Comparative analysis of a large dataset indicates that internal transcribed spacer (ITS) should be incorporated into the core barcode for seed plants
Li, De-Zhu ; Gao, Lian-Ming ; Li, Hong-Tao ; Wang, Hong ; Ge, Xue-Jun ; Liu, Jian-Quan ; Chen, Zhi-Duan ; Zhou, Shi-Liang ; Chen, Shi-Lin ; Yang, Jun-Bo ; Fu, Cheng-Xin ; Zeng, Chun-Xia ; Yan, Hai-Fei ; Zhu, Ying-Jie ; Sun, Yong-Shuai ; Chen, Si-Yun ; Zhao, Lei ; Wang, Kun ; Yang, Tuo ; Duan, Guang-Wen
Corresponding Authordzl@mail.kib.ac.cn
2011
Source PublicationPROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
ISSN0027-8424
Volume108Issue:49Pages:19641-19646
AbstractA two-marker combination of plastid rbcL and matK has previously been recommended as the core plant barcode, to be supplemented with additional markers such as plastid trnH-psbA and nuclear ribosomal internal transcribed spacer (ITS). To assess the effectiveness and universality of these barcode markers in seed plants, we sampled 6,286 individuals representing 1,757 species in 141 genera of 75 families (42 orders) by using four different methods of data analysis. These analyses indicate that (i) the three plastid markers showed high levels of universality (87.1-92.7%), whereas ITS performed relatively well (79%) in angiosperms but not so well in gymnosperms; (ii) in taxonomic groups for which direct sequencing of the marker is possible, ITS showed the highest discriminatory power of the four markers, and a combination of ITS and any plastid DNA marker was able to discriminate 69.9-79.1% of species, compared with only 49.7% with rbcL + matK; and (iii) where multiple individuals of a single species were tested, ascriptions based on ITS and plastid DNA barcodes were incongruent in some samples for 45.2% of the sampled genera (for genera with more than one species sampled). This finding highlights the importance of both sampling multiple individuals and using markers with different modes of inheritance. In cases where it is difficult to amplify and directly sequence ITS in its entirety, just using ITS2 is a useful backup because it is easier to amplify and sequence this subset of the marker. We therefore propose that ITS/ITS2 should be incorporated into the core barcode for seed plants.
KeywordLand Plants Species Identification Nuclear Ribosomal (Nr) Dna Dna Barcodes Land Plants Species Identification Flowering Plants Conservation Speciation Its2 Evolutionary Phylogeny Accuracy
Subject AreaMultidisciplinary Sciences
Indexed Bysci
Language英语
Document Type期刊论文
Identifierhttp://ir.kib.ac.cn/handle/151853/3974
Collection中国科学院东亚植物多样性与生物地理学重点实验室
Recommended Citation
GB/T 7714
Li, De-Zhu,Gao, Lian-Ming,Li, Hong-Tao,et al. Comparative analysis of a large dataset indicates that internal transcribed spacer (ITS) should be incorporated into the core barcode for seed plants[J]. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA,2011,108(49):19641-19646.
APA Li, De-Zhu.,Gao, Lian-Ming.,Li, Hong-Tao.,Wang, Hong.,Ge, Xue-Jun.,...&Duan, Guang-Wen.(2011).Comparative analysis of a large dataset indicates that internal transcribed spacer (ITS) should be incorporated into the core barcode for seed plants.PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA,108(49),19641-19646.
MLA Li, De-Zhu,et al."Comparative analysis of a large dataset indicates that internal transcribed spacer (ITS) should be incorporated into the core barcode for seed plants".PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 108.49(2011):19641-19646.
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