The First Complete Chloroplast Genome Sequences in Actinidiaceae: Genome Structure and Comparative Analysis

doi:10.1371/journal.pone.0129347

CORC > 武汉植物园 > 中国科学院武汉植物园

	The First Complete Chloroplast Genome Sequences in Actinidiaceae: Genome Structure and Comparative Analysis
	Yao, Xiaohong 1; Tang, Ping 1; Li, Zuozhou 1; Li, Dawei 1; Liu, Yifei 2; Huang, Hongwen 1,2
刊名	PLOS ONE
	2015-06-05
卷号	10 期号:6 页码:14
ISSN号	1932-6203
DOI	10.1371/journal.pone.0129347
英文摘要	Actinidia chinensis is an important economic plant belonging to the basal lineage of the asterids. Availability of a complete Actinidia chloroplast genome sequence is crucial to understanding phylogenetic relationships among major lineages of angiosperms and facilitates kiwifruit genetic improvement. We report here the complete nucleotide sequences of the chloroplast genomes for Actinidia chinensis and A. chinensisvar deliciosa obtained through de novo assembly of Illumina paired-end reads produced by total DNA sequencing. The total genome size ranges from 155,446 to 157,557 bp, with an inverted repeat (IR) of 24,013 to 24,391 bp, a large single copy region (LSC) of 87,984 to 88,337 bp and a small single copy region (SSC) of 20,332 to 20,336 bp. The genome encodes 113 different genes, including 79 unique protein-coding genes, 30 tRNA genes and 4 ribosomal RNA genes, with 16 duplicated in the inverted repeats, and a tRNA gene (trnfM-CAU) duplicated once in the LSC region. Comparisons of IR boundaries among four asterid species showed that IR/LSC borders were extended into the 5'portion of the psbAgene and IR contraction occurred in Actinidia. The clap gene has been lost from the chloroplast genome in Actinidia, and may have been transferred to the nucleus during chloroplast evolution. Twenty-seven polymorphic simple sequence repeat (SSR) loci were identified in the Actinidia chloroplast genome. Maximum parsimony analyses of a 72-gene, 16 taxa angiosperm dataset strongly support the placement of Actinidiaceae in Ericales within the basal asterids.
资助项目	Natural Scientific Foundation of China[31370251] ; Fund of Science and Technology Service, Chinese Academy of Sciences[KFJ-EW-STS-076]
WOS研究方向	Science & Technology - Other Topics
语种	英语
出版者	PUBLIC LIBRARY SCIENCE
WOS记录号	WOS:000355652200155
内容类型	期刊论文
源URL	[http://202.127.146.157/handle/2RYDP1HH/250]
专题	中国科学院武汉植物园
通讯作者	Huang, Hongwen
作者单位	1.Chinese Acad Sci, Key Lab Plant Germplasm Enhancement & Special Agr, Wuhan Bot Garden, Wuhan 430074, Hubei, Peoples R China 2.Chinese Acad Sci, Key Lab Plant Resources Conservat & Sustainable U, South China Bot Garden, Guangzhou 510650, Guangdong, Peoples R China
推荐引用方式 GB/T 7714	Yao, Xiaohong,Tang, Ping,Li, Zuozhou,et al. The First Complete Chloroplast Genome Sequences in Actinidiaceae: Genome Structure and Comparative Analysis[J]. PLOS ONE,2015,10(6):14.
APA	Yao, Xiaohong,Tang, Ping,Li, Zuozhou,Li, Dawei,Liu, Yifei,&Huang, Hongwen.(2015).The First Complete Chloroplast Genome Sequences in Actinidiaceae: Genome Structure and Comparative Analysis.PLOS ONE,10(6),14.
MLA	Yao, Xiaohong,et al."The First Complete Chloroplast Genome Sequences in Actinidiaceae: Genome Structure and Comparative Analysis".PLOS ONE 10.6(2015):14.