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Highly effective sequencing whole chloroplast genomes of angiosperms by nine novel universal primer pairs
文献类型：期刊论文
| 作者 | Yang, Jun-Bo; Li, De-Zhu ; Li, Hong-Tao
|
| 刊名 | MOLECULAR ECOLOGY RESOURCES
 |
| 出版日期 | 2014-09-01 |
| 卷号 | 14期号:5页码:1024-1031 |
| 关键词 | angiosperm chloroplast genomes next-generation sequencing novel universal primer pairs phylogenomics species identification |
| ISSN号 | 1755-098X |
| 产权排序 | 第一 |
| 通讯作者 | Li, DZ (reprint author), Chinese Acad Sci, Kunming Inst Bot, Germplasm Bank Wild Species, Kunming 650201, Peoples R China. ; dzl@mail.kib.ac.cn ; lihongtao@mail.kib.ac.cn |
| 英文摘要 | Chloroplast genomes supply indispensable information that helps improve the phylogenetic resolution and even as organelle-scale barcodes. Next-generation sequencing technologies have helped promote sequencing of complete chloroplast genomes, but compared with the number of angiosperms, relatively few chloroplast genomes have been sequenced. There are two major reasons for the paucity of completely sequenced chloroplast genomes: (i) massive amounts of fresh leaves are needed for chloroplast sequencing and (ii) there are considerable gaps in the sequenced chloroplast genomes of many plants because of the difficulty of isolating high-quality chloroplast DNA, preventing complete chloroplast genomes from being assembled. To overcome these obstacles, all known angiosperm chloroplast genomes available to date were analysed, and then we designed nine universal primer pairs corresponding to the highly conserved regions. Using these primers, angiosperm whole chloroplast genomes can be amplified using long-range PCR and sequenced using next-generation sequencing methods. The primers showed high universality, which was tested using 24 species representing major clades of angiosperms. To validate the functionality of the primers, eight species representing major groups of angiosperms, that is, early-diverging angiosperms, magnoliids, monocots, Saxifragales, fabids, malvids and asterids, were sequenced and assembled their complete chloroplast genomes. In our trials, only 100 mg of fresh leaves was used. The results show that the universal primer set provided an easy, effective and feasible approach for sequencing whole chloroplast genomes in angiosperms. The designed universal primer pairs provide a possibility to accelerate genome-scale data acquisition and will therefore magnify the phylogenetic resolution and species identification in angiosperms. |
| 学科主题 | Biochemistry & Molecular Biology ; Ecology ; Evolutionary Biology |
| 类目[WOS] | Biochemistry & Molecular Biology ; Ecology ; Evolutionary Biology |
| 研究领域[WOS] | Biochemistry & Molecular Biology ; Environmental Sciences & Ecology ; Evolutionary Biology |
| 关键词[WOS] | PLASTID GENOMES ; PHYLOGENETIC IMPLICATIONS ; CONSENSUS PRIMERS ; FLOWERING PLANTS ; GENUS CUSCUTA ; DNA ; GENES ; AMPLIFICATION ; IDENTIFICATION ; PHYLOGENOMICS |
| 收录类别 | SCI |
| 资助信息 | National Natural Science Foundation of China [31170182, 30870169]; National 863 Project of China [2012AA021801]; Instruments Development and Technology Innovation Project of the Chinese Academy of Sciences; Yunnan Provincial Natural Science Foundation [2010CD108] |
| 语种 | 英语 |
| WOS记录号 | WOS:000340425100013 |
| 公开日期 | 2014-10-11 |
| 源URL | [http://ir.kib.ac.cn/handle/151853/18317]  |
| 专题 | 昆明植物研究所_中国西南野生生物种质资源库 |
| 作者单位 | Chinese Acad Sci, Kunming Inst Bot, Germplasm Bank Wild Species, Kunming 650201, Peoples R China |
| 推荐引用方式 GB/T 7714 | Yang, Jun-Bo,Li, De-Zhu,Li, Hong-Tao. Highly effective sequencing whole chloroplast genomes of angiosperms by nine novel universal primer pairs[J]. MOLECULAR ECOLOGY RESOURCES,2014,14(5):1024-1031. |
| APA | Yang, Jun-Bo,Li, De-Zhu,&Li, Hong-Tao.(2014).Highly effective sequencing whole chloroplast genomes of angiosperms by nine novel universal primer pairs.MOLECULAR ECOLOGY RESOURCES,14(5),1024-1031. |
| MLA | Yang, Jun-Bo,et al."Highly effective sequencing whole chloroplast genomes of angiosperms by nine novel universal primer pairs".MOLECULAR ECOLOGY RESOURCES 14.5(2014):1024-1031. |
入库方式： OAI收割
来源：昆明植物研究所
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