Genetic variation associated with infection and the environment in the accidental pathogen Burkholderia pseudomallei

Claire Chewapreecha; Alison E. Mather; Simon R. Harris; Martin Hunt; Matthew T. G. Holden; Chutima Chaichana; Vanaporn Wuthiekanun; Gordon Dougan; Nicholas P. J. Day; Direk Limmathurotsakul; Julian Parkhill; Sharon J. Peacock

doi:10.1038/s42003-019-0678-x

Genetic variation associated with infection and the environment in the accidental pathogen Burkholderia pseudomallei

Claire Chewapreecha, Alison E. Mather, Simon R. Harris, Martin Hunt, Matthew T. G. Holden, Chutima Chaichana, Vanaporn Wuthiekanun, Gordon Dougan, Nicholas P. J. Day, Direk Limmathurotsakul, Julian Parkhill, Sharon J. Peacock

Research output: Contribution to journal › Article › peer-review

Abstract

The environmental bacterium Burkholderia pseudomallei causes melioidosis, an important endemic human disease in tropical and sub-tropical countries. This bacterium occupies broad ecological niches including soil, contaminated water, single-cell microbes, plants and infection in a range of animal species. Here, we performed genome-wide association studies for genetic determinants of environmental and human adaptation using a combined dataset of 1,010 whole genome sequences of B. pseudomallei from Northeast Thailand and Australia, representing two major disease hotspots. With these data, we identified 47 genes from 26 distinct loci associated with clinical or environmental isolates from Thailand and replicated 12 genes in an independent Australian cohort. We next outlined the selective pressures on the genetic loci (dN/dS) and the frequency at which they had been gained or lost throughout their evolutionary history, reflecting the bacterial adaptability to a wide range of ecological niches. Finally, we highlighted loci likely implicated in human disease.

Original language	English
Article number	428
Number of pages	11
Journal	Communications Biology
Volume	2
DOIs	https://doi.org/10.1038/s42003-019-0678-x
Publication status	Published - 22 Nov 2019

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Chewapreecha, C., Mather, A. E., Harris, S. R., Hunt, M., Holden, M. T. G., Chaichana, C., Wuthiekanun, V., Dougan, G., Day, N. P. J., Limmathurotsakul, D., Parkhill, J., & Peacock, S. J. (2019). Genetic variation associated with infection and the environment in the accidental pathogen Burkholderia pseudomallei. Communications Biology, 2, Article 428. https://doi.org/10.1038/s42003-019-0678-x

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abstract = "The environmental bacterium Burkholderia pseudomallei causes melioidosis, an important endemic human disease in tropical and sub-tropical countries. This bacterium occupies broad ecological niches including soil, contaminated water, single-cell microbes, plants and infection in a range of animal species. Here, we performed genome-wide association studies for genetic determinants of environmental and human adaptation using a combined dataset of 1,010 whole genome sequences of B. pseudomallei from Northeast Thailand and Australia, representing two major disease hotspots. With these data, we identified 47 genes from 26 distinct loci associated with clinical or environmental isolates from Thailand and replicated 12 genes in an independent Australian cohort. We next outlined the selective pressures on the genetic loci (dN/dS) and the frequency at which they had been gained or lost throughout their evolutionary history, reflecting the bacterial adaptability to a wide range of ecological niches. Finally, we highlighted loci likely implicated in human disease.",

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AU - Chaichana, Chutima

AU - Wuthiekanun, Vanaporn

AU - Dougan, Gordon

AU - Day, Nicholas P. J.

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AB - The environmental bacterium Burkholderia pseudomallei causes melioidosis, an important endemic human disease in tropical and sub-tropical countries. This bacterium occupies broad ecological niches including soil, contaminated water, single-cell microbes, plants and infection in a range of animal species. Here, we performed genome-wide association studies for genetic determinants of environmental and human adaptation using a combined dataset of 1,010 whole genome sequences of B. pseudomallei from Northeast Thailand and Australia, representing two major disease hotspots. With these data, we identified 47 genes from 26 distinct loci associated with clinical or environmental isolates from Thailand and replicated 12 genes in an independent Australian cohort. We next outlined the selective pressures on the genetic loci (dN/dS) and the frequency at which they had been gained or lost throughout their evolutionary history, reflecting the bacterial adaptability to a wide range of ecological niches. Finally, we highlighted loci likely implicated in human disease.

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Genetic variation associated with infection and the environment in the accidental pathogen Burkholderia pseudomallei

Abstract

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