桑叶葡萄叶绿体基因组及其特征分析

桑叶葡萄(Vitis ficifolia)是中国重要的葡萄属野生资源。以桑叶葡萄'九里沟桑4号'为试验材料,利用Illumina HiSeq PE150测序平台完成了其全基因组重测序,并组装了其叶绿体基因组。注释结果表明,桑叶葡萄叶绿体基因组全长160 751 bp,呈典型的四分体结构,其大单拷贝区(large single copy,LSC)、反向重复序列(inverted repeat,IR)和小单拷贝区(small single copy, SSC)的长度分别为88 971、26 355和19 070 bp。注释共得到133个基因,包含88个蛋白编码基因,8个rRNA基因,37个tRNA基因。在桑叶葡萄中共搜索到84个SSR位点,其中单核苷酸、二核苷酸、三核苷酸、四核苷酸和五核苷酸重复基序个数分别为55、8、9、9和3个。用MEGA软件,通过邻接法对包括5个葡萄种类的32个种的叶绿体基因组序列进行聚类分析,结果表明,桑叶葡萄与山葡萄(Vitis amurensis)、欧亚种'黑比诺'(V.vinifera'Pinot Noir')、夏葡萄(V.aestivalis)以及圆叶葡萄(V.rotundifolia)具有较近的亲缘关系。

Complete Chloroplast Genome Sequence and Characteristics Analysis of Vitis ficifolia

Vitis ficifolia is an important wild resource in China. In this study，the whole genome resequencing of V. ficifolia was completed using Illumina HiSeq PE150 sequencing platform. The chloroplast genome was assembled. The results of the annotation indicated that the chloroplast genome of V. ficifolia has a total length of 160 751 bp，which is a typical tetrad structure. The length of LSC，IR and SSC regions are 88 971，26 355 and 19 070 bp，respectively. The chloroplast genome contains a total of 133 genes，including 88 protein-coding genes，8 rRNA genes，and 37 tRNA genes. We found 84 SSR loci in the V. ficifolia chloroplast genome，of which the number of mononucleotide，dinucleotide，trinucleotide，tetranucleotide and pentanucleotide repeat motifs was 55，8，9，9 and 3，respectively. The NJ tree using chloroplast genome sequences of 32 species including 5 Vitis species was contrusted by MEGA software. The results showed that V. ficifolia had a close genetic relationship with V. amurensis，Pinot Noir（V. vinifera），V. aestivalis and V. rotundifolia.