Sequence analysis of the complete genome of rice black-streaked dwarf virus isolated from maize with rough dwarf disease
Sequence analysis of the complete genome of rice black-streaked dwarf virus isolated from maize with rough dwarf disease
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DOI：
10.1023/a:1025776527286
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发表时间：
2003-10-01
期刊：
影响因子：
1.6
通讯作者：
Yu, JL
中科院分区：
文献类型：
--
作者：
Wang, ZH;Fang, SG;Yu, JL
测定了引起玉米粗缩病的水稻黑条矮缩病毒（RBSDV-Hbm）中国分离物的10个基因组片段（S1-S10）的全序列，共29, 142 bp。每个片段具有属特异性末端，保守的核苷酸序列为（+）5 '-AAGUUUU...... CAGCUNNNGUC-3'和紧邻末端保守序列的7至11个核苷酸的完全或不完全反向重复。虽然大多数RBSDV-Hbm片段的编码链包含一个开放阅读框（ORF），但在S7和S9中存在两个非重叠ORF，并且在S5中的主要ORF下游存在一个小的重叠ORF。同源性比较表明，S1编码RNA依赖的RNA聚合酶（RdRp），与斐济病病毒（FDV）和褐飞虱呼肠孤病毒（NLRV）编码的推定RdRp分别具有63.5%和32.6%的同一性。S2、S3和S4编码的蛋白质与FDV和NLRV相应片段编码的蛋白质具有不同程度的相似性。在S5和S6中，仅与FDV的同源性较低，而与NLRV的同源性不高。序列分析表明，RBSDV-Hbm与我国水稻分离物的基因组结构和编码区序列相似性最高，每对相应片段的核苷酸和氨基酸序列同源性分别为93.8%~ 98.9%和93.5%~ 100%。此外，系统发育分析表明，RBSDV-Hbm在斐济病毒中与RBSDV的进化关系最近。
The complete nucleotide sequences of 10 genomic segments (S1-S10) from an isolate of rice black-streaked dwarf virus causing rough dwarf disease on maize (RBSDV-Hbm) in China were determined, a total of 29,142 base pairs (bp). Each segment possessed the genus-specific termini with conserved nucleotide sequences of (+) 5'-AAGUUUUU......CAGCUNNNGUC-3' and a perfect or imperfect inverted repeat of seven to eleven nucleotides immediately adjacent to the terminal conserved sequence. While the coding strand of most RBSDV-Hbm segments contained one open reading frame (ORF), there were two non-overlapping ORFs in S7 and S9, and one small overlapping ORF downstream of the major ORF in S5. Homology comparisons suggest that S1 encodes a RNA-dependent RNA polymerase (RdRp), with 63.5% and 32.6% identity to the putative RdRp encoded by Fiji disease virus (FDV) and Nilaparvata lugens reovirus (NLRV), respectively. The proteins encoded by S2, S3, and S4 showed various degrees of similarity to those encoded by the corresponding segments of FDV or NLRV. In S5 and S6, low identities were found to those of FDV only, but not to NLRV. Sequence analyses showed that RBSDV-Hbm had the most similarities in the genome organizations and the coding assignments with a RBSDV isolated from rice in China, in which each pair of the corresponding segments shared sequence identities of 93.8-98.9% and 93.5-100% at nucleotide or amino acid levels, respectively. In addition, phylogenetic analyses suggested that RBSDV-Hbm had the closest evolutionary relationship to RBSDV in Fijivirus.