背景:Synotis(C.B.Clarke)C.Jeffrey&Y.L.Chen是Senecioneae部落的生态重要属,菊科。因为该属的大多数物种具有相似的形态,传统的形态学识别方法很难对其进行区分。因此,开发一种可靠有效的Synotis物种鉴定方法至关重要。在这项研究中,完整的叶绿体(cp.)四种Synotis物种的基因组,S.卡瓦莱伊(H.列夫.)C.Jeffrey&Y.L.Chen,S.杜鲁尼(邓恩)C.杰弗里和陈永利,S、nagensium(C.B.Clarke)C.Jeffrey&Y.L.Chen和S.erythropappa(Bureau&Franch.)C.Jeffrey&Y.L.Chen已经使用下一代测序技术进行了测序,并在这里进行了报道。
结果:这四个cp。基因组表现出典型的四方结构,并包含大型单拷贝区域(LSC,83,288至83,399bp),小的单拷贝区域(SSC,18,262至18,287bp),和反向重复区(IR,24837至24842个基点)。四个cp中的每一个。基因组编码134个基因,包括87个蛋白质编码基因,37个tRNA基因,8个rRNA基因,和2个假基因(ycf1和rps19)。高度可变区(trnC-GCA-petN,ccsA-psaC,trnE-UUC-rpoB,ycf1,ccsA和petN)可用作潜在的分子条形码。完整的cp。Synotis的基因组序列可以作为潜在有效的超级条形码来准确识别Synotis物种。系统发育分析表明,这四个Synotis物种聚集成一个单系群,他们对Senecio关闭,仙人掌部落的十字头和树丛。
结论:这项研究将有助于进一步的物种鉴定,进化,该Synotis属和Senecioneae部落的遗传多样性和系统发育研究。
BACKGROUND: The Synotis (C. B. Clarke) C. Jeffrey & Y. L. Chen is an ecologically important genus of the tribe Senecioneae, family Asteraceae. Because most species of the genus bear similar morphology, traditional morphological identification methods are very difficult to discriminate them. Therefore, it is essential to develop a reliable and effective identification method for Synotis species. In this study, the complete chloroplast (cp.) genomes of four Synotis species, S. cavaleriei (H.Lév.) C. Jeffrey & Y.L. Chen, S. duclouxii (Dunn) C. Jeffrey & Y.L. Chen, S. nagensium (C.B. Clarke) C. Jeffrey & Y.L. Chen and S. erythropappa (Bureau & Franch.) C. Jeffrey & Y. L. Chen had been sequenced using next-generation sequencing technology and reported here.
RESULTS: These four cp. genomes exhibited a typical quadripartite structure and contained the large single-copy regions (LSC, 83,288 to 83,399 bp), the small single-copy regions (SSC, 18,262 to 18,287 bp), and the inverted repeat regions (IR, 24,837 to 24,842 bp). Each of the four cp. genomes encoded 134 genes, including 87 protein-coding genes, 37 tRNA genes, 8 rRNA genes, and 2 pseudogenes (ycf1 and rps19). The highly variable regions (trnC-GCA-petN, ccsA-psaC, trnE-UUC-rpoB, ycf1, ccsA and petN) may be used as potential molecular barcodes. The complete cp. genomes sequence of Synotis could be used as the potentially effective super-barcode to accurately identify Synotis species. Phylogenetic analysis demonstrated that the four Synotis species were clustered into a monophyletic group, and they were closed to the Senecio, Crassocephalum and Dendrosenecio in tribe Senecioneae.
CONCLUSIONS: This study will be useful for further species identification, evolution, genetic diversity and phylogenetic studies within this genus Synotis and the tribe Senecioneae.