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The complete plastome of Sorbaria kirilowii : genome structure, comparative analysis, and phylogenetic implications
Molecular Biology Reports ( IF 2.8 ) Pub Date : 2020-11-07 , DOI: 10.1007/s11033-020-05976-5
Le Wang , Jian Liang , Qianhan Shang , Wei Sa , Li Wang

Sorbaria kirilowii is a deciduous perennial admired for its showy white blossoms. Though of importance for horticultural purposes, the plastomic study concerning this species is still lacking. Here, the plastome of S. kirilowii was de novo assembled using the high-throughput sequencing data. The complete plastome assembly of S. kirilowii was 160,810 bp in length, with a GC content of 36.03%. It featured a typical quadripartite structure, containing a pair of inverted repeats (IRs; 26,338 bp) separated by a large single-copy (LSC; 88,762 bp) and a small single-copy (SSC, 19,372 bp). In total, 132 genes were annotated in the plastome, including 87 protein-coding genes, 8 rRNA genes, and 37 tRNA genes. Furthermore, 63 SSRs, most of which were AT-rich, were identified in the cp genome of S. kirilowii. 71.7% of the cpSSRs were shown to be located in the intergenic regions. In addition, 49 repeats of varying sizes and types were also identified in the plastome. Through comparison, eight divergence hotspots were identified between the plastome of S. kirilowii and S. sorbifolia var. stellipila. These variable regions could potentially be developed into molecular markers for species delimitation or phylogenetics in future studies. We re-investigated the relationship among 17 Rosaceae species using the plastomic sequences, and S. kirilowii was shown to be a sister to S. sorbifolia var. stellipila. Overall, this study provides plastomic resources which could facilitate marker development and phylogenomics of Rosaceae.



中文翻译:

Sorbaria kirilowi​​i的完整质体组:基因组结构,对比分析和系统发生意义

Sorbaria kirilowi​​i是多年生落叶落叶,因其艳丽的白色花朵而备受钦佩。尽管对于园艺目的很重要,但仍缺乏有关该物种的质体研究。在这里,使用高通量测序数据从头组装了S. kirilowi​​i的质体。S. kirilowi​​i的完整质体组装长度为160,810 bp,GC含量为36.03%。它具有典型的四方结构,包含一对反向重复序列(IR; 26,338 bp),由大的单拷贝(LSC; 88,762 bp)和小的单拷贝(SSC,19,372 bp)分隔。共有132个基因在质体组中被注释,包括87个蛋白质编码基因,8个rRNA基因和37个tRNA基因。此外,在S. kirilowi​​i的cp基因组中鉴定出63种SSR,其中大多数富含AT 。已显示71.7%的cpSSR位于基因间区域。另外,在塑性组中还鉴定出49个不同大小和类型的重复序列。通过比较,在S. kirilowi​​iS. sorbifolia var的质体组之间发现了八个发散热点。斯泰利皮拉。这些可变区有可能在未来的研究中发展成为物种界定或系统发育的分子标记。我们使用质体序列重新研究了17个蔷薇科物种之间的关系,而S. kirilowi​​i被证明是S. sorbifolia var的姐妹。斯泰利皮拉。总体而言,这项研究提供了可促进酒渣鼻的标记发育和系统发育组学的质体资源。

更新日期:2020-11-09
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