Chloroplast Genome Evolution in Actinidiaceae: clpP Loss, Heterogenous Divergence and Phylogenomic Practice

doi:10.1371/journal.pone.0162324

	Chloroplast Genome Evolution in Actinidiaceae: clpP Loss, Heterogenous Divergence and Phylogenomic Practice
	Wang, Wen-Cai; Chen, Si-Yun; Zhang, Xian-Zhi
	2016-09-02
发表期刊	PLOS ONE
卷号	11 期号:9
摘要	Actinidiaceae is a well-known economically important plant family in asterids. To elucidate the chloroplast (cp) genome evolution within this family, here we present complete genomes of three species from two sister genera (Clematoclethra and Actinidia) in the Actinidiaceae via genome skimming technique. Comparative analyses revealed that the genome structure and content were rather conservative in three cp genomes in spite of different inheritance pattern, i.e. paternal in Actinidia and maternal in Clematoclethra. The clpP gene was lacked in all the three sequenced cp genomes examined here indicating that the clpP gene loss is likely a conspicuous synapomorphic characteristic during the cp genome evolution of Actinidiaceae. Comprehensive sequence comparisons in Actinidiaceae cp genomes uncovered that there were apparently heterogenous divergence patterns among the cpDNA regions, suggesting a preferred data-partitioned analysis for cp phylogenomics. Twenty non-coding cpDNA loci with fast evolutionary rates are further identified as potential molecular markers for systematics studies of Actinidiaceae. Moreover, the cp phylogenomic analyses including 31 angiosperm plastomes strongly supported the monophyly of Actinidia, being sister to Clematoclethra in Actinidiaceae which locates in the basal asterids, Ericales.
DOI	10.1371/journal.pone.0162324
收录类别	SCI
语种	英语
WOS记录号	WOS:000382877800051
引用统计
文献类型	期刊论文
条目标识符	http://ir.kib.ac.cn/handle/151853/28612
专题	中国西南野生生物种质资源库
推荐引用方式 GB/T 7714	Wang, Wen-Cai,Chen, Si-Yun,Zhang, Xian-Zhi. Chloroplast Genome Evolution in Actinidiaceae: clpP Loss, Heterogenous Divergence and Phylogenomic Practice[J]. PLOS ONE,2016,11(9).
APA	Wang, Wen-Cai,Chen, Si-Yun,&Zhang, Xian-Zhi.(2016).Chloroplast Genome Evolution in Actinidiaceae: clpP Loss, Heterogenous Divergence and Phylogenomic Practice.PLOS ONE,11(9).
MLA	Wang, Wen-Cai,et al."Chloroplast Genome Evolution in Actinidiaceae: clpP Loss, Heterogenous Divergence and Phylogenomic Practice".PLOS ONE 11.9(2016).

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