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Comparative genomics of unintrogressed Campylobacter coli clades 2 and 3
Campylobacter jejuni and C. coli share a multitude of risk factors associated with human gastrointestinal disease, yet their phylogeny differs significantly. C. jejuni is scattered into several lineages, with no apparent linkage, whereas C. coli clusters into three distinct phylogenetic groups (clad...
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Published in: | BMC genomics 2014-02, Vol.15 (1), p.129-129 |
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description | Campylobacter jejuni and C. coli share a multitude of risk factors associated with human gastrointestinal disease, yet their phylogeny differs significantly. C. jejuni is scattered into several lineages, with no apparent linkage, whereas C. coli clusters into three distinct phylogenetic groups (clades) of which clade 1 has shown extensive genome-wide introgression with C. jejuni, yet the other two clades (2 and 3) have less than 2% of C. jejuni ancestry. We characterized a C. coli strain (76339) with four novel multilocus sequence type alleles (ST-5088) and having the capability to express gamma-glutamyltranspeptidase (GGT); an accessory feature in C. jejuni. Our aim was to further characterize unintrogressed C. coli clades 2 and 3, using comparative genomics and with additional genome sequences available, to investigate the impact of horizontal gene transfer in shaping the accessory and core gene pools in unintrogressed C. coli.
Here, we present the first fully closed C. coli clade 3 genome (76339). The phylogenomic analysis of strain 76339, revealed that it belonged to clade 3 of unintrogressed C. coli. A more extensive respiratory metabolism among unintrogressed C. coli strains was found compared to introgressed C. coli (clade 1). We also identified other genes, such as serine proteases and an active sialyltransferase in the lipooligosaccharide locus, not present in C. coli clade 1 and we further propose a unique scenario for the evolution of Campylobacter ggt.
We propose new insights into the evolution of the accessory genome of C. coli clade 3 and C. jejuni. Also, in silico analysis of the gene content revealed that C. coli clades 2 and 3 have genes associated with infection, suggesting they are a potent human pathogen, and may currently be underreported in human infections due to niche separation. |
doi_str_mv | 10.1186/1471-2164-15-129 |
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Here, we present the first fully closed C. coli clade 3 genome (76339). The phylogenomic analysis of strain 76339, revealed that it belonged to clade 3 of unintrogressed C. coli. A more extensive respiratory metabolism among unintrogressed C. coli strains was found compared to introgressed C. coli (clade 1). We also identified other genes, such as serine proteases and an active sialyltransferase in the lipooligosaccharide locus, not present in C. coli clade 1 and we further propose a unique scenario for the evolution of Campylobacter ggt.
We propose new insights into the evolution of the accessory genome of C. coli clade 3 and C. jejuni. Also, in silico analysis of the gene content revealed that C. coli clades 2 and 3 have genes associated with infection, suggesting they are a potent human pathogen, and may currently be underreported in human infections due to niche separation.