Complete Chloroplast Genome of Rhipsalis baccifera, the only Cactus with Natural Distribution in the Old World: Genome Rearrangement, Intron Gain and Loss, and Implications for Phylogenetic Studies.,Plants

当前位置： X-MOL 学术 › Plants › 论文详情

Our official English website, www.x-mol.net, welcomes your feedback! (Note: you will need to create a separate account there.)

Complete Chloroplast Genome of Rhipsalis baccifera, the only Cactus with Natural Distribution in the Old World: Genome Rearrangement, Intron Gain and Loss, and Implications for Phylogenetic Studies.
Plants ( IF 4.0 ) Pub Date : 2020-07-31 , DOI: 10.3390/plants9080979
Millicent Akinyi Oulo _{1,

2,

3} , Jia-Xin Yang _{1,

2,

3} , Xiang Dong _{1,

2,

3} , Vincent Okelo Wanga _{1,

2,

3} , Elijah Mbandi Mkala _{1,

2,

3} , Jacinta Ndunge Munyao _{1,

2,

3} , Victor Omondi Onjolo _{1,

2,

3} , Peninah Cheptoo Rono _{1,

2,

3} , Guang-Wan Hu _{1,

2} , Qing-Feng Wang _{1,

2}

Affiliation

Rhipsalis baccifera is the only cactus that naturally occurs in both the New World and the Old World, and has thus drawn the attention of most researchers. The complete chloroplast (cp) genome of R. baccifera is reported here for the first time. The cp genome of R. baccifera has 122, 333 base pairs (bp), with a large single-copy (LSC) region (81,459 bp), SSC (23,531 bp) and two inverted repeat (IR) regions each 8,530 bp. The genome contains 110 genes, with 73 protein-coding genes, 31 tRNAs, 4 rRNAs and 2 pseudogenes. Twelve genes have introns, with loss of introns being observed in, rpoc1clpP and rps12 genes. 49 repeat sequences and 62 simple sequence repeats (SSRs) were found in the genome. Comparative analysis with eight species of the ACPT (Anacampserotaceae, Cactaceae, Portulacaceae, and Talinaceae) clade of the suborder Portulacineae species, showed that R. baccifera genome has higher number of rearrangements, with a 19 gene inversion in its LSC region representing the most significant structural change in terms of its size. Inversion of the SSC region seems common in subfamily Cactoideae, and another 6 kb gene inversion between rbcL- trnM was observed in R. baccifera and Carnegiea gigantea. The IRs of R. baccifera are contracted. The phylogenetic analysis among 36 complete chloroplast genomes of Caryophyllales species and two outgroup species supported monophyly of the families of the ACPT clade. R. baccifera occupied a basal position of the family Cactaceae clade in the tree. A high number of rearrangements in this cp genome suggests a larger number mutation events in the history of evolution of R. baccifera. These results provide important tools for future work on R. baccifera and in the evolutionary studies of the suborder Portulacineae.

中文翻译：

Rhipsalis baccifera（旧世界唯一自然分布的仙人掌）的完整叶绿体基因组：基因组重排、内含子增益和丢失以及对系统发育研究的影响。

Rhipsalis baccifera是唯一一种同时在新大陆和旧大陆自然生长的仙人掌，因此引起了大多数研究人员的关注。本文首次报道了R. baccifera的完整叶绿体 (cp) 基因组。R. baccifera的 cp 基因组有 122、333 个碱基对 (bp)，其中有一个大的单拷贝 (LSC) 区域 (81,459 bp)、SSC (23,531 bp) 和两个反向重复 (IR) 区域，每个区域各 8,530 bp。基因组包含110个基因，其中73个蛋白质编码基因、31个tRNA、4个rRNA和2个假基因。12 个基因具有内含子，在rpoc1 clpP和rps12基因中观察到内含子丢失。在基因组中发现了 49 个重复序列和 62 个简单序列重复 (SSR)。与马齿苋亚目 ACPT 分支（Anacampserotaceae、Cactaceae、Portulacaceae 和 Talinaceae）8 个物种的比较分析表明，R. baccifera基因组具有较多的重排数量，其中 LSC 区域有 19 个基因倒位最为显着。规模上的结构性变化。SSC 区域的倒位在 Cactoideae 亚科中似乎很常见，并且在R. baccifera和Carnegiea gigantea中观察到rbcL-trnM之间的另一个 6 kb 基因倒位。R. baccifera的 IR是收缩的。对石竹目物种和两个外群物种的 36 个完整叶绿体基因组进行的系统发育分析支持 ACPT 分支家族的单系性。R. baccifera在树中占据仙人掌科分支的基础位置。该cp基因组中的大量重排表明在R. baccifera的进化史上存在大量的突变事件。这些结果为未来关于R. baccifera 的工作和马齿苋亚目的进化研究提供了重要的工具。

更新日期：2020-07-31

点击分享查看原文

点击收藏

公开下载

阅读更多本刊最新论文