Comparative chloroplast genome analysis of seven extant Citrullus species insight into genetic variation, phylogenetic relationships, and selective pressure.
Comparative chloroplast genome analysis of seven extant Citrullus species insight into genetic variation, phylogenetic relationships, and selective pressure.
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DOI：
10.1038/s41598-023-34046-6
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发表时间：
2023-04-25
影响因子：
4.6
通讯作者：
中科院分区：
文献类型：
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作者：
西瓜属（Citrullus ecirrhosus）、西瓜属（Citrullus fragmii）和西瓜属（Citrullus naudinianus）3个重要的西瓜近缘野生种，其形态差异明显，但叶绿体基因组差异尚不清楚。本研究首次组装、分析并发表了完整的叶绿体基因组。ecirrhosus、隐翅虫C.和C. Naudinianus。结果表明，西瓜属植物基因组平均大小为157，005 bp，共鉴定出130-133个注释基因，其中8个rRNA、37个tRNA和85-88个蛋白质编码基因。它们的基因内容、顺序和基因组结构相似。然而，非编码区比编码区更发散，rps 16-trnQ是一个高变片段。共鉴定出34个多态性SSR、1,271个SNPs和234个INDEL。系统发育树显示了西瓜属物种之间清晰的系统发育关系，所开发的分子标记（SNPs和rps 16-trnQ）可用于西瓜属物种的分类。三个基因（atpB，clpP 1，和rpoC 2）进行选择，将促进西瓜的环境适应。
Citrullus ecirrhosus, Citrullus rehmii, and Citrullus naudinianus are three important related wild species of watermelon in the genus Citrullus, and their morphological differences are clear, however, their chloroplast genome differences remain unknown. This study is the first to assemble, analyze, and publish the complete chloroplast genomes of C. ecirrhosus, C. rehmii, and C. naudinianus. A comparative analysis was then conducted among the complete chloroplast genomes of seven extant Citrullus species, and the results demonstrated that the average genome sizes of Citrullus is 157,005 bp, a total of 130–133 annotated genes were identified, including 8 rRNA, 37 tRNA and 85–88 protein-encoding genes. Their gene content, order, and genome structure were similar. However, noncoding regions were more divergent than coding regions, and rps16-trnQ was a hypervariable fragment. Thirty-four polymorphic SSRs, 1,271 SNPs and 234 INDELs were identified. Phylogenetic trees revealed a clear phylogenetic relationship of Citrullus species, and the developed molecular markers (SNPs and rps16-trnQ) could be used for taxonomy in Citrullus. Three genes (atpB, clpP1, and rpoC2) were identified to undergo selection and would promote the environmental adaptation of Citrullus.
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DOI：
10.1093/plcell/koac056
发表时间：
2022-04-26
期刊：
The Plant cell
影响因子：
--
作者：
Gao Y;Thiele W;Saleh O;Scossa F;Arabi F;Zhang H;Sampathkumar A;Kühn K;Fernie A;Bock R;Schöttler MA;Zoschke R
通讯作者：
Zoschke R
影响因子：
5.4
作者：
Dane, F;Lang, P;Bakhtiyarova, R
通讯作者：
Bakhtiyarova, R
影响因子：
7.2
作者：
Huseini, H. Fallah;Darvishzadeh, F.;Larijani, B.
通讯作者：
Larijani, B.
影响因子：
1.2
作者：
Cingolani, Pablo;Platts, Adrian;Ruden, Douglas M.
通讯作者：
Ruden, Douglas M.
影响因子：
5.1
作者：
CHEN, ZJ;SCHERTZ, KF;HART, GE
通讯作者：
HART, GE