Next-Generation Genome Sequencing of <i>Sedum plumbizincicola</i> Sheds Light on the Structural Evolution of Plastid rRNA Operon and Phylogenetic Implications within Saxifragales
Hengwu Ding,
Ran Zhu,
Jinxiu Dong,
De Bi,
Lan Jiang,
Juhua Zeng,
Qingyu Huang,
Huan Liu,
Wenzhong Xu,
Longhua Wu,
Xianzhao Kan
Affiliations
Hengwu Ding
The Institute of Bioinformatics, College of Life Sciences, Anhui Normal University, Wuhu 241000, Anhui, China
Ran Zhu
The Institute of Bioinformatics, College of Life Sciences, Anhui Normal University, Wuhu 241000, Anhui, China
Jinxiu Dong
The Institute of Bioinformatics, College of Life Sciences, Anhui Normal University, Wuhu 241000, Anhui, China
De Bi
National Engineering Laboratory of Soil Pollution Control and Remediation Technologies, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, Jiangsu, China
Lan Jiang
The Institute of Bioinformatics, College of Life Sciences, Anhui Normal University, Wuhu 241000, Anhui, China
Juhua Zeng
The Institute of Bioinformatics, College of Life Sciences, Anhui Normal University, Wuhu 241000, Anhui, China
Qingyu Huang
The Institute of Bioinformatics, College of Life Sciences, Anhui Normal University, Wuhu 241000, Anhui, China
Huan Liu
National Engineering Laboratory of Soil Pollution Control and Remediation Technologies, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, Jiangsu, China
Wenzhong Xu
Key Laboratory of Plant Resources, Institute of Botany, Chinese Academy of Sciences, Beijing 100093, China
Longhua Wu
National Engineering Laboratory of Soil Pollution Control and Remediation Technologies, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, Jiangsu, China
Xianzhao Kan
The Institute of Bioinformatics, College of Life Sciences, Anhui Normal University, Wuhu 241000, Anhui, China
The genus Sedum, with about 470 recognized species, is classified in the family Crassulaceae of the order Saxifragales. Phylogenetic relationships within the Saxifragales are still unresolved and controversial. In this study, the plastome of S. plumbizincicola was firstly presented, with a focus on the structural analysis of rrn operon and phylogenetic implications within the order Saxifragaceae. The assembled complete plastome of S. plumbizincicola is 149,397 bp in size, with a typical circular, double-stranded, and quadripartite structure of angiosperms. It contains 133 genes, including 85 protein-coding genes (PCGs), 36 tRNA genes, 8 rRNA genes, and four pseudogenes (one ycf1, one rps19, and two ycf15). The predicted secondary structure of S. plumbizincicola 16S rRNA includes three main domains organized in 74 helices. Further, our results confirm that 4.5S rRNA of higher plants is associated with fragmentation of 23S rRNA progenitor. Notably, we also found the sequence of putative rrn5 promoter has some evolutionary implications within the order Saxifragales. Moreover, our phylogenetic analyses suggested that S. plumbizincicola had a closer relationship with S. sarmentosum than S. oryzifolium, and supported the taxonomic revision of Phedimus. Our findings of the present study will be useful for further investigation of the evolution of plastid rRNA operon and phylogenetic relationships within Saxifragales.
