Characterization of Chinese Porcine Epidemic Diarrhea Virus with Novel Insertions and Deletions in Genome
Characterization of Chinese Porcine Epidemic Diarrhea Virus with Novel Insertions and Deletions in Genome
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基因组新插入和缺失的中国猪流行性腹泻病毒的特征
DOI：
10.1038/srep44209
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发表时间：
2017-03-09
影响因子：
4.6
通讯作者：
Li, Bin
中科院分区：
文献类型：
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作者：
Fan, Baochao;Jiao, Dian;Li, Bin
猪流行性腹泻病毒（PEDV）的爆发给全球养猪业造成了巨大的经济损失。在几个国家已经报道了在刺突（S）基因中具有变体的PEDV毒株。为了更好地了解PEDV田间分离株的分子流行病学和遗传多样性，在这项研究中，我们描述了2016年中国爆发的新型PEDV变体JSCZ1601的全基因组序列。PEDV分离株的长度为28，033个核苷酸（nt），没有多聚腺苷酸化序列。基于JSCZ1601全长基因组序列的系统发育分析将其与2010年后确定的大流行变体一起归类为第2组（G2）。而JSCZ1601的S基因与其他G2菌株的S基因亚群不同，形成了一个新的亚群。对JSCZ1601 S基因编码的氨基酸序列进行比较分析，发现与所有已鉴定的基因组相比，JSCZ1601 S蛋白的N端有两个氨基酸缺失（N58和S59）。与参考菌株相比，在JSCZ1601的5′UTR的5′末端检测到一个“G”插入。动物实验表明，该菌株对新生猪具有高致病性。因此，在中国大陆发现了一株具有新的分子特征和致病性的PEDV。应加强对PEDV变异的监测。
Outbreaks of porcine epidemic diarrhoea virus (PEDV) have caused great economic losses to the global pig industry. PEDV strains with variants in the spike (S) gene have been reported in several countries. To better understand the molecular epidemiology and genetic diversity of PEDV field isolates, in this study, we characterised the complete genome sequence of a novel PEDV variant JSCZ1601 from a outbreak in China in 2016. The PEDV isolate was 28,033 nucleotides (nt) in length without the polyadenylated sequences. Phylogenetic analysis based on the full-length genome sequence of JSCZ1601 grouped it with the pandemic variants determined post-2010 into group 2 (G2). However, the S gene of JSCZ1601 formed a new subgroup separated from the subgroups containing the other G2 strains. Comparative analysis of the amino acids encoded by the S genes revealed the N-terminal of the deduced JSCZ1601 S protein had a novel two-amino-acid deletion (N58 and S59) compared with all identified genogroups. Further, compared with the reference strains, a ‘G’ insertion was detected in the 5′ terminal of the 5′UTR of the JSCZ1601. The animal experiment revealed that this strain was high pathogenic to neonatal pigs. Taken together, a PEDV strain with the new molecular characterizations and phylogenies was found in mainland China. It is necessary to strengthen the monitoring of PEDV variations.