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巴基斯坦 A 型口蹄疫病毒及其地方流行亚系 A/ASIA/伊朗-05/SIS-13 的进化动态。

Evolutionary Dynamics of Foot and Mouth Disease Virus Serotype A and Its Endemic Sub-Lineage A/ASIA/Iran-05/SIS-13 in Pakistan.

机构信息

Molecular Virology Laboratory, Department of Biosciences, Comsats University Islamabad, Islamabad 45550, Pakistan.

Exotic Disease Research Station, National Institute of Animal Health, National Agriculture and Food Research Organization, 6-20-1 Josui-honcho, Kodaira 187-0022, Japan.

出版信息

Viruses. 2022 Jul 26;14(8):1634. doi: 10.3390/v14081634.

DOI:10.3390/v14081634
PMID:35893699
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC9331208/
Abstract

Foot and mouth disease (FMD) causes severe economic losses to the livestock industry of endemic countries, including Pakistan. Pakistan is part of the endemic pool 3 for foot and mouth disease viruses (FMDV), characterized by co-circulating O, A, and Asia 1 serotypes, as designated by the world reference laboratory for FMD (WRL-FMD). FMDV serotype A lineage ASIA/Iran-05 is widespread in buffalos and cattle populations and was first reported in Pakistan in 2006. This lineage has a high turnover, with as many as 10 sub-lineages reported from Pakistan over the years. In this study, we reconstructed the evolutionary, demographic, and spatial history of serotype A and one of its sub-lineages, A/ASIA/Iran-05/SIS-13, prevalent in Pakistan. We sequenced nearly complete genomes of three isolates belonging to sub-lineage A/ASIA/Iran-05/SIS-13. We estimated recombination patterns and natural selection acting on the serotype A genomes. Source and transmission routes in Pakistan were inferred, and the clustering pattern of isolates of the SIS-13 sub-lineage were mapped on a tree. We hereby report nearly complete genome sequences of isolates belonging to sub-lineage A/ASIA/Iran-05/SIS-13, along with purported recombinant genomes, and highlight that complete coding sequences can better elucidate the endemic history and evolutionary pressures acting on long-term co-circulating FMDV strains.

摘要

口蹄疫（FMD）给包括巴基斯坦在内的流行国家的畜牧业造成了严重的经济损失。巴基斯坦是口蹄疫病毒（FMDV）流行池 3 的一部分，其特征是 O、A 和亚洲 1 型血清型共同循环，由口蹄疫世界参考实验室（WRL-FMD）指定。FMDV 血清型 A 谱系 ASIA/伊朗-05 在水牛和牛群中广泛传播，并于 2006 年首次在巴基斯坦报告。该谱系具有较高的周转率，多年来巴基斯坦报告了多达 10 个亚谱系。在这项研究中，我们重建了在巴基斯坦流行的血清型 A 和其一个亚谱系 A/ASIA/伊朗-05/SIS-13 的进化、人口和空间历史。我们对属于亚谱系 A/ASIA/伊朗-05/SIS-13 的三个分离株进行了近乎完整的基因组测序。我们估计了对血清型 A 基因组起作用的重组模式和自然选择。对巴基斯坦的来源和传播途径进行了推断，并在树上对 SIS-13 亚谱系的分离株聚类模式进行了映射。我们在此报告了属于亚谱系 A/ASIA/伊朗-05/SIS-13 的分离株的近乎完整基因组序列，以及据称的重组基因组，并强调完整的编码序列可以更好地阐明长期共同循环的 FMDV 菌株的流行历史和进化压力。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/34c3/9331208/86be21b1d114/viruses-14-01634-g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/34c3/9331208/4322ed9c8dc5/viruses-14-01634-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/34c3/9331208/6d4f76ee9931/viruses-14-01634-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/34c3/9331208/3e5c25002f9b/viruses-14-01634-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/34c3/9331208/b64c98ee4aea/viruses-14-01634-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/34c3/9331208/1f9d75d4e2c8/viruses-14-01634-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/34c3/9331208/86be21b1d114/viruses-14-01634-g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/34c3/9331208/4322ed9c8dc5/viruses-14-01634-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/34c3/9331208/6d4f76ee9931/viruses-14-01634-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/34c3/9331208/3e5c25002f9b/viruses-14-01634-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/34c3/9331208/b64c98ee4aea/viruses-14-01634-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/34c3/9331208/1f9d75d4e2c8/viruses-14-01634-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/34c3/9331208/86be21b1d114/viruses-14-01634-g006.jpg

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