Comparative Genomics of the Campylobacter lari Group

Abstract

The Campylobacter lari group is a phylogenetic clade within the epsilon subdivision of the Proteobacteria and is part of the thermotolerant Campylobacter spp., a division within the genus that includes the human pathogen Campylobacter jejuni. The C. lari group is currently composed of five species (C. lari, Campylobacter insulaenigrae, Campylobacter volucris, Campylobacter subantarcticus, and Campylobacter peloridis), as well as a group of strains termed the urease-positive thermophilic Campylobacter (UPTC) and other C. lari-like strains. Here we present the complete genome sequences of 11 C. lari group strains, including the five C. lari group species, four UPTC strains, and a lari-like strain isolated in this study. The genome of C. lari subsp. lari strain RM2100 was described previously. Analysis of the C. lari group genomes indicates that this group is highly related at the genome level. Furthermore, these genomes are strongly syntenic with minor rearrangements occurring only in 4 of the 12 genomes studied. The C. lari group can be bifurcated, based on the flagella and flagellar modification genes. Genomic analysis of the UPTC strains indicated that these organisms are variable but highly similar, closely related to but distinct from C. lari. Additionally, the C. lari group contains multiple genes encoding hemagglutination domain proteins, which are either contingency genes or linked to conserved contingency genes. Many of the features identified in strain RM2100, such as major deficiencies in amino acid biosynthesis and energy metabolism, are conserved across all 12 genomes, suggesting that these common features may play a role in the association of the C. lari group with coastal environments and watersheds.

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“…Para aumentar la eficiencia en el aislamiento y la detección de Campylobacter en alimentos y/o muestras ambientales, las metodologías han empleado una variedad de medios de enriquecimiento adicionados con antibióticos para disminuir la flora microbiana presente en la muestra y promover el crecimiento y aislamiento de Campylobacter cuando están presentes en cantidades bajas (Man, 2011;Kaakoush et al, 2015). Tomando en cuenta la movilidad de las campilobacterias, los protocolos de filtración por membrana han demostrado ser eficientes en la recuperación de las campilobacterias provenientes de muestras clínicas, ambientales y de alimentos ( Lastovica & Le Roux, 2000;Quiñones et al, 2007;Speegle et al, 2009;Miller et al, 2014;Miller et al, 2017).…”

Genome Sequences of Eight Shiga Toxin-Producing Escherichia coli Strains Isolated from a Produce-Growing Region in California

“…Sequencing was performed using a Pacific Biosciences (PacBio, Menlo Park, CA) RS II platform with 20-kb SMRTbell libraries as described previously (17). Briefly, SMRTbell libraries were prepared from 10 μg of bacterial genomic DNA with G-tube (Covaris, Woburn, MA) fragmentation using the described PacBio procedure (18) but with 1× AMPure cleanup and DNA repair after 10-kb size selection using BluePippin.…”

Complete Genome Sequence of the Campylobacter cuniculorum Type Strain LMG 24588

“…Protein-, rRNA- and tRNA-coding genes were identified as described previously (4). The genome contains 1,786 putative protein-coding genes, 63 pseudogenes, and 2 sets of rRNA genes.…”