Comparative analysis of chloroplast genomes of two Chinese local citrus varieties and haplotype analysis with other citrus species
文献类型： 外文期刊
作者： Wang, Luoyun 1 ; Sun, Lifang 1 ; Xu, Jianguo 1 ; Nie, Zhenpeng 1 ; Huang, Xiu 1 ; Sun, Jianhua 1 ; Ke, Fuzhi 1 ;
作者机构： 1.Zhejiang Acad Agr Sci, Inst Citrus Res, Taizhou 318026, Zhejiang, Peoples R China
2.Natl Ctr Citrus Variety Improvement, Zhejiang Branch, Taizhou 318026, Peoples R China
关键词： Chloroplast genome; 'Tuju'; 'Zangju'; Citrus; Comparative analysis; Haplotype
期刊名称：SOUTH AFRICAN JOURNAL OF BOTANY （ 影响因子：3.1； 五年影响因子：3.1 ）
ISSN： 0254-6299
年卷期： 2023 年 162 卷
页码：
收录情况： SCI
摘要： Citrus plants, comprising some of the most widely cultivated fruit crops worldwide, have great research value. We assembled and annotated the chloroplast genomes of two local important citrus varieties of China, 'Tuju' and 'Zangju', and comparatively analyzed their sequences. The full lengths chloroplast genomes of 'Tuju' and 'Zangju' were 160,121 and 160,694 bp, respectively. Both featured a quadripartite structure with two copies of a large inverted repeat (IR) separated by small (SSC) and large (LSC) single-copy regions. 'Tuju' chloroplast genome contained 134 genes. 'Zangju' had one less protein-coding gene (rpl22) than 'Tuju'. We also found 27 and 21 optimal codons, all of which ended with A or U, for chloroplast protein-coding genes of 'Tuju' and 'Zangju', respectively. There were 32 haplotypes obtained from 43 citrus chloroplast genomes, some different species or cultivars could share one haplotype. Of them, 'Tuju', one individual of Citrus limon, one individual of Citrus maxima and Citrus platymamma shared one haplotype, which implied they had the same maternal origin. The phylogenetic trees supported that all haplotypes could be divided five groups, while haplotype network analysis tended to get three groups. Our study reveals the complex lineage rela-tionship of citrus plants at a certain level, and provides a valuable reference tool for future research on citrus plants.(c) 2023 Published by Elsevier B.V. on behalf of SAAB.
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