</description><identifier>ISSN: 1471-2164</identifier><identifier>EISSN: 1471-2164</identifier><identifier>DOI: 10.1186/1471-2164-15-129</identifier><identifier>PMID: 24524824</identifier><language>eng</language><publisher>England: BioMed Central</publisher><subject>Bacterial Proteins - classification ; Bacterial Proteins - genetics ; Bacterial Proteins - metabolism ; Bacteriology ; Bayes Theorem ; Campylobacter coli ; Campylobacter coli - classification ; Campylobacter coli - genetics ; Campylobacter jejuni ; Campylobacter jejuni - classification ; Campylobacter jejuni - genetics ; Deoxyribonucleic acid ; DNA ; Evolution ; gamma-Glutamyltransferase - classification ; gamma-Glutamyltransferase - genetics ; gamma-Glutamyltransferase - metabolism ; Genealogy ; Genome, Bacterial ; Genomes ; Genomics ; Phylogenetics ; Phylogeny ; Poultry ; Sialyltransferases - classification ; Sialyltransferases - genetics ; Sialyltransferases - metabolism ; Studies ; TECHNOLOGY ; TEKNIKVETENSKAP</subject><ispartof>BMC genomics, 2014-02, Vol.15 (1), p.129-129</ispartof><rights>2014 Skarp-de Haan et al.; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited.</rights><rights>Copyright © 2014 Skarp-de Haan et al.; licensee BioMed Central Ltd. 2014 Skarp-de Haan et al.; licensee BioMed Central Ltd.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-b621t-88283df10dd3be28a356891585a24f3061b39b8cacc51b1a612cced2e72753b23</citedby><cites>FETCH-LOGICAL-b621t-88283df10dd3be28a356891585a24f3061b39b8cacc51b1a612cced2e72753b23</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC3928612/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.proquest.com/docview/1500561636?pq-origsite=primo$$EHTML$$P50$$Gproquest$$Hfree_for_read</linktohtml><link.rule.ids>230,314,727,780,784,885,25753,27924,27925,37012,37013,44590,53791,53793</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/24524824$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink><backlink>$$Uhttps://urn.kb.se/resolve?urn=urn:nbn:se:liu:diva-106035$$DView record from Swedish Publication Index$$Hfree_for_read</backlink></links><search><creatorcontrib>Skarp-de Haan, Caroline P A</creatorcontrib><creatorcontrib>Culebro, Alejandra</creatorcontrib><creatorcontrib>Schott, Thomas</creatorcontrib><creatorcontrib>Revez, Joana</creatorcontrib><creatorcontrib>Schweda, Elke K H</creatorcontrib><creatorcontrib>Hänninen, Marja-Liisa</creatorcontrib><creatorcontrib>Rossi, Mirko</creatorcontrib><title>Comparative genomics of unintrogressed Campylobacter coli clades 2 and 3</title><title>BMC genomics</title><addtitle>BMC Genomics</addtitle><description>Campylobacter jejuni and C. coli share a multitude of risk factors associated with human gastrointestinal disease, yet their phylogeny differs significantly. C. jejuni is scattered into several lineages, with no apparent linkage, whereas C. coli clusters into three distinct phylogenetic groups (clades) of which clade 1 has shown extensive genome-wide introgression with C. jejuni, yet the other two clades (2 and 3) have less than 2% of C. jejuni ancestry. We characterized a C. coli strain (76339) with four novel multilocus sequence type alleles (ST-5088) and having the capability to express gamma-glutamyltranspeptidase (GGT); an accessory feature in C. jejuni. Our aim was to further characterize unintrogressed C. coli clades 2 and 3, using comparative genomics and with additional genome sequences available, to investigate the impact of horizontal gene transfer in shaping the accessory and core gene pools in unintrogressed C. coli.
Here, we present the first fully closed C. coli clade 3 genome (76339). The phylogenomic analysis of strain 76339, revealed that it belonged to clade 3 of unintrogressed C. coli. A more extensive respiratory metabolism among unintrogressed C. coli strains was found compared to introgressed C. coli (clade 1). We also identified other genes, such as serine proteases and an active sialyltransferase in the lipooligosaccharide locus, not present in C. coli clade 1 and we further propose a unique scenario for the evolution of Campylobacter ggt.
