Evolution and genetic diversity of atypical porcine pestivirus (APPV) from piglets with congenital tremor in Guangxi Province, Southern China.
Evolution and genetic diversity of atypical porcine pestivirus (APPV) from piglets with congenital tremor in Guangxi Province, Southern China.
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DOI：
10.1002/vms3.407
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发表时间：
2021-05
影响因子：
1.7
通讯作者：
Lu W
中科院分区：
文献类型：
--
作者：
Shi K;Xie S;Sun W;Liu H;Zhao J;Yin Y;Si H;Qu S;Lu W
非典型猪瘟病毒（APPV）已被鉴定，并与新生仔猪的先天性震颤（CT）A-II型相关，并已在许多国家报告。在中国，2016年在广东省报告了第一例猪群中的APPV鉴定。为了解广西地区APPV的遗传特性，于2017年10月至2019年5月采集了53份新生仔猪CT组织样本进行检测。共获得5株APPV，分别命名为GX 04/2017、GX 01 - 2018、GX 02 - 2018、GX 01 - 2019和GX 02 - 2019。序列分析表明，广西6株APPV（包括本研究的5株和以前报道的1株）全基因组核苷酸同源性为83.3%~ 97.5%，开放阅读框（ORF）氨基酸同源性为91.7%~ 99.1%。与参考株全基因组核苷酸同源性为77.7%~ 97.7%，ORF氨基酸同源性为90.6%~ 99.3%。系统发育分析表明，根据全基因组Npro、Erns和E2基因序列，所有APPV株可分为3个分支，广西APPV株可分为2个分支（分支I和分支II）。从广西菌株中没有观察到重组的迹象。对58株APPV全基因组的进化分析表明，2006-2019年美洲、欧洲和亚洲毒株的平均进化速率为1.37 × 10-4个替换/位点/年，它们的最近共同祖先（tMRCA）估计为1700.5年前。研究结果表明，广西地区APPV存在较高的遗传多样性，为了解广西地区APPV的流行特征和进化关系提供了重要信息。本研究从广西地区新生仔猪CT阳性的临床组织中获得了5株APPV的全基因组序列。根据全基因组序列、Npro、Erns和E2基因序列构建的系统发育树显示，5个APPV株系分布在2个进化枝中，表明广西APPV株系存在高度的遗传多样性和变异性。研究结果为了解我国南方地区APPV的流行病学和进化特征提供了有价值的信息。
Atypical porcine pestivirus (APPV) was identified and associated with congenital tremor (CT) type A‐II in new born piglets and has been reported in many countries. In China, the first APPV identification in swine herds was reported in Guangdong province in 2016. To investigate the genetic characteristics of APPV in Guangxi province, 53 tissue samples from neonatal piglets with CT were collected and detected from October 2017 to May 2019. Five APPV strains which were named as GX04/2017, GX01‐2018, GX02‐2018, GX01‐2019 and GX02‐2019 were obtained. Sequence analysis revealed that all six APPV strains from Guangxi province, including five strains from this study and one from a previous report, shared 83.3%‐97.5% nucleotide identity of complete genome and 91.7%‐99.1% amino acid identity of the open reading frame (ORF), and shared 77.7%‐97.7% nucleotide identity of complete genome and 90.6%‐99.3% amino acid identity of ORF with reference strains. Phylogenetic analysis indicated that all APPV strains could be divided into three clades based on the complete genome, Npro, Erns and E2 gene sequences, respectively; and the APPV strains from Guangxi province distributed in two clades (clades I and II). No sign of recombination was observed from Guangxi strains. Evolution analysis performed on the complete genome of 58 APPV strains showed that America, Europe and Asia strains during 2006–2019 evolved at a mean rate of 1.37 × 10–4 substitutions/site/year, and the most recent common ancestor (tMRCA) of them was estimated as 1,700.5 years ago. The findings of this study indicated that there existed a high degree of genetic diversity of APPV from Guangxi province, Southern China, which provided important information on the epidemiological features and evolutionary relationships of APPV. The complete genomic sequences of five APPV strains were obtained from positive clinical tissue samples from neonatal piglets with CT in Guangxi province, Southern China. The five APPV strains distributed in two clades in phylogenetic trees based on complete genome, Npro, Erns and E2 gene sequences, respectively, which indicated that APPV strains from Guangxi province existed high degree of genetic diversity and variation. The results provided valuable information on epidemiological and evolutionary characteristics of APPV in Southern China.
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