Comparative Plastomes and Phylogenetic Analysis of Cleistogenes and Closely Related Genera (Poaceae)

doi:10.3389/fpls.2021.638597

	Comparative Plastomes and Phylogenetic Analysis of Cleistogenes and Closely Related Genera (Poaceae)
	Wang, Rong ; Liu, Kuan ; Zhang, Xue-Jie ; Chen, Wen-Li ; Qu, Xiao-Jian ; Fan, Shou-Jin
	2021
发表期刊	FRONTIERS IN PLANT SCIENCE
ISSN	1664-462X
卷号	12
摘要	Cleistogenes (Orininae, Cynodonteae, Chloridoideae, Poaceae) is an ecologically important genus. The phylogenetic placement of Cleistogenes and phylogenetic relationships among Cleistogenes taxa remain controversial for a long time. To resolve the intra- and inter-generic relationships of Cleistogenes, the plastomes of 12 Cleistogenes taxa (including 8 species and 4 varieties), one Orinus species, 15 Triodia species, two Tripogon species, and two Aeluropus species were included in the present study. All the taxa showed a similar pattern in plastome structure, gene order, gene content, and IR boundaries. The number of simple sequence repeats ranged from 145 (O. kokonorica) to 161 (T. plurinervata and T. schinzii). Moreover, 1,687 repeats were identified in these taxa, including 1,012 forward, 650 palindromic, 24 reverse, and one complement. Codon usage analysis revealed that these plastomes contained 16,633 (T. stipoides) to 16,678 (T. tomentosa) codons. Sequence divergence analysis among Cleistogenes and closely related genera identified five non-coding regions (trnS-UGA-psbZ, rpl32-trnL-UAG, trnQ-UUG-psbK, trnD-GUC-psbM, trnT-GGU-trnE-UUC). Phylogenetic analysis of complete plastomes indicated that Cleistogenes is sister to a clade composed of Orinus and Triodia, whereas it did not support the sister relationship between the recently proposed subtribe Orininae (Cleistogenes and Orinus) and Triodia. The subtribe Orininae was not supported by our complete plastome data. The split between Cleistogenes and Orinus-Triodia clade go back to 14.01 Ma. Besides, our findings suggested that C. squarrosa and C. songorica are the successive early diverging groups in the phylogenetic analysis. The other 10 taxa are divided into two groups: a monophyletic group composed of Cleistogenes sp. nov. and C. caespitosa var. ramosa is sister to other eight Cleistogenes taxa. Cleistogenes was estimated to have experienced rapid divergence within a short period, which could be a major obstacle in resolving phylogenetic relationships within Cleistogenes. Collectively, our results provided valuable insights into the phylogenetic study of grass species.
关键词	Cleistogenes comparative genomics plastome evolution molecular marker phylogenetic relationships
学科领域	Plant Sciences
DOI	10.3389/fpls.2021.638597
收录类别	SCI
语种	英语
WOS关键词	CHLOROPLAST GENOME ; GRASSES POACEAE ; CODON USAGE ; MOLECULAR PHYLOGENY ; INVERTED REPEAT ; PLASTID GENOME ; PATTERNS ; CLASSIFICATION ; CHLORIDOIDEAE ; EVOLUTION
WOS研究方向	Science Citation Index Expanded (SCI-EXPANDED)
WOS记录号	WOS:000637888100001
出版者	FRONTIERS MEDIA SA
文献子类	Article
出版地	LAUSANNE
资助机构	National Natural Science Foundation of China [31170173, 31470298]
作者邮箱	quxiaojian@sdnu.edu.cn ; fansj@sdnu.edu.cn
作品OA属性	Green Published, gold
引用统计	被引频次：5[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.ibcas.ac.cn/handle/2S10CLM1/26607
专题	系统与进化植物学国家重点实验室
作者单位	1.[Wang, Rong 2.Liu, Kuan 3.Zhang, Xue-Jie 4.Qu, Xiao-Jian 5.Shandong Normal Univ, Coll Life Sci, Shandong Prov Key Lab Plant Stress Res, Jinan, Peoples R China 6.Chinese Acad Sci, Inst Bot, State Key Lab Systemat & Evolutionary Bot, Beijing, Peoples R China
推荐引用方式 GB/T 7714	Wang, Rong,Liu, Kuan,Zhang, Xue-Jie,et al. Comparative Plastomes and Phylogenetic Analysis of Cleistogenes and Closely Related Genera (Poaceae)[J]. FRONTIERS IN PLANT SCIENCE,2021,12.
APA	Wang, Rong,Liu, Kuan,Zhang, Xue-Jie,Chen, Wen-Li,Qu, Xiao-Jian,&Fan, Shou-Jin.(2021).Comparative Plastomes and Phylogenetic Analysis of Cleistogenes and Closely Related Genera (Poaceae).FRONTIERS IN PLANT SCIENCE,12.
MLA	Wang, Rong,et al."Comparative Plastomes and Phylogenetic Analysis of Cleistogenes and Closely Related Genera (Poaceae)".FRONTIERS IN PLANT SCIENCE 12(2021).

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