Epidemiological investigation and genetic evolutionary analysis of PRRSV-1 on a pig farm in China

Chao Li; Hu Xu; Jing Zhao; Bangjun Gong; Qi Sun; Lirun Xiang; Wansheng Li; Zhenyang Guo; Jinhao Li; Yan Dong Tang; Chaoliang Leng; Jinmei Peng; Qian Wang; Tongqing An; Xuehui Cai; Zhi Jun Tian; Guohui Zhou; Hongliang Zhang

doi:10.3389/fmicb.2022.1067173

Epidemiological investigation and genetic evolutionary analysis of PRRSV-1 on a pig farm in China

Chao Li, Hu Xu, Jing Zhao, Bangjun Gong, Qi Sun, Lirun Xiang, Wansheng Li, Zhenyang Guo, Jinhao Li, Yan Dong Tang, Chaoliang Leng, Jinmei Peng, Qian Wang, Tongqing An, Xuehui Cai, Zhi Jun Tian, Guohui Zhou, Hongliang Zhang

Research output: Contribution to journal › Article › peer-review

21 Scopus citations

Abstract

Porcine reproductive and respiratory syndrome virus (PRRSV) has brought serious economic losses to pig industry. PRRSV-1 have existed in China for more than 25 years. The prevalence and features of PRRSV-1 on Chinese farms are unclear. We continuously monitored PRRSV in a pig farm with strict biosafety measures in Henan Province, China, in 2020. The results showed that multiple types of PRRSV coexisted on this single pig farm. PRRSV-1 was one of the main circulating strains on the farm and was responsible for infections throughout nearly the entire epidemic cycle. Phylogenetic analysis showed that PRRSV-1 isolates from this pig farm formed an independent branch, with all isolates belonging to BJEU06-1-like PRRSV. The analysis of selection pressure on ORF5 on this branch identified 5 amino acids as positive selection sites, indicating that PRRSV-1 had undergone adaptive evolution on this farm. According to the analysis of ORF5 of PRRSV-1 on this farm, the evolutionary rate of the BJEU06-1-like branch was estimated to be 1.01 × 10⁻² substitutions/site/year. To further understand the genome-wide characteristics of PRRSV-1 on this pig farm, two full-length PRRSV-1 genomes representative of pig farms were obtained. The results of amino acid alignment revealed that although one NSP2 deletion was consistent with BJEU06-1, different new features were found in ORF3 and ORF4. According to the above results, PRRSV-1 has undergone considerable evolution in China. This study is the first to report the prevalence and characteristics of PRRSV-1 on a large farm in mainland China, which will provide a reference for the identification and further prevention and control of PRRSV-1.

Original language	English
Article number	1067173
Journal	Frontiers in Microbiology
Volume	13
DOIs	https://doi.org/10.3389/fmicb.2022.1067173
State	Published - 1 Dec 2022
Externally published	Yes

Keywords

Chinese pig farm
PRRSV-1
evolution and genetic diversity
first detection
main epidemic strain

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10.3389/fmicb.2022.1067173

Cite this

Li, C., Xu, H., Zhao, J., Gong, B., Sun, Q., Xiang, L., Li, W., Guo, Z., Li, J., Tang, Y. D., Leng, C., Peng, J., Wang, Q., An, T., Cai, X., Tian, Z. J., Zhou, G., & Zhang, H. (2022). Epidemiological investigation and genetic evolutionary analysis of PRRSV-1 on a pig farm in China. Frontiers in Microbiology, 13, Article 1067173. https://doi.org/10.3389/fmicb.2022.1067173

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title = "Epidemiological investigation and genetic evolutionary analysis of PRRSV-1 on a pig farm in China",

abstract = "Porcine reproductive and respiratory syndrome virus (PRRSV) has brought serious economic losses to pig industry. PRRSV-1 have existed in China for more than 25 years. The prevalence and features of PRRSV-1 on Chinese farms are unclear. We continuously monitored PRRSV in a pig farm with strict biosafety measures in Henan Province, China, in 2020. The results showed that multiple types of PRRSV coexisted on this single pig farm. PRRSV-1 was one of the main circulating strains on the farm and was responsible for infections throughout nearly the entire epidemic cycle. Phylogenetic analysis showed that PRRSV-1 isolates from this pig farm formed an independent branch, with all isolates belonging to BJEU06-1-like PRRSV. The analysis of selection pressure on ORF5 on this branch identified 5 amino acids as positive selection sites, indicating that PRRSV-1 had undergone adaptive evolution on this farm. According to the analysis of ORF5 of PRRSV-1 on this farm, the evolutionary rate of the BJEU06-1-like branch was estimated to be 1.01 × 10−2 substitutions/site/year. To further understand the genome-wide characteristics of PRRSV-1 on this pig farm, two full-length PRRSV-1 genomes representative of pig farms were obtained. The results of amino acid alignment revealed that although one NSP2 deletion was consistent with BJEU06-1, different new features were found in ORF3 and ORF4. According to the above results, PRRSV-1 has undergone considerable evolution in China. This study is the first to report the prevalence and characteristics of PRRSV-1 on a large farm in mainland China, which will provide a reference for the identification and further prevention and control of PRRSV-1.",

