ArticleBMC research notes2012
The loci recommended as universal barcodes for plants on the basis of floristic studies may not work with congeneric species as exemplified by DNA barcoding of Dendrobium species.
Article in BMC research notes, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.
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Who cites it
26 citing papers in PubMed.
- Pan-Plastome Evolution and Metabolite Variation Provide Insights to Conservation of the Tibetan Medicinal PlantPlants (Basel, Switzerland) · 2026Article
- DNA Barcoding for Tracing Biodiversity in Mixed Crop Food Products: A Proof of Concept Within the BioValue Project.Foods (Basel, Switzerland) · 2025Article
- An integrative approach clarifies species delimitation and biogeographic history ofPlant diversity · 2025Article
- The known, unknown, and the intriguing about members of a critically endangered traditional medicinal plant genusFrontiers in plant science · 2023Review
- FirstGigaByte (Hong Kong, China) · 2022Article
- Advancements and future prospective of DNA barcodes in the herbal drug industry.Frontiers in pharmacology · 2022Review
- Development of Hydrolysis Probe-Based qPCR Assays forFoods (Basel, Switzerland) · 2021Article
- rbcL, a potential candidate DNA barcode loci for aconites: conservation of himalayan aconites.Molecular biology reports · 2021Article
- Aromatic Profile Variation of Essential Oil from Dried Makwhaen Fruit and Related Species.Plants (Basel, Switzerland) · 2021Article
- Assessing the reliability of medicinal Dendrobium sequences in GenBank for botanical species identification.Scientific reports · 2021Article
- DNA barcodes for delineating Clerodendrum species of North East India.Scientific reports · 2020Article
- Article
- Complete Chloroplast Genome ofPlants (Basel, Switzerland) · 2020Article
- Genetic Diversity and Identification of VietnameseBiology · 2019Article
- Employing barcoding markers to authenticate selected endangered medicinal plants traded in Indian markets.Physiology and molecular biology of plants : an international journal of functional plant biology · 2019Article
- ITS2: An Ideal DNA Barcode for the Arid Medicinal Plant Rhazya Stricta.Pharmaceutical medicine · 2019Article
- In Silico Study on Molecular Sequences for Identification ofEvolutionary bioinformatics online · 2018Article
- Genus-Specific Real-Time PCR and HRM Assays to Distinguish Liriope from Ophiopogon Samples.Plants (Basel, Switzerland) · 2017Article
- Utility of DNA barcoding to identify rare endemic vascular plant species in Trinidad.Ecology and evolution · 2017Article
- Comparative analysis of Dendrobium plastomes and utility of plastomic mutational hotspots.Scientific reports · 2017Article
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4 authors.
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No grant is acknowledged in the PubMed record.
Abstract
backgroundBased on the testing of several loci, predominantly against floristic backgrounds, individual or different combinations of loci have been suggested as possible universal DNA barcodes for plants. The present investigation was undertaken to check the applicability of the recommended locus/loci for congeneric species with Dendrobium species as an illustrative example.
resultsSix loci, matK, rbcL, rpoB, rpoC1, trnH-psbA spacer from the chloroplast genome and ITS, from the nuclear genome, were compared for their amplification, sequencing and species discrimination success rates among multiple accessions of 36 Dendrobium species. The trnH-psbA spacer could not be considered for analysis as good quality sequences were not obtained with its forward primer. Among the tested loci, ITS, recommended by some as a possible barcode for plants, provided 100% species identification. Another locus, matK, also recommended as a universal barcode for plants, resolved 80.56% species. ITS remained the best even when sequences of investigated loci of additional Dendrobium species available on the NCBI GenBank (93, 33, 20, 18 and 17 of ITS, matK, rbcL, rpoB and rpoC1, respectively) were also considered for calculating the percent species resolution capabilities. The species discrimination of various combinations of the loci was also compared based on the 36 investigated species and additional 16 for which sequences of all the five loci were available on GenBank. Two-locus combination of matK+rbcL recommended by the Plant Working Group of Consortium for Barcoding of Life (CBOL) could discriminate 86.11% of 36 species. The species discriminating ability of this barcode was reduced to 80.77% when additional sequences available on NCBI were included in the analysis. Among the recommended combinations, the barcode based on three loci - matK, rpoB and rpoC1- resolved maximum number of species.
conclusionsAny recommended barcode based on the loci tested so far, is not likely to provide 100% species identification across the plant kingdom and thus is not likely to act as a universal barcode. It appears that barcodes, if based on single or limited locus(i), would be taxa specific as is exemplified by the success of ITS among Dendrobium species, though it may not be suitable for other plants because of the problems that are discussed.
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