牛流行热病毒分离株HN1/2012的全基因组序列测定及演化分析

doi:10.11843/j.issn.0366-6964.2018.10.018

Abstract

Abstract:

This study focused on determination of the genomic character of bovine ephemeral fever virus (BEFV) strain HN1/2012, which provided data for clarifying the genetic evolution of domestic strains of BEFV in China. Based on the complete genome of BEFV strains deposited in GenBank, eleven sets of primers were designed and used for RT-PCR for eleven overlapped DNA fragments. The obtained fragments were cloned to pGEM T-easy for sequencing and then assembled to obtain the complete genome sequence of the strain HN1/2012, using the DNAstar software. Individual genes and the corresponding open reading frames (ORF) were determined based on the transcription initiation (TI) and transcription termination/polyadenylation (TTP) sequences. The evolutionary relationships between the strain HN1/2012 and the referenced BEFV strains were analyzed based on the sequence similarities and phylogenetic tree constructed based on the G gene sequences. The results showed that the genome of HN1/2012 strain is 14 899 nt in length, comprising a leader sequence (50 nt), N gene (1 328 nt), P gene (858 nt), M gene (691 nt), G gene (1 896 nt), G_NS gene (1 785 nt), α1α2 gene (638 nt), β gene (459 nt), γ gene (400 nt), L gene (6 470 nt), and a trailer sequence (70 nt). The nine genes were separated by intergenic regions (IGRs) of 26, 43, 47, 53, 37, 39, 30 and -21 nt. At genomic level, HN1/2012 demonstrated the highest similarity with JT02L that was isolated form Zhejiang in 2002, but its G gene had highest similarity with epidemic strains LYC11 and LS11 that circulated over the same period. Gene recombination was not found in HN1/2012 by recombination analysis, indicating that gene mutation promoted by immune selection pressure may account for the evolution of HN1/2012. The genomic sequence of bovine ephemeral fever virus strain HN1/2012 was determined in the present study, which may lay a foundation for evolution analysis of BEFV based on complete genome in China.

CLC Number:

S852.659.5

GAO Shan-dian, WANG Ji-dong, DU Jun-zheng, ZHENG Fu-ying, TIAN Zhan-cheng, YIN Hong. The Complete Genome Sequence Determination and Evolutionary Analysis of Bovine Ephemeral Fever Virus Strain HN1/2012[J]. ACTA VETERINARIA ET ZOOTECHNICA SINICA, 2018, 49(10): 2223-2231.

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The Complete Genome Sequence Determination and Evolutionary Analysis of Bovine Ephemeral Fever Virus Strain HN1/2012

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