Use of ITS2 region as the universal DNA barcode for plants and animals

Hui Yao, Jingyuan Song, Chang Liu, Kun Luo, Jianping Han, Ying Li, Xiaohui Pang, Hongxi Xu, Yingjie Zhu, Peigen Xiao, Shilin Chen

Research output: Contribution to journalArticle

370 Citations (Scopus)

Abstract

Background: The internal transcribed spacer 2 (ITS2) region of nuclear ribosomal DNA is regarded as one of the candidate DNA barcodes because it possesses a number of valuable characteristics, such as the availability of conserved regions for designing universal primers, the ease of its amplification, and sufficient variability to distinguish even closely related species. However, a general analysis of its ability to discriminate species in a comprehensive sample set is lacking. Methodology/Principal Findings: In the current study, 50,790 plant and 12,221 animal ITS2 sequences downloaded from GenBank were evaluated according to sequence length, GC content, intra- and inter-specific divergence, and efficiency of identification. The results show that the inter-specific divergence of congeneric species in plants and animals was greater than its corresponding intra-specific variations. The success rates for using the ITS2 region to identify dicotyledons, monocotyledons, gymnosperms, ferns, mosses, and animals were 76.1%, 74.2%, 67.1%, 88.1%, 77.4%, and 91.7% at the species level, respectively. The ITS2 region unveiled a different ability to identify closely related species within different families and genera. The secondary structure of the ITS2 region could provide useful information for species identification and could be considered as a molecular morphological characteristic. Conclusions/Significance: As one of the most popular phylogenetic markers for eukaryota, we propose that the ITS2 locus should be used as a universal DNA barcode for identifying plant species and as a complementary locus for CO1 to identify animal species. We have also developed a web application to facilitate ITS2-based cross-kingdom species identification (http://its2-plantidit.dnsalias.org).

Original languageEnglish (US)
Article numbere13102
JournalPLoS One
Volume5
Issue number10
DOIs
StatePublished - Nov 4 2010
Externally publishedYes

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Plant DNA
DNA barcoding
internal transcribed spacers
Animals
Bryozoa
Gymnosperms
Ferns
animals
DNA
Nucleic Acid Databases
Base Composition
Ribosomal DNA
Eukaryota
Amplification
Availability
loci
Magnoliopsida
Liliopsida
ferns and fern allies
ribosomal DNA

ASJC Scopus subject areas

  • Biochemistry, Genetics and Molecular Biology(all)
  • Agricultural and Biological Sciences(all)

Cite this

Yao, H., Song, J., Liu, C., Luo, K., Han, J., Li, Y., ... Chen, S. (2010). Use of ITS2 region as the universal DNA barcode for plants and animals. PLoS One, 5(10), [e13102]. https://doi.org/10.1371/journal.pone.0013102

Use of ITS2 region as the universal DNA barcode for plants and animals. / Yao, Hui; Song, Jingyuan; Liu, Chang; Luo, Kun; Han, Jianping; Li, Ying; Pang, Xiaohui; Xu, Hongxi; Zhu, Yingjie; Xiao, Peigen; Chen, Shilin.

In: PLoS One, Vol. 5, No. 10, e13102, 04.11.2010.

Research output: Contribution to journalArticle

Yao, H, Song, J, Liu, C, Luo, K, Han, J, Li, Y, Pang, X, Xu, H, Zhu, Y, Xiao, P & Chen, S 2010, 'Use of ITS2 region as the universal DNA barcode for plants and animals', PLoS One, vol. 5, no. 10, e13102. https://doi.org/10.1371/journal.pone.0013102
Yao, Hui ; Song, Jingyuan ; Liu, Chang ; Luo, Kun ; Han, Jianping ; Li, Ying ; Pang, Xiaohui ; Xu, Hongxi ; Zhu, Yingjie ; Xiao, Peigen ; Chen, Shilin. / Use of ITS2 region as the universal DNA barcode for plants and animals. In: PLoS One. 2010 ; Vol. 5, No. 10.
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