Identification of Lonicera japonica and its related species using the DNA barcoding method

Zhiying Sun, Ting Gao, Hui Yao, Linchun Shi, Yingjie Zhu, Shilin Chen

Research output: Contribution to journalArticle

26 Citations (Scopus)

Abstract

To choose a suitable DNA marker to authenticate the botanical origins of Flos Lonicerae Japonicae and Flos Lonicerae, seven candidate DNA bar codes (i.e., rbcL, matK, psbA-trnH, ITS2, ITS, trnL intron, and trnLF intergenic spacer) were tested on forty-four samples of Lonicera japonica and its closely related species using the DNA barcoding method. We found that all seven candidate bar codes yielded 100 % PCR amplification efficiency and that the sequencing efficiency of the five other candidate bar codes was 100 %, with the exception of ITS and ITS2. The highest interspecific divergence was provided by the psbA-trnH intergenic spacer, followed by the trnLF intergenic spacer based on six parameters and Wilcoxon signed rank tests. Through the inspection of the histograms of the barcoding gap, the distribution of the psbA-trnH intergenic spacer was well separated; and only this candidate DNA bar code possessed the highest species identification efficiency at 100 % by BLAST1 method. In conclusion, using the psbA-trnH intergenic spacer as a DNA bar code is suitable for the identification of the botanical origins of Flos Lonicerae Japonicae and Flos Lonicerae. This study may provide an important example for the authentication of the botanical origin of medicinal herbs listed in the Chinese Pharmacopoeia.

Original languageEnglish (US)
Pages (from-to)301-306
Number of pages6
JournalPlanta Medica
Volume77
Issue number3
DOIs
StatePublished - Jan 1 2011
Externally publishedYes

Fingerprint

Lonicera
Bar codes
Automatic Data Processing
DNA
Pharmacopoeias
Medicinal Plants
Nonparametric Statistics
Genetic Markers
Introns
Authentication
Amplification
Inspection
Polymerase Chain Reaction
lonicerae flos

Keywords

  • Caprifoliaceae
  • DNA barcoding
  • Lonicera
  • Lonicera japonica
  • molecular identification
  • psbAtrnH intergenic spacer

ASJC Scopus subject areas

  • Analytical Chemistry
  • Molecular Medicine
  • Pharmacology
  • Pharmaceutical Science
  • Drug Discovery
  • Complementary and alternative medicine
  • Organic Chemistry

Cite this

Identification of Lonicera japonica and its related species using the DNA barcoding method. / Sun, Zhiying; Gao, Ting; Yao, Hui; Shi, Linchun; Zhu, Yingjie; Chen, Shilin.

In: Planta Medica, Vol. 77, No. 3, 01.01.2011, p. 301-306.

Research output: Contribution to journalArticle

Sun, Zhiying ; Gao, Ting ; Yao, Hui ; Shi, Linchun ; Zhu, Yingjie ; Chen, Shilin. / Identification of Lonicera japonica and its related species using the DNA barcoding method. In: Planta Medica. 2011 ; Vol. 77, No. 3. pp. 301-306.
@article{1f207d078bff471ab2ac83711f70e67b,
title = "Identification of Lonicera japonica and its related species using the DNA barcoding method",
abstract = "To choose a suitable DNA marker to authenticate the botanical origins of Flos Lonicerae Japonicae and Flos Lonicerae, seven candidate DNA bar codes (i.e., rbcL, matK, psbA-trnH, ITS2, ITS, trnL intron, and trnLF intergenic spacer) were tested on forty-four samples of Lonicera japonica and its closely related species using the DNA barcoding method. We found that all seven candidate bar codes yielded 100 {\%} PCR amplification efficiency and that the sequencing efficiency of the five other candidate bar codes was 100 {\%}, with the exception of ITS and ITS2. The highest interspecific divergence was provided by the psbA-trnH intergenic spacer, followed by the trnLF intergenic spacer based on six parameters and Wilcoxon signed rank tests. Through the inspection of the histograms of the barcoding gap, the distribution of the psbA-trnH intergenic spacer was well separated; and only this candidate DNA bar code possessed the highest species identification efficiency at 100 {\%} by BLAST1 method. In conclusion, using the psbA-trnH intergenic spacer as a DNA bar code is suitable for the identification of the botanical origins of Flos Lonicerae Japonicae and Flos Lonicerae. This study may provide an important example for the authentication of the botanical origin of medicinal herbs listed in the Chinese Pharmacopoeia.",
keywords = "Caprifoliaceae, DNA barcoding, Lonicera, Lonicera japonica, molecular identification, psbAtrnH intergenic spacer",
author = "Zhiying Sun and Ting Gao and Hui Yao and Linchun Shi and Yingjie Zhu and Shilin Chen",
year = "2011",
month = "1",
day = "1",
doi = "10.1055/s-0030-1250324",
language = "English (US)",
volume = "77",
pages = "301--306",
journal = "Planta Medica",
issn = "0032-0943",
publisher = "Georg Thieme Verlag",
number = "3",

