Choosing and Using a Plant DNA Barcode

By P. Hollingsworth, S. Graham, Damon P. Little. PLoS ONE, 2011

1,242 citations recorded by the source corpus.

The main aim of DNA barcoding is to establish a shared community resource of DNA sequences that can be used for organismal identification and taxonomic clarification. This approach was successfully pioneered in animals using a portion of the cytochrome oxidase 1 (CO1) mitochondrial gene. In plants, establishing a standardized DNA barcoding system has been more challenging. In this paper, we review the process of selecting and refining a plant barcode; evaluate the factors which influence the discriminatory power of the approach; describe some early applications of plant barcoding and summarise major emerging projects; and outline tool development that will be necessary for plant DNA barcoding to advance.

Subfields: Genetics, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/ffad6f1e255318172ba689649d3bd6712bc605e5

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Citations in the corpus

Resolving Food-Web Structure (2020, positive): “Barcoding with Sanger sequencing is used for individual organismal samples that yield relatively high-quality DNA and hence longer barcodes [500–1,000 bases for commonly used plant and animal markers (Hebert et al. 2003, Hollingsworth et al. 2011)], which facilitate taxonomic identification.”
Plant Facilitation and Phylogenetics (2013, background): “A review of these advances is provided by Hollingsworth et al. (2011).”
Development of species-specific environmental DNA (eDNA) markers for invasive aquatic plants (2015, background): “Other studies have also encountered difficulties with using universal matK primers to generate barcodes (e.g., Roy et al., 2010), and Hollingsworth et al. (2011) suggested that characterization of the matK region will require repeated optimization of primers for different taxonomic groups.”
Plant DNA barcodes: Applications today and in the future (2017, background): “In the last five years, the use of plant DNA barcodes has skyrocketed with several reviews of these applications already published (e.g., Hollingsworth et al., 2011; Erickson & Kress, 2012; Pecnikar & Buzan, 2013; Joly et al., 2014; Kress et al., 2014).”
GetOrganelle: a fast and versatile toolkit for accurate de novo assembly of organelle genomes (2018, background): “So far, organelle DNA markers have been the most widely used for phylogenies [4-8] and DNA barcoding [9-12].”
DNA Barcoding to Detect Chilli Adulteration in Traded Black Pepper Powder (2014, neutral): “(Ali et al., 2012; Sun et al., 2012; Rai et al., 2012; Deng et al., 2011; Hollingsworth et al., 2011; Li et al., 2010; Pettengill and Neel, 2010; Ford et al., 2009; Jarret, 2008; Kress and Erickson, 2007; Zuo et al., 2011).”
Highly Variable Chloroplast Markers for Evaluating Plant Phylogeny at Low Taxonomic Levels and for DNA Barcoding (2012, background): “Some regions of the chloroplast genome, for example, atpF-H, matK, psbK-I, rbcL, rpoB, rpoC1 and trnH-psbA have been relied upon heavily for development of candidate markers for plant DNA barcoding [8,9,10,11,12].”
DNA Barcoding, species delineation and taxonomy: a historical perspective (2015, neutral): “…collect, keep and make biodiversity knowledge publicly available and paved the way for more sustainable practices in taxonomy. development of multi-locus approach of DNA barcoding, as exemplified in plants [88], and the multiple links developed by DNA barcoding with the taxonomic workflow ( e.g .”