DNA barcoding of plants: Selection of core markers for taxonomic groups

Abstract

Plant identification is a crucial and routine taxonomic procedure in order to understand and conserve the biodiversity. Anthropogenic activity, pollution, deforestation, and exploitation of natural resources have been threatening to the plant biodiversity. Unfortunately, the major concern of traditional identification of plants is the gradual declined number of taxonomic expertise and lack of tools which accurately discriminate plant seeds, plant parts and seedling, and herbal adulterant. Presently, it is of utmost importance that plant biodiversity to be preserved. To overcome this issues the advent of molecular marker based technique which utilized short fragment of DNA and correctly assign plant taxa to their taxonomic group, called as DNA barcoding. First time, single marker based taxon identification successfully implemented to an animal taxa using mitochondrial cytochrome I (COI) gene fragment. However, Plant DNA barcoding is more complex and it often requires more than one set of DNA markers. In the present review, we have compiled the recent progress of plant DNA barcoding in various taxonomic groups and utility of plastids and nuclear DNA based markers for plant identification.

Evaluation of cpDNA Barcodes in Selected Medicinal Plants of Mt. Arayat National Park, Pampanga, the Philippines

“…[8][9][10][11][12] Among several candidates are DNA barcodes from chloroplast; matK, rbcL, rpoB and rpoC1, the intergenic plastidial spacers; trnH-psbA, atpF-atpH and psbK-psbI and the nuclear internal transcribed spacers that have been used either as one or in combinations. [13][14] In this study, three-cpDNA markers, rbcL, matK and trnL-F were evaluated to authenticate selected medicinal plants of MANP since these three candidate barcodes have been examined by their universality, discriminatory power and resolution. [15][16][17][18]…”

Peer Review #2 of "Assessing universality of DNA barcoding in geographically isolated selected desert medicinal species of Fabaceae and Poaceae (v0.1)"

“…In order to meet the criteria of DNA barcode, a gene locus must possess enough species level genetic variability, short sequence length, and conserved flanking regions (Giudicelli et al, 2015). Common DNA barcodes proposed for plants are plastidial matK, rbcL, ITS, rpoB and rpoC1, the intergenic plastidial spacers (trnH-psbA, atpF-atpH and psbK-psbI) and the nuclear internal transcribed spacers that have been used singly or in combinations (De Mattia et al, 2011;Saddhe & Kumar, 2017). Owing to the strengths and limitations PeerJ reviewing PDF | (2017:11:21621:1:1:NEW 7 Feb 2018)…”

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“…In order to meet the criteria of DNA barcode, a gene locus must possess enough species level genetic variability, short sequence length, and conserved flanking regions (Giudicelli et al, 2015). Common DNA barcodes proposed for plants are plastidial matK, rbcL, ITS, rpoB and rpoC1, the intergenic plastidial spacers (trnH-psbA, atpF-atpH and psbKpsbI) and the nuclear internal transcribed spacers that have been used singly or in combinations (De Mattia et al, 2011;Saddhe & Kumar, 2017). Owing to the strengths and limitations associated with each marker, matK and rbcL are recommended as core barcode regions, which worked well with many of the plant groups.…”