Complete genome sequence of a novel bovine hepacivirus from Yunnan, China

• Published in: Archives of virology Vol. 165; no. 6; pp. 1489 - 1494
• Main Authors: Qiang, Xin, Shen, Xueying, Peng, Honghong, Guo, Xiaofang, He, Zhihai, Yao, Mingguo, Fu, Guozhang, Cui, Yujun, Zhang, Xianglilan, Huang, Yong, Fan, Hang, Du, Chunhong, Tong, Yigang, Mi, Zhiqiang
• Format: Journal Article
• Language: English
• Published: Vienna Springer Vienna 01.06.2020; Springer Nature B.V
• Subjects: Animals; Annotated Sequence Record; Base Sequence; Biomedical and Life Sciences; Biomedicine; Cattle - virology; China; Genetic Variation; Genome, Viral; Genomes; Genotype; Genotypes; Hepacivirus - classification; Hepacivirus - genetics; Hepacivirus - isolation & purification; Infectious Diseases; Medical Microbiology; Next-generation sequencing; Nucleotide sequence; Phylogeny; Sequence Analysis, DNA; Virology; Whole Genome Sequencing; China
• ISSN: 0304-8608; 1432-8798
• DOI: 10.1007/s00705-020-04611-9

We detected a novel bovine hepacivirus N (HNV) subtype, IME_BovHep_01, in the serum of cattle in Tengchong, Yunnan, China, by high-throughput sequencing. The complete genome of IME_BovHep_01, was sequenced using an Illumina MiSeq sequencer and found to be 8850 nt in length, encoding one hypothetical protein. BLASTn analysis showed that the genome sequence shared similarity with the bovine hepacivirus isolate BovHepV_209/Ger/2014, with 88% query coverage and 70.8% identity. However, the highest similarity was to bovine hepacivirus N strain BRBovHep_RS963, for which only a partial genome sequence is available, with 68% query coverage and 81.5% identity. Sequence comparisons and phylogenetic analysis suggested that IME_BovHep_01 is a novel HNV subtype. Importantly, IME_BovHep_01 is the first member of this new genotype for which the complete genome sequence was determined.