keywords = "Chinese pig farm, PRRSV-1, evolution and genetic diversity, first detection, main epidemic strain",

author = "Chao Li and Hu Xu and Jing Zhao and Bangjun Gong and Qi Sun and Lirun Xiang and Wansheng Li and Zhenyang Guo and Jinhao Li and Tang, {Yan Dong} and Chaoliang Leng and Jinmei Peng and Qian Wang and Tongqing An and Xuehui Cai and Tian, {Zhi Jun} and Guohui Zhou and Hongliang Zhang",

note = "Publisher Copyright: Copyright {\textcopyright} 2022 Li, Xu, Zhao, Gong, Sun, Xiang, Li, Guo, Li, Tang, Leng, Peng, Wang, An, Cai, Tian, Zhou and Zhang.",

year = "2022",

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doi = "10.3389/fmicb.2022.1067173",

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T1 - Epidemiological investigation and genetic evolutionary analysis of PRRSV-1 on a pig farm in China

AU - Li, Chao

AU - Xu, Hu

AU - Zhao, Jing

AU - Gong, Bangjun

AU - Sun, Qi

AU - Xiang, Lirun

AU - Li, Wansheng

AU - Guo, Zhenyang

AU - Li, Jinhao

AU - Tang, Yan Dong

AU - Leng, Chaoliang

AU - Peng, Jinmei

AU - Wang, Qian

AU - An, Tongqing

AU - Cai, Xuehui

AU - Tian, Zhi Jun

AU - Zhou, Guohui

AU - Zhang, Hongliang

PY - 2022/12/1

Y1 - 2022/12/1

N2 - Porcine reproductive and respiratory syndrome virus (PRRSV) has brought serious economic losses to pig industry. PRRSV-1 have existed in China for more than 25 years. The prevalence and features of PRRSV-1 on Chinese farms are unclear. We continuously monitored PRRSV in a pig farm with strict biosafety measures in Henan Province, China, in 2020. The results showed that multiple types of PRRSV coexisted on this single pig farm. PRRSV-1 was one of the main circulating strains on the farm and was responsible for infections throughout nearly the entire epidemic cycle. Phylogenetic analysis showed that PRRSV-1 isolates from this pig farm formed an independent branch, with all isolates belonging to BJEU06-1-like PRRSV. The analysis of selection pressure on ORF5 on this branch identified 5 amino acids as positive selection sites, indicating that PRRSV-1 had undergone adaptive evolution on this farm. According to the analysis of ORF5 of PRRSV-1 on this farm, the evolutionary rate of the BJEU06-1-like branch was estimated to be 1.01 × 10−2 substitutions/site/year. To further understand the genome-wide characteristics of PRRSV-1 on this pig farm, two full-length PRRSV-1 genomes representative of pig farms were obtained. The results of amino acid alignment revealed that although one NSP2 deletion was consistent with BJEU06-1, different new features were found in ORF3 and ORF4. According to the above results, PRRSV-1 has undergone considerable evolution in China. This study is the first to report the prevalence and characteristics of PRRSV-1 on a large farm in mainland China, which will provide a reference for the identification and further prevention and control of PRRSV-1.

AB - Porcine reproductive and respiratory syndrome virus (PRRSV) has brought serious economic losses to pig industry. PRRSV-1 have existed in China for more than 25 years. The prevalence and features of PRRSV-1 on Chinese farms are unclear. We continuously monitored PRRSV in a pig farm with strict biosafety measures in Henan Province, China, in 2020. The results showed that multiple types of PRRSV coexisted on this single pig farm. PRRSV-1 was one of the main circulating strains on the farm and was responsible for infections throughout nearly the entire epidemic cycle. Phylogenetic analysis showed that PRRSV-1 isolates from this pig farm formed an independent branch, with all isolates belonging to BJEU06-1-like PRRSV. The analysis of selection pressure on ORF5 on this branch identified 5 amino acids as positive selection sites, indicating that PRRSV-1 had undergone adaptive evolution on this farm. According to the analysis of ORF5 of PRRSV-1 on this farm, the evolutionary rate of the BJEU06-1-like branch was estimated to be 1.01 × 10−2 substitutions/site/year. To further understand the genome-wide characteristics of PRRSV-1 on this pig farm, two full-length PRRSV-1 genomes representative of pig farms were obtained. The results of amino acid alignment revealed that although one NSP2 deletion was consistent with BJEU06-1, different new features were found in ORF3 and ORF4. According to the above results, PRRSV-1 has undergone considerable evolution in China. This study is the first to report the prevalence and characteristics of PRRSV-1 on a large farm in mainland China, which will provide a reference for the identification and further prevention and control of PRRSV-1.

KW - Chinese pig farm

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JO - Frontiers in Microbiology

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Epidemiological investigation and genetic evolutionary analysis of PRRSV-1 on a pig farm in China

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Keywords

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