Prospects and Problems for Identification of Poisonous Plants in China using DNA Barcodes

Objective Poisonous plants are a deadly threat to public health in China. The traditional clinical diagnosis of the toxic plants is inefficient, fallible, and dependent upon experts. In this study, we tested the performance of DNA barcodes for identification of the most threatening poisonous plants...

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Veröffentlicht in:Biomedical and environmental sciences 2014-10, Vol.27 (10), p.794-806
Hauptverfasser: XIE, Lei, WANG, Ying Wei, GUAN, Shan Yue, XIE, Li Jing, LONG, Xin, SUN, Cheng Ye
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container_issue 10
container_start_page 794
container_title Biomedical and environmental sciences
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creator XIE, Lei
WANG, Ying Wei
GUAN, Shan Yue
XIE, Li Jing
LONG, Xin
SUN, Cheng Ye
description Objective Poisonous plants are a deadly threat to public health in China. The traditional clinical diagnosis of the toxic plants is inefficient, fallible, and dependent upon experts. In this study, we tested the performance of DNA barcodes for identification of the most threatening poisonous plants in China. Methods Seventy-four accessions of 27 toxic plant species in 22 genera and 17 families were sampled and three DNA barcodes (motK, rbcL, and ITS) were amplified, sequenced and tested. Three methods, Blast, pairwise global alignment (PWG) distance, and Tree-Building were tested for discrimination power. Results The primer universality of all the three markers was high. Except in the case of ITS for Hemerocollis minor, the three barcodes were successfully generated from all the selected species. Among the three methods applied, Blast showed the lowest discrimination rate, whereas PWG Distance and Tree-Building methods were equally effective. The ITS barcode showed highest discrimination rates using the PWG Distance and Tree-Building methods. When the barcodes were combined, discrimination rates were increased for the Blast method.
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The traditional clinical diagnosis of the toxic plants is inefficient, fallible, and dependent upon experts. In this study, we tested the performance of DNA barcodes for identification of the most threatening poisonous plants in China. Methods Seventy-four accessions of 27 toxic plant species in 22 genera and 17 families were sampled and three DNA barcodes (motK, rbcL, and ITS) were amplified, sequenced and tested. Three methods, Blast, pairwise global alignment (PWG) distance, and Tree-Building were tested for discrimination power. Results The primer universality of all the three markers was high. Except in the case of ITS for Hemerocollis minor, the three barcodes were successfully generated from all the selected species. Among the three methods applied, Blast showed the lowest discrimination rate, whereas PWG Distance and Tree-Building methods were equally effective. The ITS barcode showed highest discrimination rates using the PWG Distance and Tree-Building methods. When the barcodes were combined, discrimination rates were increased for the Blast method.</description><identifier>ISSN: 0895-3988</identifier><identifier>EISSN: 2214-0190</identifier><identifier>DOI: 10.3967/bes2014.115</identifier><identifier>PMID: 25341815</identifier><language>eng</language><publisher>Netherlands: Elsevier B.V</publisher><subject>China ; DNA ; DNA barcoding ; DNA Barcoding, Taxonomic - standards ; DNA Primers - genetics ; DNA, Intergenic - genetics ; ITS ; matK ; Plant Proteins - genetics ; Plants, Toxic - classification ; Plants, Toxic - genetics ; Poisonous plants ; PWG ; rbcL ; rbcL基因 ; Ribulose-Bisphosphate Carboxylase - genetics ; Sequence Analysis, DNA ; Species Specificity ; 中国 ; 有毒植物 ; 条形码 ; 距离和 ; 鉴定</subject><ispartof>Biomedical and environmental sciences, 2014-10, Vol.27 (10), p.794-806</ispartof><rights>2014 The Editorial Board of Biomedical and Environmental Sciences</rights><rights>Copyright © 2014 The Editorial Board of Biomedical and Environmental Sciences. Published by China CDC. All rights reserved.</rights><rights>Copyright © Wanfang Data Co. Ltd. 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The traditional clinical diagnosis of the toxic plants is inefficient, fallible, and dependent upon experts. In this study, we tested the performance of DNA barcodes for identification of the most threatening poisonous plants in China. Methods Seventy-four accessions of 27 toxic plant species in 22 genera and 17 families were sampled and three DNA barcodes (motK, rbcL, and ITS) were amplified, sequenced and tested. Three methods, Blast, pairwise global alignment (PWG) distance, and Tree-Building were tested for discrimination power. Results The primer universality of all the three markers was high. Except in the case of ITS for Hemerocollis minor, the three barcodes were successfully generated from all the selected species. Among the three methods applied, Blast showed the lowest discrimination rate, whereas PWG Distance and Tree-Building methods were equally effective. The ITS barcode showed highest discrimination rates using the PWG Distance and Tree-Building methods. 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The traditional clinical diagnosis of the toxic plants is inefficient, fallible, and dependent upon experts. In this study, we tested the performance of DNA barcodes for identification of the most threatening poisonous plants in China. Methods Seventy-four accessions of 27 toxic plant species in 22 genera and 17 families were sampled and three DNA barcodes (motK, rbcL, and ITS) were amplified, sequenced and tested. Three methods, Blast, pairwise global alignment (PWG) distance, and Tree-Building were tested for discrimination power. Results The primer universality of all the three markers was high. Except in the case of ITS for Hemerocollis minor, the three barcodes were successfully generated from all the selected species. Among the three methods applied, Blast showed the lowest discrimination rate, whereas PWG Distance and Tree-Building methods were equally effective. The ITS barcode showed highest discrimination rates using the PWG Distance and Tree-Building methods. 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source MEDLINE; ScienceDirect Journals (5 years ago - present); EZB-FREE-00999 freely available EZB journals; Alma/SFX Local Collection
subjects China
DNA
DNA barcoding
DNA Barcoding, Taxonomic - standards
DNA Primers - genetics
DNA, Intergenic - genetics
ITS
matK
Plant Proteins - genetics
Plants, Toxic - classification
Plants, Toxic - genetics
Poisonous plants
PWG
rbcL
rbcL基因
Ribulose-Bisphosphate Carboxylase - genetics
Sequence Analysis, DNA
Species Specificity
中国
有毒植物
条形码
距离和
鉴定
title Prospects and Problems for Identification of Poisonous Plants in China using DNA Barcodes
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