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Origin, Genetic Diversity, and Evolutionary Dynamics of Novel Porcine Circovirus 3.
Advanced Science ( IF 14.3 ) Pub Date : 2018-07-04 , DOI: 10.1002/advs.201800275
Gairu Li 1 , Wanting He 1 , Henan Zhu 2 , Yuhai Bi 3 , Ruyi Wang 1 , Gang Xing 1 , Cheng Zhang 1 , Jiyong Zhou 1, 4 , Kwok-Yung Yuen 5 , George F Gao 3, 6 , Shuo Su 1
Affiliation  

Porcine circovirus 3 (PCV3) is a novel virus associated with acute PDNS (porcine dermatitis and nephropathy syndrome)-like clinical signs identified by metagenomic sequencing from swine. Its high occurrence may pose a potential threat to the swine industry worldwide. The processes resulting in the emergence and spread of PCV3 remain poorly understood. Herein, the possible origin, genotypes, and evolutionary dynamics of PCV3 based on available genomic sequences are determined. The closest ancestor of PCV3 is found to be within the clade 1 bat CVs. Using different phylogenetic methods, two major genotypes are identified, PCV3a and PCV3b. It is found that the effective population size of PCV3 increased rapidly during late 2013 to early 2014 and this is associated with the diversification of PCV3a and PCV3b. A relatively high effective reproductive number (Re) value and higher evolutionary rate were found compared to other single-stranded DNA viruses, and positive selection on codons 122 and 320 (24 of ORF2) is identified. It is hypothesized that this, together with the prediction of a potential change of an antigenic epitope at position 320, might have allowed PCV3 to escape from the host immune response. Overall, this study has important implications for understanding the ongoing PCV3 cases worldwide and will guide future efforts to develop effective preventive and control measures.

中文翻译:


新型猪圆环病毒3的起源、遗传多样性和进化动力学。



猪圆环病毒 3 (PCV3) 是一种与急性 PDNS(猪皮炎和肾病综合征)样临床症状相关的新型病毒,通过猪的宏基因组测序鉴定出。它的高发生率可能对全球养猪业构成潜在威胁。 PCV3 的出现和传播过程仍知之甚少。在此,根据可用的基因组序列确定了 PCV3 的可能起源、基因型和进化动力学。 PCV3 的最近祖先被发现存在于进化枝 1 蝙蝠 CV 中。使用不同的系统发育方法,鉴定出两种主要基因型:PCV3a 和 PCV3b。研究发现,2013年底至2014年初PCV3的有效种群规模迅速增加,这与PCV3a和PCV3b的多样化有关。与其他单链DNA病毒相比,该病毒具有相对较高的有效繁殖数(Re)值和较高的进化率,并且鉴定出对密码子122和320(ORF2的24)的正选择。据推测,这与 320 位抗原表位的潜在变化的预测一起,可能使 PCV3 能够逃避宿主免疫反应。总体而言,这项研究对于了解全球正在发生的 PCV3 病例具有重要意义,并将指导未来制定有效预防和控制措施的努力。
更新日期:2018-07-04
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