1株塞内卡病毒A型的基因组序列与演化分析

doi:10.11843/j.issn.0366-6964.2021.02.028

Abstract

Abstract: This study aimed to analyze genomic properties and evolution of a Senecavirus A (SVA) strain CH-HNCY-2019. Eight pairs of primers were designed based on the genome sequence of SVV-001 (GenBank No. NC011349) and fragments covering the whole genome of strain CH-HNCY-2019 were amplified by RT-PCR. The whole-genome sequence of CH-HNCY-2019 was determined and analyzed. Results showed that the complete genome of CH-HNCY-2019 is composed of 7 294 nucleotides. The phylogenetic evolutionary analysis of the entire genome demonstrated that CH-HNCY-2019 shares 95.9% to 99% nucleotide similarities with Chinese SVA isolates, and has the lowest nucleotide identity with the representative American strain SVV-001. The CH-HNCY-2019 strain has a close phylogenetic relationship with most of Chinese SVA isolates in 2017 and 2018 and a distant genetic relationship with SVA strains isolated in 2015 and 2016 in China. Comparing to the domestic and foreign isolates including four SVA strains isolated in Guangzhou, China in 2019, amino acid substitutions were observed in the CH-HNCY-2019 strain at VP1 position 722 (L to Q) and VP3 position 499 (A to V), 528 (P to S), and 582 (E to K). The whole-genome sequence of SVA CH-HNCY-2019 was successfully obtained in this study. Sequence analysis results implied the diversity and continuous evolution of current Chinese SVA isolates. SVA molecular epidemiological investigation is critical in comprehensive understanding of the prevalence of SVA in China and provides a solid background for formulating strict biosecurity management and vaccine development to prevent the widespread of SVA in Chinese pig herds.

Key words: Senecavirus A, RT-PCR amplification, SVA CH-HNCY-2019, genomic sequence analysis, genetic evolution

CLC Number:

S852.659.6

LI Ning, GUO Huifang, WANG Baiyu, QIAO Qilong, HUANG Qing, LI Yongtao, WANG Zeng, ZHAO Jun. Genome Sequencing and Phylogenetic Analysis of Senecavirus A, CH-HNCY-2019[J]. Acta Veterinaria et Zootechnica Sinica, 2021, 52(2): 553-559.

References 34

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Genome Sequencing and Phylogenetic Analysis of Senecavirus A, CH-HNCY-2019

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