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
2011
发表期刊PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
ISSN0027-8424
卷号108期号:49页码:19641-19646
摘要A 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.
关键词Land Plants Species Identification Nuclear Ribosomal (Nr) Dna Dna Barcodes Land Plants Species Identification Flowering Plants Conservation Speciation Its2 Evolutionary Phylogeny Accuracy
资助信息Chinese Academy of Sciences[2009-LSF-GBOWS-01]; Basic Research Program of China (973 Program)[2007CBI411600]
学科领域Multidisciplinary Sciences
收录类别sci
语种英语
文献类型期刊论文
条目标识符http://ir.kib.ac.cn/handle/151853/3974
专题中国科学院东亚植物多样性与生物地理学重点实验室
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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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