Biodiversity Science ›› 2013, Vol. 21 ›› Issue (5): 616-627.doi: 10.3724/SP.J.1003.2013.12059

• Orginal Article • Previous Article     Next Article

DNA barcoding of life: a classification of uses according to function and scale after ten years of development

Nancai Pei*(), Bufeng Chen   

  1. Forest Ecosystem Station of the Pearl River Delta, State Forestry Administration, Research Institute of Tropical Forestry, Chinese Academy of Forestry, Guangzhou 510520
  • Received:2013-03-07 Accepted:2013-09-04 Online:2013-10-08
  • Pei Nancai E-mail:nancai.pei@gmail.com

DNA barcoding technology provides molecular information, standard dataset platforms, and universal technical regulations for modern biological research. We briefly review the history of DNA barcoding between 2003 and 2012, and classify DNA barcoding into three types of biological function: basic function (e.g., storing data, and identifying species), extending function (e.g., building phylogenies, serving specific subjects, and compiling biological atlas) and potential function (e.g., revealing cryptic species). We sort DNA barcoding studies at three levels: clade scale (e.g., familial and/or generic taxa), community scale (e.g., biotic communities in nature reserves and permanent forest dynamics plots), and regional scale (e.g., biodiversity hotpots). We further list ten major research programs proposed by the International Barcode of Life, which are related to DNA barcoding approaches from the prospective of systematics and taxonomy, biodiversity conservation, evolutionary ecology and phylogenetics, and the construction of digital platforms. We appreciate the huge capability of barcoding technology in the field of biological sciences, and also realize the challenges of DNA barcoding utilizations in multidisciplinary studies and the essential to add more tests before the large-scale applications.

Key words: barcoding technology, biological resource, biodiversity conservation, bioinformation digital platform, modern biology

Table 1

A list of currently used DNA barcodes of life"

类别
Item
片段名称
Barcode
引物
Primer sequence (5′- 3′)
来源
Source
序列长度
Size (bp)
参考文献
References
动物
Animal
COI 正向: GGTCAACAAATCATAAAGATATTGG
反向: TAAACTTCAGGGTGACCAAAAAATCA
线粒体基因编码区
Coding region in mitochondrial gene
~650 Hebert et al., 2003a
植物
Plant
rbcL



matK





trnH-psbA


ITS



trnL-F




rps4
正向: ATGTCACCACAAACAGAGACTAAAGC
反向: GTYAAATCAAGTCCACCYCG


正向: CGTACAGTACTTTTGTGTTTACGAG
反向: ACCCAGTCCATCTGGAAATCTTGGTTC
matK472F: CCCRTYCATCTGGAAATCTTGGTTC
matK1248R: GCTRTRATAATGAGAAAGATTTCTGC


trnH端: CGCGCATGGTGGATTCACAATCC
psbA端: GTTATGCATGAACGTAATGCTC

正向: AGAAGTCGTAACAAGGTTTCCGTAGG
反向: TCCTCCGCTTATTGATATGC


正向: AGAAGTCGTAACAAGGTTTCCGTAGG或GGAAGGAGAAGTCGTAACAAGG;
(裸子植物正向: GTCCACTGAACCTTATCATTTAG)
反向: TCCTCCGCTTATTGATATGC

GTAAAACGACGGCCAGT
CA-GGAA-ACAGCTATGAC
叶绿体基因编码区
Coding region in chloroplast gene


叶绿体基因编码区
Coding region in chloroplast gene

叶绿体非编码基因间隔区
Non-coding intergenic region in chloroplast gene

核基因非编码基因间隔区
Non-coding intergenic region in nuclear gene


叶绿体非编码基因间隔区
Non-coding intergenic region in chloroplast gene

叶绿体基因编码区
Coding region in chloroplast gene
~550



~850

~776



280-750


~500(由多个较短序列组成)



350-500



700-900
CBOL Plant Working Group, 2009; Kress & Erickson, 2007


Kim KJ, unpublished primers (http://www.korea.edu/academics/01co_04.php)

Yu et al., 2011



Kress & Erickson, 2007


China Plant BOL Group, 2011




de Groot et al., 2011



Nadot et al., 1994
刘艳等, 2011
微生物
Microbe
ITS


18S rDNA
正向: TCCTCCGCTTATTGATATGC
反向: GGAAGTAAAAGTCGTAACAAGG

正向: AGATTAAGCCATGCATGTCT
反向: GATCCTTCCGCAGGTTCACCTAC
核基因非编码基因间隔区
Non-coding intergenic region in nuclear gene

核基因编码区
Coding region in nuclear gene
400-660



1,600
Seifert, 2009; Schoch et al., 2012; 张宇和郭良栋, 2012


Pawlowski et al., 2012

Fig. 1

A graphic representation of DNA barcoding technological process (adopted from Janzen et al., 2009 and Prof. Paul Hebert’s PPT slides from CBOL Meeting in Beijing, May 2009)"

Fig. 2

A possible roadmap for DNA barcoding studies"

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