Complete chloroplast genomes of three sand-fixing Salix shrubs from Northwest China: comparative and phylogenetic analysis and interspecific identification
文献类型： 外文期刊
作者： Lu, Dongye 1 ; Huang, Haiguang 1 ; Zhang, Lei 4 ; Hao, Lei 5 ; Zhang, Guosheng 1 ;
作者机构： 1.Inner Mongolia Agr Univ, Coll Forestry, Hohhot 010019, Peoples R China
2.Beijing Acad Agr & Forestry Sci, Inst Forestry & Pomol, Beijing 100093, Peoples R China
3.Inner Mongolia Acad Forestry Sci, Hohhot 010010, Peoples R China
4.Chinese Acad Forestry, Res Inst Forestry, State Key Lab Tree Genet & Breeding, Key Lab Tree Breeding & Cultivat Natl Forestry & G, Beijing 100091, Peoples R China
5.Inner Mongolia Univ Finance & Econ, Coll Resources & Environm Econ, Hohhot 010051, Peoples R China
关键词： Salix gordejevii; Salix cheilophila; Salix psammophila; Chloroplast genome; Comparative analysis; Phylogenetic relationship
期刊名称：TREES-STRUCTURE AND FUNCTION （ 影响因子：2.3； 五年影响因子：2.6 ）
ISSN： 0931-1890
年卷期： 2023 年
页码：
收录情况： SCI
摘要： Key message By comparing the chloroplast genomes of three willows, it is found that the genome structure is relatively conservative, and the large variations are more derived from the noncoding regions. Salix L., the largest genus in Salicaceae, has great value in ecology and economy. Here, we compared the chloroplast genomes of three important sand-fixing shrubs of the genus Salix: Salix gordejevii (size: 155,279 bp); S. cheilophila (size: 155,322 bp); and S. psammophila (size: 155,278 bp). The quadripartite circular structures of these genome sequences have the same structure and gene contents with 84 protein-coding genes, 38 tRNA genes, and eight rRNA genes. Long repeats including forward and palindromic repeats were found in three plastomes. The mononucleotide simple sequence repeats (SSRs) were dominant and accounted for more than 64% in all three plastomes, whereas hexanucleotide SSRs existed only in S. gordejevii. The noncoding and intergenic regions have greater variations than the coding regions, and eight highly variable regions were identified within the Salix chloroplast genomes, which could be utilized as potential markers for phylogenetic studies and phylogeography. In addition, we found 34 indels with more than 5 bases, which can be used to further identify S. gordejevii and S. psammophila with similar morphologies. Phylogenetic analysis based on whole cp genomes showed that S. gordejevii and S. magnifica are closely related, S. psammophila was a sister to S. suchowensis, and S. cheilophila clustered with them. The completed genomes in this study provide useful genetic resources for future research on species identification, phylogenetic relationships, and the adaptive evolution of Salix species.
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