}

TY - JOUR

T1 - Identification of Lonicera japonica and its related species using the DNA barcoding method

AU - Sun, Zhiying

AU - Gao, Ting

AU - Yao, Hui

AU - Shi, Linchun

AU - Zhu, Yingjie

AU - Chen, Shilin

PY - 2011/1/1

Y1 - 2011/1/1

N2 - To choose a suitable DNA marker to authenticate the botanical origins of Flos Lonicerae Japonicae and Flos Lonicerae, seven candidate DNA bar codes (i.e., rbcL, matK, psbA-trnH, ITS2, ITS, trnL intron, and trnLF intergenic spacer) were tested on forty-four samples of Lonicera japonica and its closely related species using the DNA barcoding method. We found that all seven candidate bar codes yielded 100 % PCR amplification efficiency and that the sequencing efficiency of the five other candidate bar codes was 100 %, with the exception of ITS and ITS2. The highest interspecific divergence was provided by the psbA-trnH intergenic spacer, followed by the trnLF intergenic spacer based on six parameters and Wilcoxon signed rank tests. Through the inspection of the histograms of the barcoding gap, the distribution of the psbA-trnH intergenic spacer was well separated; and only this candidate DNA bar code possessed the highest species identification efficiency at 100 % by BLAST1 method. In conclusion, using the psbA-trnH intergenic spacer as a DNA bar code is suitable for the identification of the botanical origins of Flos Lonicerae Japonicae and Flos Lonicerae. This study may provide an important example for the authentication of the botanical origin of medicinal herbs listed in the Chinese Pharmacopoeia.

AB - To choose a suitable DNA marker to authenticate the botanical origins of Flos Lonicerae Japonicae and Flos Lonicerae, seven candidate DNA bar codes (i.e., rbcL, matK, psbA-trnH, ITS2, ITS, trnL intron, and trnLF intergenic spacer) were tested on forty-four samples of Lonicera japonica and its closely related species using the DNA barcoding method. We found that all seven candidate bar codes yielded 100 % PCR amplification efficiency and that the sequencing efficiency of the five other candidate bar codes was 100 %, with the exception of ITS and ITS2. The highest interspecific divergence was provided by the psbA-trnH intergenic spacer, followed by the trnLF intergenic spacer based on six parameters and Wilcoxon signed rank tests. Through the inspection of the histograms of the barcoding gap, the distribution of the psbA-trnH intergenic spacer was well separated; and only this candidate DNA bar code possessed the highest species identification efficiency at 100 % by BLAST1 method. In conclusion, using the psbA-trnH intergenic spacer as a DNA bar code is suitable for the identification of the botanical origins of Flos Lonicerae Japonicae and Flos Lonicerae. This study may provide an important example for the authentication of the botanical origin of medicinal herbs listed in the Chinese Pharmacopoeia.

KW - Caprifoliaceae

KW - DNA barcoding

KW - Lonicera

KW - Lonicera japonica

KW - molecular identification

KW - psbAtrnH intergenic spacer

UR - http://www.scopus.com/inward/record.url?scp=79251541798&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=79251541798&partnerID=8YFLogxK

U2 - 10.1055/s-0030-1250324

DO - 10.1055/s-0030-1250324

M3 - Article

VL - 77

SP - 301

EP - 306

JO - Planta Medica

JF - Planta Medica

SN - 0032-0943

IS - 3

ER -