A.M., Bono, J.L., Murray, R.W., Sweeney, M.T., Apley, M.D., DeDonder, K.D., Capik, S.F., Larson, R.L., Lubbers, B.V., White, B.J., Harhay, G.P., Heaton, M.P., Chitko-McKown, C.G., Harhay, D.M., Smith, T.P. 2016. Identification of the pan and core genomes for Mannheimia haemolytica genotypes 1 and 2. American Society for Microbiology 2016 Meeting, July 16-20, 2016, Boston, MA. Poster No. Friday-060.

Interpretive Summary:

Technical Abstract: Mannheimia haemolytica normally populates the upper respiratory tract of cattle and is recognized as a major cause of bovine respiratory disease. Recently, two major genotypes (1 and 2) of M. haemolytica were identified from whole genome sequencing and analyses of 1,145 North American isolates. Only genotype 2 associated with bovine respiratory disease, although genotype 1 isolates were detected in diseased cattle. The genotypes were defined by the mapping of short sequence reads from each isolate to a reference genome followed by nucleotide polymorphism identification. Thus, closed circular genomes for these isolates were not assembled, and gene regions unique to the sequenced isolates in comparison to the reference genome were not identified. The goal of this study was to characterize the M. haemolytica pan genome, as well as the core genome for genotypes 1 and 2 using closed circular genomes. This could lead to the identification of effective intervention strategies for controlling genotype 2 M. haemolytica in cattle. Accordingly, we went back to the original collection of 1,145 isolates and identified sets of genotype 1 and 2 isolates that efficiently characterized genetic variation within and between the genotypes. The isolates from each set were all re-sequenced and assembled de novo into closed circular genomes. Analyses of these genomes revealed the pan genome of North American M. haemolytica as well as distinct core genomes for genotypes 1 and 2. These core genomes can be mined for proteins or other biological determinants that are specific to genotype 2, and suitable for potential intervention strategies like vaccine development.