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Constructing a DNA barcode reference library for southern herbs in China: A resource for authentication of southern Chinese medicine
Southern Chinese Medicine (SCM) is an important sect of Traditional Chinese Medicine (TCM) with its own special cultural style. Species identification is essential for TCM quality control because authentic herbs are possibly substituted with adulterants that would threaten the health of the public o...
Autores principales: | , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Public Library of Science
2018
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6059470/ https://www.ncbi.nlm.nih.gov/pubmed/30044868 http://dx.doi.org/10.1371/journal.pone.0201240 |
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author | Gong, Lu Qiu, Xiao Hui Huang, Juan Xu, Wen Bai, Jun Qi Zhang, Jing Su, He Xu, Chu Mei Huang, Zhi Hai |
author_facet | Gong, Lu Qiu, Xiao Hui Huang, Juan Xu, Wen Bai, Jun Qi Zhang, Jing Su, He Xu, Chu Mei Huang, Zhi Hai |
author_sort | Gong, Lu |
collection | PubMed |
description | Southern Chinese Medicine (SCM) is an important sect of Traditional Chinese Medicine (TCM) with its own special cultural style. Species identification is essential for TCM quality control because authentic herbs are possibly substituted with adulterants that would threaten the health of the public or even cause death. Here, we provided the first local reference DNA barcode library based on the second internal transcribed spacer (ITS2) for the molecular identification of SCM. A total of 1512 specimens of southern herbs representing 359 species were collected under the instructions and identification of taxonomic experts. Genomic DNA was extracted, and the PCR reaction proceeded according to standard procedures. After Sanger sequencing, sequence assembling and annotation, a reliable ITS2 barcode library with 1276 sequences from 309 species of Southern herbs was constructed. The PCR efficiency of the whole samples was 84.39%. Characteristics of the ITS2 barcode were analyzed, including sequence lengths and GC contents in different taxa. Neighbor-joining trees based on Kimura 2-Parameter (K2P) genetic distances showed a 67.56% successful rate of species identification with ITS2 barcode. In addition, 96.57% of species could be successfully identified at the genus level by the BLAST method. Eleven plant species were discovered to be cryptic. In addition, we found that there is an incorrect sequence existing in the public database, making a reliable local DNA barcode reference more meaningful. ITS2 barcodes exhibit advantages in TCM identification. This DNA barcode reference library could be used in Southern Chinese Medicine quality control, thus contributing to protecting public health. |
format | Online Article Text |
id | pubmed-6059470 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | Public Library of Science |
record_format | MEDLINE/PubMed |
spelling | pubmed-60594702018-08-09 Constructing a DNA barcode reference library for southern herbs in China: A resource for authentication of southern Chinese medicine Gong, Lu Qiu, Xiao Hui Huang, Juan Xu, Wen Bai, Jun Qi Zhang, Jing Su, He Xu, Chu Mei Huang, Zhi Hai PLoS One Research Article Southern Chinese Medicine (SCM) is an important sect of Traditional Chinese Medicine (TCM) with its own special cultural style. Species identification is essential for TCM quality control because authentic herbs are possibly substituted with adulterants that would threaten the health of the public or even cause death. Here, we provided the first local reference DNA barcode library based on the second internal transcribed spacer (ITS2) for the molecular identification of SCM. A total of 1512 specimens of southern herbs representing 359 species were collected under the instructions and identification of taxonomic experts. Genomic DNA was extracted, and the PCR reaction proceeded according to standard procedures. After Sanger sequencing, sequence assembling and annotation, a reliable ITS2 barcode library with 1276 sequences from 309 species of Southern herbs was constructed. The PCR efficiency of the whole samples was 84.39%. Characteristics of the ITS2 barcode were analyzed, including sequence lengths and GC contents in different taxa. Neighbor-joining trees based on Kimura 2-Parameter (K2P) genetic distances showed a 67.56% successful rate of species identification with ITS2 barcode. In addition, 96.57% of species could be successfully identified at the genus level by the BLAST method. Eleven plant species were discovered to be cryptic. In addition, we found that there is an incorrect sequence existing in the public database, making a reliable local DNA barcode reference more meaningful. ITS2 barcodes exhibit advantages in TCM identification. This DNA barcode reference library could be used in Southern Chinese Medicine quality control, thus contributing to protecting public health. Public Library of Science 2018-07-25 /pmc/articles/PMC6059470/ /pubmed/30044868 http://dx.doi.org/10.1371/journal.pone.0201240 Text en © 2018 Gong et al http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. |
spellingShingle | Research Article Gong, Lu Qiu, Xiao Hui Huang, Juan Xu, Wen Bai, Jun Qi Zhang, Jing Su, He Xu, Chu Mei Huang, Zhi Hai Constructing a DNA barcode reference library for southern herbs in China: A resource for authentication of southern Chinese medicine |
title | Constructing a DNA barcode reference library for southern herbs in China: A resource for authentication of southern Chinese medicine |
title_full | Constructing a DNA barcode reference library for southern herbs in China: A resource for authentication of southern Chinese medicine |
title_fullStr | Constructing a DNA barcode reference library for southern herbs in China: A resource for authentication of southern Chinese medicine |
title_full_unstemmed | Constructing a DNA barcode reference library for southern herbs in China: A resource for authentication of southern Chinese medicine |
title_short | Constructing a DNA barcode reference library for southern herbs in China: A resource for authentication of southern Chinese medicine |
title_sort | constructing a dna barcode reference library for southern herbs in china: a resource for authentication of southern chinese medicine |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6059470/ https://www.ncbi.nlm.nih.gov/pubmed/30044868 http://dx.doi.org/10.1371/journal.pone.0201240 |
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