Comparative chloroplast genomes of Paris Sect. Marmorata: insights into repeat regions and evolutionary implications | |
Gao, Xiaoyang; Zhang, Xuan2; Meng, Honghu1; Li, Jing2; Zhang, Di2; Liu, Changning | |
刊名 | BMC GENOMICS |
2018 | |
卷号 | 19期号:x页码:- |
关键词 | Microsatellite Loci Substitution Rates Sequence Protein Software Tools Angiosperms Expression Mutations Program |
ISSN号 | 1471-2164 |
DOI | 10.1186/s12864-018-5281-x |
英文摘要 | BackgroundSpecies of Paris Sect. Marmorata are valuable medicinal plants to synthesize steroidal saponins with effective pharmacological therapy. However, the wild resources of the species are threatened by plundering exploitation before the molecular genetics studies uncover the genomes and evolutionary significance. Thus, the availability of complete chloroplast genome sequences of Sect. Marmorata is necessary and crucial to the understanding the plastome evolution of this section and facilitating future population genetics studies. Here, we determined chloroplast genomes of Sect. Marmorata, and conducted the whole chloroplast genome comparison.ResultsThis study presented detailed sequences and structural variations of chloroplast genomes of Sect. Marmorata. Over 40 large repeats and approximately 130 simple sequence repeats as well as a group of genomic hotspots were detected. Inverted repeat contraction of this section was inferred via comparing the chloroplast genomes with the one of P. verticillata. Additionally, almost all the plastid protein coding genes were found to prefer ending with A/U. Mutation bias and selection pressure predominately shaped the codon bias of most genes. And most of the genes underwent purifying selection, whereas photosynthetic genes experienced a relatively relaxed purifying selection.ConclusionsRepeat sequences and hotspot regions can be scanned to detect the intraspecific and interspecific variability, and selected to infer the phylogenetic relationships of Sect. Marmorata and other species in subgenus Daiswa. Mutation and natural selection were themain forces to drive the codon bias pattern of most plastid protein coding genes. Therefore, this study enhances the understanding about evolution of Sect. Marmorata from the chloroplast genome, and provide genomic insights into genetic analyses of Sect. Marmorata. |
学科主题 | Biotechnology & Applied Microbiology ; Genetics & Heredity |
语种 | 英语 |
WOS记录号 | WOS:000454632500010 |
内容类型 | 期刊论文 |
源URL | [http://ir.xtbg.org.cn/handle/353005/11243] |
专题 | 西双版纳热带植物园_2012年后新成立研究组 |
通讯作者 | Liu, Changning |
作者单位 | 1.Chinese Acad Sci, Xishuangbanna Trop Bot Garden, CAS Key Lab Trop Plant Resources & Sustainable Us, Menglun 666303, Yunnan, Peoples R China 2.Chinese Acad Sci, Xishuangbanna Trop Bot Garden, Ctr Integrat Conservat, Kunming 650223, Yunnan, Peoples R China 3.Univ Chinese Acad Sci, Beijing 100049, Peoples R China |
推荐引用方式 GB/T 7714 | Gao, Xiaoyang,Zhang, Xuan,Meng, Honghu,et al. Comparative chloroplast genomes of Paris Sect. Marmorata: insights into repeat regions and evolutionary implications[J]. BMC GENOMICS,2018,19(x):-. |
APA | Gao, Xiaoyang,Zhang, Xuan,Meng, Honghu,Li, Jing,Zhang, Di,&Liu, Changning.(2018).Comparative chloroplast genomes of Paris Sect. Marmorata: insights into repeat regions and evolutionary implications.BMC GENOMICS,19(x),-. |
MLA | Gao, Xiaoyang,et al."Comparative chloroplast genomes of Paris Sect. Marmorata: insights into repeat regions and evolutionary implications".BMC GENOMICS 19.x(2018):-. |
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