Accelerating plant DNA barcode reference library construction using herbarium specimens: improved experimental techniques

doi:10.1111/1755-0998.12413

	Accelerating plant DNA barcode reference library construction using herbarium specimens: improved experimental techniques
	Xu, Chao ; Dong, Wenpan ; Shi, Shuo 1; Cheng, Tao ; Li, Changhao 2; Liu, Yanlei ; Wu, Ping ; Wu, Hongkun ; Gao, Peng ; Zhou, Shiliang
	2015
发表期刊	MOLECULAR ECOLOGY RESOURCES
ISSN	1755-098X
卷号	15 期号:6 页码:1366-1374
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.
关键词	DNA barcoding DNA reconstruction herbarium specimens next-generation sequencing
学科领域	Biochemistry & Molecular Biology ; Ecology ; Evolutionary Biology
DOI	10.1111/1755-0998.12413
收录类别	SCI
语种	英语
WOS关键词	EXTRACTION ; CHALLENGES ; PHYLOGENY ; SEQUENCES ; HISTORY ; LESIONS
WOS研究方向	Science Citation Index Expanded (SCI-EXPANDED)
WOS记录号	WOS:000362838300010
出版者	WILEY
文献子类	Article
出版地	HOBOKEN
EISSN	1755-0998
资助机构	Ministry of Science and Technology of China [2011FY120200, 2012AA021602, 2012BAC01B05] ; National Natural Science Foundation of China [31270239]
作者邮箱	slzhou@ibcas.ac.cn
引用统计	被引频次：35[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.ibcas.ac.cn/handle/2S10CLM1/25611
专题	系统与进化植物学国家重点实验室
作者单位	1.Chinese Acad Sci, Inst Bot, State Key Lab Systemat & Evolutionary Bot, Beijing 100093, Peoples R China 2.Hebei Normal Univ, Coll Life Sci, Shijiazhuang 050024, Peoples R China 3.Univ Chinese Acad Sci, Beijing 100049, 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.

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