干旱区生态环境知识资源中心(Arid): Comparative Chloroplast Genomics and Phylogenetic Analysis of Zygophyllum (Zygophyllaceae) of China

Arid

DOI	10.3389/fpls.2021.723622
	Comparative Chloroplast Genomics and Phylogenetic Analysis of Zygophyllum (Zygophyllaceae) of China
	Zhang, Ling; Wang, Shu; Su, Chun; Harris, A. J.; Zhao, Liang; Su, Na; Wang, Jun-Ru; Duan, Lei; Chang, Zhao-Yang
通讯作者	Chang, ZY (corresponding author), Northwest A&F Univ, Coll Life Sci, Yangling, Shaanxi, Peoples R China. ; Chang, ZY (corresponding author), Herbarium Northwest A&F Univ, Yangling, Shaanxi, Peoples R China. ; Duan, L (corresponding author), Chinese Acad Sci, Guangdong Prov Key Lab Appl Bot, South China Bot Garden, Guangzhou, Peoples R China.
来源期刊	FRONTIERS IN PLANT SCIENCE
ISSN	1664-462X
出版年	2021
卷号	12
英文摘要	The genus Zygophyllum comprises over 150 species within the plant family Zygophyllaceae. These species predominantly grow in arid and semiarid areas, and about 20 occur in northwestern China. In this study, we sampled 24 individuals of Zygophyllum representing 15 species and sequenced their complete chloroplast (cp) genomes. For comparison, we also sequenced cp genomes of two species of Peganum from China representing the closely allied family, Nitrariaceae. The 24 cp genomes of Zygophyllum were smaller and ranged in size from 104,221 to 106,286 bp, each containing a large single-copy (LSC) region (79,245-80,439 bp), a small single-copy (SSC) region (16,285-17,146 bp), and a pair of inverted repeat (IR) regions (3,792-4,466 bp). These cp genomes contained 111-112 genes each, including 74-75 protein-coding genes (PCGs), four ribosomal RNA genes, and 33 transfer RNA genes, and all cp genomes showed similar gene order, content, and structure. The cp genomes of Zygophyllum appeared to lose some genes such as ndh genes and rRNA genes, of which four rRNA genes were in the SSC region, not in the IR regions. However, the SC and IR regions had greater similarity within Zygophyllum than between the genus and Peganum. We detected nine highly variable intergenic spacers: matK-trnQ, psaC-rps15, psbZ-trnG, rps7-trnL, rps15-trnN, trnE-trnT, trnL-rpl32, trnQ-psbK, and trnS-trnG. Additionally, we identified 156 simple sequence repeat (cpSSR) markers shared among the genomes of the 24 Zygophyllum samples and seven cpSSRs that were unique to the species of Zygophyllum. These markers may be useful in future studies on genetic diversity and relationships of Zygophyllum and closely related taxa. Using the sequenced cp genomes, we reconstructed a phylogeny that strongly supported the division of Chinese Zygophyllum into herbaceous and shrubby clades. We utilized our phylogenetic results along with prior morphological studies to address several remaining taxonomic questions within Zygophyllum. Specifically, we found that Zygophyllum kaschgaricum is included within Zygophyllum xanthoxylon supporting the present treatment of the former genus Sarcozygium as a subgenus within Zygophyllum. Our results provide a foundation for future research on the genetic resources of Zygophyllum.
英文关键词	chloroplast genome comparative analysis phylogeny Zygophyllum Zygophyllaceae
类型	Article
语种	英语
开放获取类型	gold, Green Published
收录类别	SCI-E
WOS记录号	WOS:000704867400001
WOS关键词	PLASTID GENOMES ; TRNL-F ; DNA ; SEQUENCE ; EVOLUTION ; GENES ; IDENTIFICATION ; MITOCHONDRIAL ; ANGIOSPERMS ; SOFTWARE
WOS类目	Plant Sciences
WOS研究方向	Plant Sciences
来源机构	西北农林科技大学
资源类型	期刊论文
条目标识符	http://119.78.100.177/qdio/handle/2XILL650/363350
作者单位	[Zhang, Ling; Wang, Shu; Su, Chun; Zhao, Liang; Su, Na; Wang, Jun-Ru; Chang, Zhao-Yang] Northwest A&F Univ, Coll Life Sci, Yangling, Shaanxi, Peoples R China; [Zhang, Ling; Wang, Shu; Su, Chun; Zhao, Liang; Su, Na; Wang, Jun-Ru; Chang, Zhao-Yang] Herbarium Northwest A&F Univ, Yangling, Shaanxi, Peoples R China; [Zhang, Ling] Tarim Univ, Coll Life Sci, Alar, Peoples R China; [Zhang, Ling] Key Lab Biol Resource Protect & Utilizat Tarim Ba, Alar, Peoples R China; [Harris, A. J.; Duan, Lei] Chinese Acad Sci, Guangdong Prov Key Lab Appl Bot, South China Bot Garden, Guangzhou, Peoples R China
推荐引用方式 GB/T 7714	Zhang, Ling,Wang, Shu,Su, Chun,et al. Comparative Chloroplast Genomics and Phylogenetic Analysis of Zygophyllum (Zygophyllaceae) of China[J]. 西北农林科技大学,2021,12.
APA	Zhang, Ling.,Wang, Shu.,Su, Chun.,Harris, A. J..,Zhao, Liang.,...&Chang, Zhao-Yang.(2021).Comparative Chloroplast Genomics and Phylogenetic Analysis of Zygophyllum (Zygophyllaceae) of China.FRONTIERS IN PLANT SCIENCE,12.
MLA	Zhang, Ling,et al."Comparative Chloroplast Genomics and Phylogenetic Analysis of Zygophyllum (Zygophyllaceae) of China".FRONTIERS IN PLANT SCIENCE 12(2021).