Shen Liqun, Guan Qijie, Amin Awais, Zhu Wei, Li Mengzhu, Li Ximin, Zhang Lin, Tian Jingkui
Department of Biomedical Engineering, Zhejiang University, Hangzhou, 310027 China.
Changshu Qiushi Technology Co. Ltd., Changshu, 215500 China.
Springerplus. 2016 Nov 29;5(1):2036. doi: 10.1186/s40064-016-3702-3. eCollection 2016.
(Thunb.) Lindl (loquat) is an evergreen Rosaceae fruit tree widely distributed in subtropical regions. Its leaves are considered as traditional Chinese medicine and are of high medical value especially for cough and emesis. Thus, we sequenced the complete plastid genome of to better utilize this important species. The complete plastid genome of is 159,137 bp in length, which contains a typical quadripartite structure with a pair of inverted repeats (IR, 26,326 bp) separated by large (LSC, 89,202 bp) and small (SSC, 19,283 bp) single-copy regions. The plastid genome encodes 112 unique genes which consist of 78 protein-coding genes, 30 tRNA genes and 4 rRNA genes. Gene structure and content of plastid genome are quite conserved and show similarity among Rosaceous species. Five large indels are unique to in comparison with and , which could be utilized as molecular markers. A total of 72 simple sequence repeats (SSRs) were detected and most of them are mononucleotide repeats composed of A or T, indicating a strong A or T bias for base composition. The Ka and Ks ratios of most genes are lower than 1, which suggests that most genes are under purifying selection. The phylogenetic analysis described the evolutionary relationship within Rosaceae and fully supported a close relationship between and
（枇杷）林德利（枇杷）是一种常绿蔷薇科果树，广泛分布于亚热带地区。其叶子被视为传统中药，具有很高的药用价值，尤其对咳嗽和呕吐有疗效。因此，我们对其完整的叶绿体基因组进行了测序，以便更好地利用这一重要物种。枇杷的完整叶绿体基因组长度为159,137碱基对，包含一个典型的四分体结构，有一对反向重复序列（IR，26,326碱基对），由大单拷贝区域（LSC，89,202碱基对）和小单拷贝区域（SSC，19,283碱基对）隔开。枇杷叶绿体基因组编码112个独特基因，包括78个蛋白质编码基因、30个tRNA基因和4个rRNA基因。枇杷叶绿体基因组的基因结构和含量相当保守，在蔷薇科物种中表现出相似性。与其他物种相比，有五个大的插入缺失是枇杷特有的，可作为分子标记。共检测到72个简单序列重复（SSR），其中大部分是由A或T组成的单核苷酸重复，表明碱基组成存在强烈的A或T偏好。大多数基因的Ka和Ks比值低于1，这表明大多数基因受到纯化选择。系统发育分析描述了蔷薇科内的进化关系，并充分支持了枇杷与其他物种之间的密切关系。
