Liu Na, Niu Jianxin, Zhao Ying
Department of Horticultural, Agricultural College of Shihezi University, 832000 Shihezi, People's Republic of China.
Virus Genes. 2012 Feb;44(1):124-30. doi: 10.1007/s11262-011-0666-9. Epub 2011 Sep 11.
The complete genomic sequences of a Chinese ASPV isolates KL1 and KL9 were determined from ten overlapping cDNA clones. The genomes of both isolates were 9265 nucleotides excluding the poly (A) tail and contained five open reading frames (ORFs). The identities between two complete genomes were 92.5% at nt level. Multiple alignment of the amino acid sequences showed that 110 aa variations between two genomic sequences and the variable domains mainly distributed in 5'-terminal of ORF1, ORF3, and ORF5, respectively. Two complete genomic sequences shared 71.4-77.3% identities with other ASPV isolates at nt level. Phylogenetic relationship analysis of the coat protein genes revealed that ASPV isolates had high variables and formed three groups. All ASPV isolates from apples were clustered to group I, whereas pear were clustered to groups II (except NC_003462) and both KL1 and KL9 were clustered to group III. Nucleotide sequences diversity analysis showed that the between-population d(NS)/d(S) ratio 0.092 was similar to these for within-group (0.092-0.095); there was no geographic differentiation between ASPV isolates.
从十个重叠的 cDNA 克隆中测定了中国苹果茎痘病毒分离株 KL1 和 KL9 的完整基因组序列。两个分离株的基因组不包括 poly(A) 尾，长度均为 9265 个核苷酸，包含五个开放阅读框（ORF）。两个完整基因组在核苷酸水平上的同一性为 92.5%。氨基酸序列的多重比对显示，两个基因组序列之间有 110 个氨基酸变异，可变区分别主要分布在 ORF1、ORF3 和 ORF5 的 5' 端。两个完整基因组序列在核苷酸水平上与其他苹果茎痘病毒分离株的同一性为 71.4 - 77.3%。外壳蛋白基因的系统发育关系分析表明，苹果茎痘病毒分离株具有高度变异性，并形成了三个组。所有来自苹果的苹果茎痘病毒分离株聚集在第一组，而来自梨的分离株（除 NC_003462 外）聚集在第二组，KL1 和 KL9 都聚集在第三组。核苷酸序列多样性分析表明，群体间 d(NS)/d(S) 比值 0.092 与组内比值（0.092 - 0.095）相似；苹果茎痘病毒分离株之间没有地理分化。
