8株分离自四川、贵州地区猪繁殖与呼吸综合征病毒毒株的全基因组特征分析

doi:10.11843/j.issn.0366-6964.2020.021

畜牧兽医学报 ›› 2020, Vol. 51 ›› Issue (6): 1382-1390.doi: 10.11843/j.issn.0366-6964.2020.021

8株分离自四川、贵州地区猪繁殖与呼吸综合征病毒毒株的全基因组特征分析

周泷^1,5, 康润敏², 张毅³, 谢波⁴, 于吉锋², 李春³, 张斌¹, 汤承¹, 王红宁^5*

1. 西南民族大学生命科学与技术学院, 成都 610041;
2. 四川省畜牧科学研究院, 成都 610066;
3. 四川省动物疫病预防控制中心, 成都 610041;
4. 成都正大农牧食品有限公司, 成都 610081;
5. 四川大学生命科学学院, 成都 610064

收稿日期:2019-11-25 出版日期:2020-06-25 发布日期:2020-06-23
通讯作者: 王红宁,主要从事动物病原学研究,E-mail:Whongning@163.com
作者简介:周泷(1988-),男,四川成都人,博士,主要从事动物病原学研究,E-mail:zhoulongscu@163.com
基金资助:
四川省科技计划项目（2016NZ0006）；四川省科技计划项目（2016NYZ0042）；四川省财政运行专项（SASA2014CZYX009）；国家现代农业体系四川创新团队建设（Sccxtd-004）；四川省应用基础项目（2019YJ0561）；四川省科技计划重点研发项目（2018NZ0130）

Whole Genome Analysis of Eight Porcine Reproductive and Respiratory Syndrome Viruses Isolated in Sichuan and Guizhou Provinces

ZHOU Long^1,5, KANG Runmin², ZHANG Yi³, XIE Bo⁴, YU Jifeng², LI Chun³, ZHANG Bin¹, TANG Cheng¹, WANG Hongning^5*

1. College of Life Science and Technology, Southwest Minzu University, Chengdu 610041, China;
2. Sichuan Animal Science Academy, Chengdu 610066, China;
3. Sichuan Provincial Center for Animal Disease Control and Prevention, Chengdu 610041, China;
4. Chengdu Chia Tai Agro-industry & Food Co., Ltd., Chengdu 610081, China;
5. College of Life Science, Sichuan University, Chengdu 610064, China

Received:2019-11-25 Online:2020-06-25 Published:2020-06-23

摘要/Abstract

摘要： 本研究旨在了解近年来我国四川、贵州地区猪繁殖与呼吸综合征病毒（PRRSV）的分子流行病学及遗传变异情况，对该地区2016—2018年间采集的8份PRRSV阳性样品进行病毒分离鉴定和全基因组测序，进一步使用RDP4和Simplot生物软件对全基因序列进行重组分析。结果显示，8个PRRSV毒株全基组全长为15 010~15 321 nt，毒株间相似性为80.9%~91.7%。NSP2氨基酸分析结果显示，4个毒株表现出与HP-PRRSV毒株一致的30 aa缺失，另外4株表现出与NADC30毒株一致的131 aa缺失。其中，GZgy17表现为“1+19+29 aa”新型缺失模式。ORF5氨基酸分析显示，3个毒株在33位点出现新型的1 aa缺失。遗传重组分析显示，8个毒株表现出PRRSV-2毒株6种不同谱系（Lineage）间的重组方式，分别如下：1） SCnj16：L8+L1；2） SCxyz17：L1+L5；3） SCya18：L1+L3；4） GZgy17：L8+L3；5） SCcd17和SCN17：L1+L8+L5；6） SCcd16和SCya17：L1+L8+L3。本研究结果表明，我国四川、贵州地区不仅有多种谱系PRRSV毒株并存，其基因组还出现了复杂的遗传重组现象，具有上述复杂基因组的PRRSV毒株在我国的流行状况值得高度关注。

关键词: 猪繁殖与呼吸综合征病毒, 病毒分离鉴定, 全基因组, 缺失, 重组

Abstract: To understand the molecular epidemiology and genetic variation of porcine reproductive and respiratory syndrome virus (PRRSV) in Sichuan and Guizhou provinces, Southwest China in recent years, 8 PRRSV positive samples collected from the pig farms during 2016-2018 were used for viral isolation and full-length genomic sequences amplification, the genomic recombinations of these sequences were analyzed by using RDP4 and Simplot biological softwores. The results showed that the full length of the genome of 8 PRRSV strains were 15 010-15 321 nt, and the homologies among these strains were 80.9%-91.7%. The amino acid (aa) analysis of Nsp2 showed that four strains showed the same 30 aa deletion pattern as HP-PRRSV, and the other four strains showed the same 131 aa deletion pattern as NADC30. Among them, GZgy17 exhibited a novel "1+19+29 aa" deletion pattern. The ORF5 amino acid analysis showed that a new 1 aa deletion at site 33 was emerging in three isolates. Furthermore, recombination analysis showed that the eight strains exhibited six recombination patterns among different lineages:(1) SCnj16:L8+L1; (2) SCxyz17:L1+L5; (3) SCya18:L1+L3; (4) GZgy17:L8+L3; (5) SCcd16 and Cya17:L1+L8+L5; (6) SCcd16 and SCya17:L1+L8+L3. The results indicated that there are not only multiple lineages of PRRSV strains coexisted in Southwest China, but also complex genetic recombination patterns in the genomes of the isolates. The epidemic situation of PRRSV strains with the above complex genome in China deserves great attention.

Key words: porcine reproductive and respiratory syndrome virus, virus isolation and identification, whole genome, deletion, recombination

中图分类号:

S852.659.6

周泷, 康润敏, 张毅, 谢波, 于吉锋, 李春, 张斌, 汤承, 王红宁. 8株分离自四川、贵州地区猪繁殖与呼吸综合征病毒毒株的全基因组特征分析[J]. 畜牧兽医学报, 2020, 51(6): 1382-1390.

ZHOU Long, KANG Runmin, ZHANG Yi, XIE Bo, YU Jifeng, LI Chun, ZHANG Bin, TANG Cheng, WANG Hongning. Whole Genome Analysis of Eight Porcine Reproductive and Respiratory Syndrome Viruses Isolated in Sichuan and Guizhou Provinces[J]. Acta Veterinaria et Zootechnica Sinica, 2020, 51(6): 1382-1390.

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8株分离自四川、贵州地区猪繁殖与呼吸综合征病毒毒株的全基因组特征分析

Whole Genome Analysis of Eight Porcine Reproductive and Respiratory Syndrome Viruses Isolated in Sichuan and Guizhou Provinces

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