Accelerating plant DNA barcode reference library construction using herbarium specimens: improved experimental techniques
文献类型：期刊论文
| 作者 | Xu, Chao; Dong, Wenpan; Shi, Shuo2; Cheng, Tao; Li, Changhao3; Liu, Yanlei; Wu, Ping; Wu, Hongkun; Gao, Peng; Zhou, Shiliang |
| 刊名 | MOLECULAR ECOLOGY RESOURCES
 |
| 出版日期 | 2015 |
| 卷号 | 15期号:6页码:1366-1374 |
| 关键词 | DNA barcoding DNA reconstruction herbarium specimens next-generation sequencing |
| ISSN号 | 1755-098X |
| DOI | 10.1111/1755-0998.12413 |
| 文献子类 | Article |
| 英文摘要 | A well-covered reference library is crucial for successful identification of species by DNA barcoding. The biggest difficulty in building such a reference library is the lack of materials of organisms. Herbarium collections are potentially an enormous resource of materials. In this study, we demonstrate that it is likely to build such reference libraries using the reconstructed (self-primed PCR amplified) DNA from the herbarium specimens. We used 179 rosaceous specimens to test the effects of DNA reconstruction, 420 randomly sampled specimens to estimate the usable percentage and another 223 specimens of true cherries (Cerasus, Rosaceae) to test the coverage of usable specimens to the species. The barcode rbcLb (the central four-sevenths of rbcL gene) and matK was each amplified in two halves and sequenced on Roche GS 454 FLX+. DNA from the herbarium specimens was typically shorter than 300bp. DNA reconstruction enabled amplification fragments of 400-500bp without bringing or inducing any sequence errors. About one-third of specimens in the national herbarium of China (PE) were proven usable after DNA reconstruction. The specimens in PE cover all Chinese true cherry species and 91.5% of vascular species listed in Flora of China. It is very possible to build well-covered reference libraries for DNA barcoding of vascular species in China. As exemplified in this study, DNA reconstruction and DNA-labelled next-generation sequencing can accelerate the construction of local reference libraries. By putting the local reference libraries together, a global library for DNA barcoding becomes closer to reality. |
| 学科主题 | Biochemistry & Molecular Biology ; Ecology ; Evolutionary Biology |
| 出版地 | HOBOKEN |
| 电子版国际标准刊号 | 1755-0998 |
| WOS关键词 | EXTRACTION ; CHALLENGES ; PHYLOGENY ; SEQUENCES ; HISTORY ; LESIONS |
| WOS研究方向 | Science Citation Index Expanded (SCI-EXPANDED) |
| 语种 | 英语 |
| WOS记录号 | WOS:000362838300010 |
| 出版者 | WILEY |
| 资助机构 | Ministry of Science and Technology of China [2011FY120200, 2012AA021602, 2012BAC01B05] ; National Natural Science Foundation of China [31270239] |
| 源URL | [http://ir.ibcas.ac.cn/handle/2S10CLM1/25611]  |
| 专题 | 植物研究所_系统与进化植物学研究中心_系统与进化植物学研究中心_学位论文 |
| 作者单位 | 1.Univ Chinese Acad Sci, Beijing 100049, Peoples R China 2.Chinese Acad Sci, Inst Bot, State Key Lab Systemat & Evolutionary Bot, Beijing 100093, Peoples R China 3.Hebei Normal Univ, Coll Life Sci, Shijiazhuang 050024, Peoples R China |
| 推荐引用方式 GB/T 7714 | Xu, Chao,Dong, Wenpan,Shi, Shuo,et al. Accelerating plant DNA barcode reference library construction using herbarium specimens: improved experimental techniques[J]. MOLECULAR ECOLOGY RESOURCES,2015,15(6):1366-1374. |
| APA | Xu, Chao.,Dong, Wenpan.,Shi, Shuo.,Cheng, Tao.,Li, Changhao.,...&Zhou, Shiliang.(2015).Accelerating plant DNA barcode reference library construction using herbarium specimens: improved experimental techniques.MOLECULAR ECOLOGY RESOURCES,15(6),1366-1374. |
| MLA | Xu, Chao,et al."Accelerating plant DNA barcode reference library construction using herbarium specimens: improved experimental techniques".MOLECULAR ECOLOGY RESOURCES 15.6(2015):1366-1374. |
入库方式： OAI收割
来源：植物研究所
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