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Next-Generation Genome Sequencing of Sedum plumbizincicola Sheds Light on the Structural Evolution of Plastid rRNA Operon and Phylogenetic Implications within Saxifragales

1
The Institute of Bioinformatics, College of Life Sciences, Anhui Normal University, Wuhu 241000, Anhui, China
2
The Provincial Key Laboratory of the Conservation and Exploitation Research of Biological Resources in Anhui, Wuhu 241000, Anhui, China
3
National Engineering Laboratory of Soil Pollution Control and Remediation Technologies, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, Jiangsu, China
4
Key Laboratory of Plant Resources, Institute of Botany, Chinese Academy of Sciences, Beijing 100093, China
*
Authors to whom correspondence should be addressed.
These authors equally contributed to this work.
Plants 2019, 8(10), 386; https://doi.org/10.3390/plants8100386
Received: 27 August 2019 / Revised: 27 September 2019 / Accepted: 28 September 2019 / Published: 29 September 2019
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. View Full-Text
Keywords: Sedum plumbizincicola; Crassulaceae; Saxifragales; rrn operon; phylogeny Sedum plumbizincicola; Crassulaceae; Saxifragales; rrn operon; phylogeny
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Ding, H.; Zhu, R.; Dong, J.; Bi, D.; Jiang, L.; Zeng, J.; Huang, Q.; Liu, H.; Xu, W.; Wu, L.; Kan, X. Next-Generation Genome Sequencing of Sedum plumbizincicola Sheds Light on the Structural Evolution of Plastid rRNA Operon and Phylogenetic Implications within Saxifragales. Plants 2019, 8, 386.

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