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Genome-wide association of functional traits linked with Campylobacter jejuni survival from farm to fork

Koji Yahara, Guillaume Méric, Aidan J. Taylor, Stefan P. W. de Vries, Susan Murray, Ben Pascoe Orcid Logo, Leonardos Mageiros, Alicia Torralbo, Ana Vidal, Anne Ridley, Sho Komukai, Helen Wimalarathna, Alison J. Cody, Frances M. Colles, Noel McCarthy, David Harris, James E. Bray, Keith A. Jolley, Martin C. J. Maiden, Stephen D. Bentley, Julian Parkhill, Christopher D. Bayliss, Andrew Grant, Duncan Maskell, Xavier Didelot, David J. Kelly, Samuel K. Sheppard

Environmental Microbiology, Volume: 19, Issue: 1, Pages: 361 - 380

Swansea University Author: Ben Pascoe Orcid Logo

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DOI (Published version): 10.1111/1462-2920.13628

Abstract

Campylobacter jejuni is a major cause of bacterial gastroenteritis worldwide, primarily associated with the consumption of contaminated poultry. C. jejuni lineages vary in host range and prevalence in human infection, suggesting differences in survival throughout the poultry processing chain. From 7...

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Published in: Environmental Microbiology
ISSN: 14622912
Published: 2017
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URI: https://cronfa.swan.ac.uk/Record/cronfa22346
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From 7,343 MLST-characterised isolates, we sequenced 600 C. jejuni and C. coli isolates from various stages of poultry processing and clinical cases. A genome-wide association study (GWAS) in C. jejuni ST-21 and ST-45 complexes identified genetic elements over-represented in clinical isolates that increased in frequency throughout the poultry processing chain. Disease-associated SNPs were distinct in these complexes, sometimes organised in haplotype blocks. The function of genes containing associated elements was investigated, demonstrating roles for cj1377c in formate metabolism, nuoK in aerobic survival and oxidative respiration, and cj1368-70 in nucleotide salvage. 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spelling 2017-05-07T00:26:26.3683440 v2 22346 2015-07-14 Genome-wide association of functional traits linked with Campylobacter jejuni survival from farm to fork 4660c0eb7e6bfd796cd749ae713ea558 0000-0001-6376-5121 Ben Pascoe Ben Pascoe true false 2015-07-14 PMSC Campylobacter jejuni is a major cause of bacterial gastroenteritis worldwide, primarily associated with the consumption of contaminated poultry. C. jejuni lineages vary in host range and prevalence in human infection, suggesting differences in survival throughout the poultry processing chain. From 7,343 MLST-characterised isolates, we sequenced 600 C. jejuni and C. coli isolates from various stages of poultry processing and clinical cases. A genome-wide association study (GWAS) in C. jejuni ST-21 and ST-45 complexes identified genetic elements over-represented in clinical isolates that increased in frequency throughout the poultry processing chain. Disease-associated SNPs were distinct in these complexes, sometimes organised in haplotype blocks. The function of genes containing associated elements was investigated, demonstrating roles for cj1377c in formate metabolism, nuoK in aerobic survival and oxidative respiration, and cj1368-70 in nucleotide salvage. This work demonstrates the utility of GWAS for investigating transmission in natural zoonotic pathogen populations and provides evidence that major C. jejuni lineages have distinct genotypes associated with survival, within the host specific niche, from farm to fork. Journal Article Environmental Microbiology 19 1 361 380 14622912 genome-wide association study, GWAS, population structure, population genomics, food chain, Campylobacter, zoonosis, industrial food safety 25 1 2017 2017-01-25 10.1111/1462-2920.13628 http://onlinelibrary.wiley.com/doi/10.1111/1462-2920.13628/full COLLEGE NANME Medicine COLLEGE CODE PMSC Swansea University MRC 2017-05-07T00:26:26.3683440 2015-07-14T01:05:04.2252639 Faculty of Medicine, Health and Life Sciences Swansea University Medical School - Medicine Koji Yahara 1 Guillaume Méric 2 Aidan J. Taylor 3 Stefan P. W. de Vries 4 Susan Murray 5 Ben Pascoe 0000-0001-6376-5121 6 Leonardos Mageiros 7 Alicia Torralbo 8 Ana Vidal 9 Anne Ridley 10 Sho Komukai 11 Helen Wimalarathna 12 Alison J. Cody 13 Frances M. Colles 14 Noel McCarthy 15 David Harris 16 James E. Bray 17 Keith A. Jolley 18 Martin C. J. Maiden 19 Stephen D. Bentley 20 Julian Parkhill 21 Christopher D. Bayliss 22 Andrew Grant 23 Duncan Maskell 24 Xavier Didelot 25 David J. Kelly 26 Samuel K. Sheppard 27
