Using whole genome sequencing to investigate transmission in a multi-host system: bovine Tuberculosis in New Zealand

Crispell, J. et al. (2017) Using whole genome sequencing to investigate transmission in a multi-host system: bovine Tuberculosis in New Zealand. BMC Genomics, 18, 180. (doi:10.1186/s12864-017-3569-x) (PMID:28209138) (PMCID:PMC5314462)

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Abstract

Background: Bovine tuberculosis (bTB), caused by Mycobacterium bovis, is an important livestock disease raising public health and economic concerns around the world. In New Zealand, a number of wildlife species are implicated in the spread and persistence of bTB in cattle populations, most notably the brushtail possum (Trichosurus vulpecula). Whole Genome Sequenced (WGS) M. bovis isolates sourced from infected cattle and wildlife across New Zealand were analysed. Bayesian phylogenetic analyses were conducted to estimate the substitution rate of the sampled population and investigate the role of wildlife. In addition, the utility of WGS was examined with a view to these methods being incorporated into routine bTB surveillance. Results: A high rate of exchange was evident between the sampled wildlife and cattle populations but directional estimates of inter-species transmission were sensitive to the sampling strategy employed. A relatively high substitution rate was estimated, this, in combination with a strong spatial signature and a good agreement to previous typing methods, acts to endorse WGS as a typing tool. Conclusions: In agreement with the current knowledge of bTB in New Zealand, transmission of M. bovis between cattle and wildlife was evident. Without direction, these estimates are less informative but taken in conjunction with the low prevalence of bTB in New Zealand’s cattle population it is likely that, currently, wildlife populations are acting as the main bTB reservoir. Wildlife should therefore continue to be targeted if bTB is to be eradicated from New Zealand. WGS will be a considerable aid to bTB eradication by greatly improving the discriminatory power of molecular typing data. The substitution rates estimated here will be an important part of epidemiological investigations using WGS data.

Item Type:Articles
Status:Published
Refereed:Yes
Glasgow Author(s) Enlighten ID:Kao, Professor Rowland and Zadoks, Professor Ruth and Crispell, Joseph and Lycett, Dr Samantha and Biek, Dr Roman
Authors: Crispell, J., Zadoks, R. N., Harris, S. R., Paterson, B., Collins, D. M., de-Lisle, G. W., Livingstone, P., Neill, M. A., Biek, R., Lycett, S. J., Kao, R. R., and Price-Carter, M.
College/School:College of Medical Veterinary and Life Sciences > Institute of Biodiversity Animal Health and Comparative Medicine
Journal Name:BMC Genomics
Publisher:Biomed Central
ISSN:1471-2164
ISSN (Online):1471-2164
Copyright Holders:Copyright © 2017 The Authors
First Published:First published in BMC Genomics 18: 180
Publisher Policy:Reproduced under a Creative Commons License

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Project CodeAward NoProject NamePrincipal InvestigatorFunder's NameFunder RefLead Dept
5887510BBSRC Doctoral Training Partnership 2012George BaillieBiotechnology and Biological Sciences Research Council (BBSRC)BB/J013854/1MVLS COLLEGE SENIOR MANAGEMENT