US-UK Collab: Mycobacterial Transmission Dynamics in Agricultural Systems: Integrating Phylogenetics, Epidemiology, Ecology, and Economics

美英合作：农业系统中的分枝杆菌传播动力学：整合系统发育学、流行病学、生态学和经济学

• 批准号: BB/M01262X/1
• 负责人: Rowland Kao
• 金额: $ 48.37万
• 依托单位: University of Glasgow
• 依托单位国家: 英国
• 项目类别: Research Grant
• 财政年份: 2014
• 资助国家: 英国
• 起止时间: 2014 至 无数据
• 项目状态: 已结题
• 来源: https://gtr.ukri.org/projects?ref=BB%2FM01262X%2F1
• 关键词: US; UK; Collab; Mycobacterial; Transmission

Mathematical modeling of disease transmission is an important tool in studying infectious disease control; however, parameter estimation from field data is often difficult to quantify, especially with complex diseases. Whole-genome sequencing has become faster and more affordable in recent years, thanks to Next-Generation Sequencing techniques. As large databases of sequenced pathogen isolates become available, infectious disease epidemiologists will be able to use these databases, which are more fine-grained than previous serotyping methods, to improve our understanding of transmission dynamics. However, a general methodology is not yet available for such detailed data in bacteria with slow transmission timescales. This project proposes to develop a quantitative methodology for incorporating whole genome sequence (WGS) data into bacterial transmission models. For this, isolates will be used from mycobacterial infections in agricultural systems in the US and UK. Mycobacterial infections, including Mycobacterium avium subsp. paratuberculosis (MAP) and M. bovis (bovine tuberculosis or bTB), are usually studied in simple one-host systems. Mycobacterial disease is extremely difficult to control due to long latent periods, poor diagnostic sensitivity, wildlife and environmental reservoirs of infection, and heterogeneous strain infectiousness. The key to controlling these diseases is believed to be an integrated approach to understand the pathways through which pathogen transmission occurs at all levels in an ecosystem: within animals, between individual animals, between livestock and wildlife, and between livestock and the environment. A generalized, multi-scale methodology is proposed for determining transmission dynamics using WGS data and phylodynamics. These dynamics will be incorporated into predictive models of disease transmission and control within an economic framework, to help decision-makers make informed control choices.

疾病传播的数学建模是研究传染病控制的重要工具；但是，通常难以量化现场数据的参数估计，尤其是使用复杂的疾病。由于下一代的测序技术，近年来，全基因组测序变得更快，更实惠。随着序列病原体分离株的大量数据库可用，传染病流行病学家将能够使用这些数据库，这些数据库比以前的血清分型方法更为细粒度，以提高我们对传播动态的理解。但是，在传输时间尺度缓慢的细菌中，此类详细数据尚不可用。该项目建议开发一种将整个基因组序列（WGS）数据纳入细菌传播模型中的定量方法。为此，分离株将从美国和英国的农业系统中的分枝杆菌感染中使用。分枝杆菌感染，包括分枝杆菌亚种。通常在简单的单主机系统中研究旁结核（MAP）和M. Bovis（牛结核病或BTB）。由于长期潜伏期，诊断敏感性不佳，感染的野生动植物和环境储藏以及异质性菌株感染性，分枝杆菌疾病极为难以控制。控制这些疾病的关键被认为是一种综合方法，可以理解生态系统中各级发生病原体传播的途径：在动物，单个动物之间，牲畜和野生动植物之间以及牲畜和环境之间。提出了一种通用的多尺度方法，用于使用WGS数据和系统动力学确定传输动力学。这些动态将被纳入经济框架内的疾病传播和控制的预测模型中，以帮助决策者做出明智的控制选择。

项目成果

Identifying genotype specific elevated-risk areas and associated herd risk factors for bovine tuberculosis spread in British cattle.

• DOI: 10.1016/j.epidem.2018.02.004
• 发表时间: 2018-09
• 期刊: Epidemics
• 影响因子: 3.8
• 作者: Orton RJ;Deason M;Bessell PR;Green DM;Kao RR;Salvador LCM
• 通讯作者: Salvador LCM

Estimating epidemiological parameters for bovine tuberculosis in British cattle using a Bayesian partial-likelihood approach.

• DOI: 10.1098/rspb.2014.0248
• 发表时间: 2014-05-22
• 期刊: Proceedings. Biological sciences
• 作者: O'Hare A;Orton RJ;Bessell PR;Kao RR
• 通讯作者: Kao RR

Genome-Wide Diversity and Phylogeography of Mycobacterium avium subsp. paratuberculosis in Canadian Dairy Cattle.

• DOI: 10.1371/journal.pone.0149017
• 发表时间: 2016
• 期刊: PloS one
• 影响因子: 3.7
• 作者: Ahlstrom C;Barkema HW;Stevenson K;Zadoks RN;Biek R;Kao R;Trewby H;Haupstein D;Kelton DF;Fecteau G;Labrecque O;Keefe GP;McKenna SL;Tahlan K;De Buck J
• 通讯作者: De Buck J

Economic Effects of a Potential Foodborne Disease: Potential Relationship between Mycobacterium Avium Subs. Paratuberculosis (MAP) in Dairy and Crohn's in Humans

潜在食源性疾病的经济影响：鸟分枝杆菌亚种之间的潜在关系。

• DOI: 10.18461/ijfsd.v11i5.69
• 发表时间: 2020
• 期刊: International Journal on Food System Dynamics
• 作者: Chiu L.J.V.

Genomic epidemiology of Mycobacterium bovis infection in sympatric badger and cattle populations in Northern Ireland.

• DOI: 10.1099/mgen.0.001023
• 发表时间: 2023-05
• 期刊: MICROBIAL GENOMICS
• 影响因子: 3.9
• 作者: Akhmetova, Assel;Guerrero, Jimena;McAdam, Paul;Salvador, Liliana C. M.;Crispell, Joseph;Lavery, John;Presho, Eleanor;Kao, Rowland R.;Biek, Roman;Menzies, Fraser;Trimble, Nigel;Harwood, Roland;Pepler, P. Theo;Oravcova, Katarina;Graham, Jordon;Skuce, Robin;du Plessis, Louis;Thompson, Suzan;Wright, Lorraine;Byrne, Andrew W.;Allen, Adrian R.
• 通讯作者: Allen, Adrian R.