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SSR identification and phylogenetic analysis in four plant species based on complete chloroplast genome sequences

文献类型： 外文期刊

作者： Zhu, Yueyi 1 ; Zhang, Xianwen 2 ; Yan, Shufeng 3 ; Feng, Chen 4 ; Wang, Dongfang 1 ; Yang, Wei 5 ; Daud, Muhammad Khan 6 ; Xiang, Jiqian 7 ; Mei, Lei 7 ;

作者机构： 1.Zhejiang Univ, Coll Agr & Biotechnol, Hangzhou 310058, Peoples R China

2.Zhejiang Acad Agr Sci, Inst Virol & Biotechnol, Hangzhou 310021, Peoples R China

3.Henan Acad Agr Sci, Cereal Crops Res Inst, Zhengzhou 450002, Peoples R China

4.Chinese Acad Sci, Lushan Bot Garden, Lushan 330000, Peoples R China

5.Yangtze Univ, Coll Hort & Gardening, Jingzhou 434025, Peoples R China

6.Kohat Univ Sci & Technol, Dept Biotechnol & Genet Engn, Kohat 26000, Pakistan

7.Enshi Tujia & Miao Autonomous Prefecture Acad Agr, Enshi 445000, Peoples R China

8.Senium Sci Dev Zhejiang Co Ltd, Ctr Res & Dev, Hangzhou 311121, Peoples R China

关键词： Chloroplast genome; Machilusleptophylla; Hanceola exserta; Rubus bambusarum; Rubus henryi; Simple sequence repeat; Phylogenetic analysis

期刊名称：PLASMID （ 影响因子：2.6； 五年影响因子：3.0 ）

ISSN： 0147-619X

年卷期： 2023 年 125 卷

页码：

收录情况： SCI

摘要： The effective utilization of traditional Chinese medicine (TCM) has been challenged by the difficulty to accu-rately distinguish between similar plant varieties. The stability and conservation of the chloroplast genome can aid in resolving genotypes. Previous studies using nuclear sequences and molecular markers have not effectively differentiated the species from related taxa, such as Machilus leptophylla, Hanceola exserta, Rubus bambusarum, and Rubus henryi. This study aimed to characterize the chloroplast genomes of these four plant species, and analyze their simple sequence repeats (SSRs) and phylogenetic positions. The results demonstrated the four chloroplast genomes consisted of 152.624 kb, 153.296 kb, 156.309 kb, and 158.953 kb in length, involving 124, 130, 129, and 131 genes, respectively. They also contained four specific regions with mononucleotide being the class with the most members. Moreover, these repeating types of SSR were various in individual class. Phylo-genetic analysis showed that M. leptophylla was clustered with M. yunnanensis, and H. exserta was confirmed as belonging to the family Ocimeae. Additionally, R. bambusarum and R. henryi were grouped together but differed in their SSR features, indicating that they were not the same species. This research provides evidence for resolving species and contributes new genetic information for further studies.

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