title Genome-wide association of functional traits linked with Campylobacter jejuni survival from farm to fork
spellingShingle Genome-wide association of functional traits linked with Campylobacter jejuni survival from farm to fork
Ben Pascoe
title_short Genome-wide association of functional traits linked with Campylobacter jejuni survival from farm to fork
title_full Genome-wide association of functional traits linked with Campylobacter jejuni survival from farm to fork
title_fullStr Genome-wide association of functional traits linked with Campylobacter jejuni survival from farm to fork
title_full_unstemmed Genome-wide association of functional traits linked with Campylobacter jejuni survival from farm to fork
title_sort Genome-wide association of functional traits linked with Campylobacter jejuni survival from farm to fork
author_id_str_mv 4660c0eb7e6bfd796cd749ae713ea558
author_id_fullname_str_mv 4660c0eb7e6bfd796cd749ae713ea558_***_Ben Pascoe
author Ben Pascoe
author2 Koji Yahara
Guillaume Méric
Aidan J. Taylor
Stefan P. W. de Vries
Susan Murray
Ben Pascoe
Leonardos Mageiros
Alicia Torralbo
Ana Vidal
Anne Ridley
Sho Komukai
Helen Wimalarathna
Alison J. Cody
Frances M. Colles
Noel McCarthy
David Harris
James E. Bray
Keith A. Jolley
Martin C. J. Maiden
Stephen D. Bentley
Julian Parkhill
Christopher D. Bayliss
Andrew Grant
Duncan Maskell
Xavier Didelot
David J. Kelly
Samuel K. Sheppard
format Journal article
container_title Environmental Microbiology
container_volume 19
container_issue 1
container_start_page 361
publishDate 2017
institution Swansea University
issn 14622912
doi_str_mv 10.1111/1462-2920.13628
college_str Faculty of Medicine, Health and Life Sciences
hierarchytype
hierarchy_top_id facultyofmedicinehealthandlifesciences
hierarchy_top_title Faculty of Medicine, Health and Life Sciences
hierarchy_parent_id facultyofmedicinehealthandlifesciences
hierarchy_parent_title Faculty of Medicine, Health and Life Sciences
department_str Swansea University Medical School - Medicine{{{_:::_}}}Faculty of Medicine, Health and Life Sciences{{{_:::_}}}Swansea University Medical School - Medicine
url http://onlinelibrary.wiley.com/doi/10.1111/1462-2920.13628/full
document_store_str 0
active_str 0
description Campylobacter jejuni is a major cause of bacterial gastroenteritis worldwide, primarily associated with the consumption of contaminated poultry. C. jejuni lineages vary in host range and prevalence in human infection, suggesting differences in survival throughout the poultry processing chain. From 7,343 MLST-characterised isolates, we sequenced 600 C. jejuni and C. coli isolates from various stages of poultry processing and clinical cases. A genome-wide association study (GWAS) in C. jejuni ST-21 and ST-45 complexes identified genetic elements over-represented in clinical isolates that increased in frequency throughout the poultry processing chain. Disease-associated SNPs were distinct in these complexes, sometimes organised in haplotype blocks. The function of genes containing associated elements was investigated, demonstrating roles for cj1377c in formate metabolism, nuoK in aerobic survival and oxidative respiration, and cj1368-70 in nucleotide salvage. This work demonstrates the utility of GWAS for investigating transmission in natural zoonotic pathogen populations and provides evidence that major C. jejuni lineages have distinct genotypes associated with survival, within the host specific niche, from farm to fork.
published_date 2017-01-25T03:26:36Z
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score 11.012857

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