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United States Department of Agriculture

Agricultural Research Service

Research Project: Molecular Biology of Human Pathogens Associated with Food

Location: Produce Safety and Microbiology Research

Title: The complete genome sequences of 65 Campylobacter jejuni and C. coli strains

Authors
item Parker, Craig
item Huynh, Steven
item Miller, William

Submitted to: Meeting Abstract
Publication Type: Abstract Only
Publication Acceptance Date: May 31, 2013
Publication Date: N/A

Technical Abstract: Campylobacter jejuni (Cj) and C. coli (Cc) are genetically highly diverse based on various molecular methods including MLST, microarray-based comparisons and the whole genome sequences of a few strains. Cj and Cc diversity is also exhibited by variable capsular polysaccharides (CPS) that are the major antigenic determinants of the classical Penner serotyping system. Here, we have determined the complete genome sequences of 45 Cj and 20 Cc strains representing 64 of 65 different Penner serotypes. The Cj and Cc strains were sequenced using 454 pyrosequencing technology and contigs assembled using Newbler Assembler software. Contigs were ordered using a contig extender Perl script, Mauve software and optical maps. Gaps were computationally closed using GapResolution and Geneious programs and/or were closed by Sanger sequencing. MiSeq Illumina sequences were used to correct base calls of the final assembly. The completed Cj and Cc genomes were annotated using the RAST website, and submitted to various programs for further genomic analysis. The complete genomes revealed some significant genomic rearrangements, especially among Cc strains. The completed genomes allow the identification for the genetic bases of CPS variation, particularly the identification of phosphoramidate modification genes outside of the capsular biosynthetic locus. Furthermore, whole genome sequencing provides an abundance of information for comparative genome analysis including evidence of recombination of sialic acid genes from Cj into Cc. Detailed data analysis of these genomes expands our knowledge of Cj and Cc gene content and global SNP diversity, and will provide DNA signatures for the development new typing assays.

Last Modified: 12/19/2014
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