
中国蜜蜂西奈湖病毒基因组测序与系统发育分析
Complete genome sequences and phylogenetics of the Lake Sinai virus in China
张 祎;丁兆润;李文峰;韩日畴
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DOI:10.7679/j.issn.2095-1353.2020.109
作者单位:广东省生物资源应用研究所,广东省动物保护与资源利用重点实验室, 广东省野生动物保护与利用公共实验室,广州 510260;华南农业大学农学院,广州 510640
中文关键词:西方蜜蜂;西奈湖病毒;系统发育;基因组重组分析
英文关键词:Apis mellifera; Lake Sinai virus; phylogenetic analysis; recombination events
中文摘要:
【目的】 获得广东省西方蜜蜂Apis mellifera所携带西奈湖病毒(Lake Sinai virus,LSV)基因组全长序列,并进行系统发育分析,确定其分类地位。【方法】 利用Sanger测序得到广东省西方蜜蜂所携带的LSV基因组全长,命名为LSV GIABR并上传至GenBank。从基因库中下载28个LSV基因组全长序列,以及34条RDRP序列,利用软件MEGA.X,分别使用最大似然法(Maximum Likelihood)和邻接法(Neighbor-Joining)构建的系统发育树,确立LSV GIABR的分类地位。另外,使用软件RDP4.0分析基因组是否发生重组及重组位置。【结果】 LSV GIABR基因组全长5 910 nt,包含ORF1(基因组位置78- 2615),RDRP(1852-3720),核衣壳蛋白Capsid(3739-5301)和ORF4(5346-5798)。全基因组和RDRP基因系统发育分析确定LSV GIABR属于LSV2,基因组重组分析推测其可能是美国和澳大利亚的LSV2株系的母本。【结论】 从广东省西方蜜蜂检测到的LSV基因组全长为5 910 nt,属于LSV2,并可能是美国和澳大利亚的LSV2株系的母本。
英文摘要:
[Objectives] To obtain the
full-length genome sequence of the Lake Sinai virus (LSV) carried by Apis
mellifera in Guangdong Province, and investigate LSV polymorphism with
phylogenetic analysis. [Methods]
LSV GIABR was detected in
Guangdong, China in 2016. The full-length genome of this virus was sequenced
using Sanger sequencing and submitted to GenBank (accession number is
MT732482). Twenty-eight genome sequences and 34 RDRP sequences were downloaded
from GenBank, aligned and analyzed by MEGA.X using both the maximum likelihood
(ML) and neighbor-joining (NJ) methods. A recombination event was predicted by
RDP4.0. [Results] The complete genome sequence contained 5 910
nucleotides, with an ORF1 segment (genome position from 78 to 2615) overlapping
the RDRP segment (from 1852 to 3720), a capsid protein segment (from 3739 to
5301) and a hypothetical protein segment (from 5346 to 5798). Analysis of the
genome lineage, RDRP gene and recombination events suggest that LSV GIABR
belongs to SLV2
and is a putative, major, parental sequence of LSV2 isolates from the United
States and Australia. [Conclusion] LSV GIABR detected in A. mellifera in Guangdong,
China belongs to the LSV lineage 2, and is predicted to be a major
parental sequence of LSV2 isolates from the United States and Australia.