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Comparative genomics of the Campylobacter lari group

William G Miller, Emma Yee, Mary H Chapman, Timothy PL Smith, James L Bono, Steven Huynh, Craig T Parker, Peter Vandamme UGent, Khai Luong and Jonas Korlach (2014) GENOME BIOLOGY AND EVOLUTION. 6(12). p.3252-3266
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.
Please use this url to cite or link to this publication:
author
organization
year
type
journalArticle (original)
publication status
published
subject
keyword
hemagglutination, flagella, methylome, UPTC, POSITIVE THERMOPHILIC CAMPYLOBACTER, ELECTROPHORETIC PROTEIN-PATTERNS, SINGLE-MOLECULE, SP-NOV., NUMERICAL-ANALYSIS, JEJUNI FLAGELLIN, SUBSP NOV, RNA GENES, DIVERSITY, LOCI
journal title
GENOME BIOLOGY AND EVOLUTION
Genome Biol. Evol.
volume
6
issue
12
pages
3252 - 3266
Web of Science type
Article
Web of Science id
000347000800010
JCR category
EVOLUTIONARY BIOLOGY
JCR impact factor
4.229 (2014)
JCR rank
9/46 (2014)
JCR quartile
1 (2014)
ISSN
1759-6653
DOI
10.1093/gbe/evu249
language
English
UGent publication?
yes
classification
A1
copyright statement
I have transferred the copyright for this publication to the publisher
id
5941452
handle
http://hdl.handle.net/1854/LU-5941452
date created
2015-04-22 18:07:58
date last changed
2016-12-19 15:39:13
@article{5941452,
  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.},
  author       = {Miller, William G and Yee, Emma and Chapman, Mary H and Smith, Timothy PL and Bono, James L and Huynh, Steven and Parker, Craig T and Vandamme, Peter and Luong, Khai and Korlach, Jonas},
  issn         = {1759-6653},
  journal      = {GENOME BIOLOGY AND EVOLUTION},
  keyword      = {hemagglutination,flagella,methylome,UPTC,POSITIVE THERMOPHILIC CAMPYLOBACTER,ELECTROPHORETIC PROTEIN-PATTERNS,SINGLE-MOLECULE,SP-NOV.,NUMERICAL-ANALYSIS,JEJUNI FLAGELLIN,SUBSP NOV,RNA GENES,DIVERSITY,LOCI},
  language     = {eng},
  number       = {12},
  pages        = {3252--3266},
  title        = {Comparative genomics of the Campylobacter lari group},
  url          = {http://dx.doi.org/10.1093/gbe/evu249},
  volume       = {6},
  year         = {2014},
}

Chicago
Miller, William G, Emma Yee, Mary H Chapman, Timothy PL Smith, James L Bono, Steven Huynh, Craig T Parker, Peter Vandamme, Khai Luong, and Jonas Korlach. 2014. “Comparative Genomics of the Campylobacter Lari Group.” Genome Biology and Evolution 6 (12): 3252–3266.
APA
Miller, William G, Yee, E., Chapman, M. H., Smith, T. P., Bono, J. L., Huynh, S., Parker, C. T., et al. (2014). Comparative genomics of the Campylobacter lari group. GENOME BIOLOGY AND EVOLUTION, 6(12), 3252–3266.
Vancouver
1.
Miller WG, Yee E, Chapman MH, Smith TP, Bono JL, Huynh S, et al. Comparative genomics of the Campylobacter lari group. GENOME BIOLOGY AND EVOLUTION. 2014;6(12):3252–66.
MLA
Miller, William G, Emma Yee, Mary H Chapman, et al. “Comparative Genomics of the Campylobacter Lari Group.” GENOME BIOLOGY AND EVOLUTION 6.12 (2014): 3252–3266. Print.