The use of genome wide association methods to investigate pathogenicity, population structure and serovar in Haemophilus parasuis

Kate J Howell; Lucy A Weinert; Roy R Chaudhuri; Shi-Lu Luan; Sarah E Peters; Jukka Corander; David Harris; Øystein Angen; Virginia Aragon; Albert Bensaid; Susanna M Williamson; Julian Parkhill; Paul R Langford; Andrew N Rycroft; Brendan W Wren; Matthew T Holden; Alexander W Tucker; Duncan J Maskell

doi:10.1186/1471-2164-15-1179

The use of genome wide association methods to investigate pathogenicity, population structure and serovar in Haemophilus parasuis

Kate J Howell, Lucy A Weinert, Roy R Chaudhuri, Shi-Lu Luan, Sarah E Peters, Jukka Corander, David Harris, Øystein Angen, Virginia Aragon, Albert Bensaid, Susanna M Williamson, Julian Parkhill, Paul R Langford, Andrew N Rycroft, Brendan W Wren, Matthew T Holden, Alexander W Tucker, Duncan J Maskell

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Abstract

Haemophilus parasuis is the etiologic agent of Glasser's disease in pigs and causes devastating losses to the farming industry. Whilst some hyper-virulent isolates have been described, the relationship between genetics and disease outcome has been only partially established. In particular, there is weak correlation between serovar and disease phenotype. We sequenced the genomes of 212 isolates of H. parasuis and have used this to describe the pan-genome and to correlate this with clinical and carrier status, as well as with serotype.

Original language	English
Article number	1179
Journal	BMC Genomics
Volume	15
DOIs	https://doi.org/10.1186/1471-2164-15-1179
Publication status	Published - 24 Dec 2014

Keywords

Genome wide association study
Pan-genome
Recombination
DAPC
Virulence factors
Population structure
Haemophilus parasuis

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1471-2164-15-1179
© 2014 Howell et al.; licensee BioMed Central. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
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Howell, K. J., Weinert, L. A., Chaudhuri, R. R., Luan, S.-L., Peters, S. E., Corander, J., Harris, D., Angen, Ø., Aragon, V., Bensaid, A., Williamson, S. M., Parkhill, J., Langford, P. R., Rycroft, A. N., Wren, B. W., Holden, M. T., Tucker, A. W., & Maskell, D. J. (2014). The use of genome wide association methods to investigate pathogenicity, population structure and serovar in Haemophilus parasuis. BMC Genomics, 15, Article 1179. https://doi.org/10.1186/1471-2164-15-1179

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title = "The use of genome wide association methods to investigate pathogenicity, population structure and serovar in Haemophilus parasuis",

abstract = "Haemophilus parasuis is the etiologic agent of Glasser's disease in pigs and causes devastating losses to the farming industry. Whilst some hyper-virulent isolates have been described, the relationship between genetics and disease outcome has been only partially established. In particular, there is weak correlation between serovar and disease phenotype. We sequenced the genomes of 212 isolates of H. parasuis and have used this to describe the pan-genome and to correlate this with clinical and carrier status, as well as with serotype.",

keywords = "Genome wide association study, Pan-genome, Recombination, DAPC, Virulence factors, Population structure, Haemophilus parasuis",

author = "Howell, \{Kate J\} and Weinert, \{Lucy A\} and Chaudhuri, \{Roy R\} and Shi-Lu Luan and Peters, \{Sarah E\} and Jukka Corander and David Harris and {\O}ystein Angen and Virginia Aragon and Albert Bensaid and Williamson, \{Susanna M\} and Julian Parkhill and Langford, \{Paul R\} and Rycroft, \{Andrew N\} and Wren, \{Brendan W\} and Holden, \{Matthew T\} and Tucker, \{Alexander W\} and Maskell, \{Duncan J\}",

note = "This work was supported by a BPEX PhD studentship and a Longer and Larger (LoLa) grant from the Biotechnology and Biological Sciences Research Council (grant numbers BB/G020744/1, BB/G019177/1, BB/G019274/1 and BB/G003203/1), the UK Department for Environment, Food and Rural Affairs and Zoetis, awarded to the Bacterial Respiratory Diseases of Pigs-1 Technology (BRaDP1T) consortium. ",

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Howell, KJ, Weinert, LA, Chaudhuri, RR, Luan, S-L, Peters, SE, Corander, J, Harris, D, Angen, Ø, Aragon, V, Bensaid, A, Williamson, SM, Parkhill, J, Langford, PR, Rycroft, AN, Wren, BW, Holden, MT, Tucker, AW & Maskell, DJ 2014, 'The use of genome wide association methods to investigate pathogenicity, population structure and serovar in Haemophilus parasuis', BMC Genomics, vol. 15, 1179. https://doi.org/10.1186/1471-2164-15-1179

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T1 - The use of genome wide association methods to investigate pathogenicity, population structure and serovar in Haemophilus parasuis

AU - Howell, Kate J

AU - Weinert, Lucy A

AU - Chaudhuri, Roy R

AU - Luan, Shi-Lu

AU - Peters, Sarah E

AU - Corander, Jukka

AU - Harris, David

AU - Angen, Øystein

AU - Aragon, Virginia

AU - Bensaid, Albert

AU - Williamson, Susanna M

AU - Parkhill, Julian

AU - Langford, Paul R

AU - Rycroft, Andrew N

AU - Wren, Brendan W

AU - Holden, Matthew T

AU - Tucker, Alexander W

AU - Maskell, Duncan J

N1 - This work was supported by a BPEX PhD studentship and a Longer and Larger (LoLa) grant from the Biotechnology and Biological Sciences Research Council (grant numbers BB/G020744/1, BB/G019177/1, BB/G019274/1 and BB/G003203/1), the UK Department for Environment, Food and Rural Affairs and Zoetis, awarded to the Bacterial Respiratory Diseases of Pigs-1 Technology (BRaDP1T) consortium.

PY - 2014/12/24

Y1 - 2014/12/24

N2 - Haemophilus parasuis is the etiologic agent of Glasser's disease in pigs and causes devastating losses to the farming industry. Whilst some hyper-virulent isolates have been described, the relationship between genetics and disease outcome has been only partially established. In particular, there is weak correlation between serovar and disease phenotype. We sequenced the genomes of 212 isolates of H. parasuis and have used this to describe the pan-genome and to correlate this with clinical and carrier status, as well as with serotype.

AB - Haemophilus parasuis is the etiologic agent of Glasser's disease in pigs and causes devastating losses to the farming industry. Whilst some hyper-virulent isolates have been described, the relationship between genetics and disease outcome has been only partially established. In particular, there is weak correlation between serovar and disease phenotype. We sequenced the genomes of 212 isolates of H. parasuis and have used this to describe the pan-genome and to correlate this with clinical and carrier status, as well as with serotype.

KW - Genome wide association study

KW - Pan-genome

KW - Recombination

KW - DAPC

KW - Virulence factors

KW - Population structure

KW - Haemophilus parasuis

UR - http://www.biomedcentral.com/1471-2164/15/1179/abstract

UR - https://www.scopus.com/pages/publications/84939568343

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DO - 10.1186/1471-2164-15-1179

M3 - Article

C2 - 25539682

SN - 1471-2164

VL - 15

JO - BMC Genomics

JF - BMC Genomics

M1 - 1179

ER -

The use of genome wide association methods to investigate pathogenicity, population structure and serovar in Haemophilus parasuis

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Keywords

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