We propose new insights into the evolution of the accessory genome of C. coli clade 3 and C. jejuni. Also, in silico analysis of the gene content revealed that C. coli clades 2 and 3 have genes associated with infection, suggesting they are a potent human pathogen, and may currently be underreported in human infections due to niche separation.</description><subject>Bacterial Proteins - classification</subject><subject>Bacterial Proteins - genetics</subject><subject>Bacterial Proteins - metabolism</subject><subject>Bacteriology</subject><subject>Bayes Theorem</subject><subject>Campylobacter coli</subject><subject>Campylobacter coli - classification</subject><subject>Campylobacter coli - genetics</subject><subject>Campylobacter jejuni</subject><subject>Campylobacter jejuni - classification</subject><subject>Campylobacter jejuni - genetics</subject><subject>Deoxyribonucleic acid</subject><subject>DNA</subject><subject>Evolution</subject><subject>gamma-Glutamyltransferase - classification</subject><subject>gamma-Glutamyltransferase - genetics</subject><subject>gamma-Glutamyltransferase - 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online</collection><collection>SWEPUB Linköpings universitet</collection><collection>SwePub Articles full text</collection><jtitle>BMC genomics</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Skarp-de Haan, Caroline P A</au><au>Culebro, Alejandra</au><au>Schott, Thomas</au><au>Revez, Joana</au><au>Schweda, Elke K H</au><au>Hänninen, Marja-Liisa</au><au>Rossi, Mirko</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Comparative genomics of unintrogressed Campylobacter coli clades 2 and 3</atitle><jtitle>BMC genomics</jtitle><addtitle>BMC Genomics</addtitle><date>2014-02-13</date><risdate>2014</risdate><volume>15</volume><issue>1</issue><spage>129</spage><epage>129</epage><pages>129-129</pages><issn>1471-2164</issn><eissn>1471-2164</eissn><abstract>Campylobacter jejuni and C. coli share a multitude of risk factors associated with human gastrointestinal disease, yet their phylogeny differs significantly. C. jejuni is scattered into several lineages, with no apparent linkage, whereas C. coli clusters into three distinct phylogenetic groups (clades) of which clade 1 has shown extensive genome-wide introgression with C. jejuni, yet the other two clades (2 and 3) have less than 2% of C. jejuni ancestry. We characterized a C. coli strain (76339) with four novel multilocus sequence type alleles (ST-5088) and having the capability to express gamma-glutamyltranspeptidase (GGT); an accessory feature in C. jejuni. Our aim was to further characterize unintrogressed C. coli clades 2 and 3, using comparative genomics and with additional genome sequences available, to investigate the impact of horizontal gene transfer in shaping the accessory and core gene pools in unintrogressed C. coli.
Here, we present the first fully closed C. coli clade 3 genome (76339). The phylogenomic analysis of strain 76339, revealed that it belonged to clade 3 of unintrogressed C. coli. A more extensive respiratory metabolism among unintrogressed C. coli strains was found compared to introgressed C. coli (clade 1). We also identified other genes, such as serine proteases and an active sialyltransferase in the lipooligosaccharide locus, not present in C. coli clade 1 and we further propose a unique scenario for the evolution of Campylobacter ggt.
We propose new insights into the evolution of the accessory genome of C. coli clade 3 and C. jejuni. Also, in silico analysis of the gene content revealed that C. coli clades 2 and 3 have genes associated with infection, suggesting they are a potent human pathogen, and may currently be underreported in human infections due to niche separation.</abstract><cop>England</cop><pub>BioMed Central</pub><pmid>24524824</pmid><doi>10.1186/1471-2164-15-129</doi><tpages>1</tpages><oa>free_for_read</oa></addata></record> |
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subjects | Bacterial Proteins - classification Bacterial Proteins - genetics Bacterial Proteins - metabolism Bacteriology Bayes Theorem Campylobacter coli Campylobacter coli - classification Campylobacter coli - genetics Campylobacter jejuni Campylobacter jejuni - classification Campylobacter jejuni - genetics Deoxyribonucleic acid DNA Evolution gamma-Glutamyltransferase - classification gamma-Glutamyltransferase - genetics gamma-Glutamyltransferase - metabolism Genealogy Genome, Bacterial Genomes Genomics Phylogenetics Phylogeny Poultry Sialyltransferases - classification Sialyltransferases - genetics Sialyltransferases - metabolism Studies TECHNOLOGY TEKNIKVETENSKAP |
title | Comparative genomics of unintrogressed Campylobacter coli clades 2 and 3 |
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