A proposal for a standardised protocol to barcode all land plants

By Mark W. Chase, R. Cowan, P. Hollingsworth, C. Berg, S. Madriñán, G. Petersen, O. Seberg, Tina Jørgsensen, K. Cameron, M. Carine and 9 more. 2007

607 citations recorded by the source corpus.

Subfields: Genetics, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/c9d653e632c112f917442d58c7d5633db232e5ad

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Citations in the corpus

Comparative analysis of a large dataset indicates that internal transcribed spacer (ITS) should be incorporated into the core barcode for seed plants (2011, background): “The argument as to whether ITS or ITS2 should be a universal or a local plant barcode has been profound (24, 25) and continual since it was first proposed as a candidate barcode.”
Who is eating what: diet assessment using next generation sequencing (2012, background): “At the same time, there has been a massive expansion of sequence databases through the DNA barcoding of animals and plants (Hebert et al. 2003; Chase et al. 2007; Taberlet et al. 2007), without which accurate interpretation of the thousands of sequences generated by NGS would be impossible (Valentin”
Validation of the ITS2 Region as a Novel DNA Barcode for Identifying Medicinal Plant Species (2010, background): “However, universal primers for ITS1 and ITS have not been identified for broad taxonomic use, leading to low amplification efficiency and the need for specific PCR conditions and additives [16,21].”
Non-coding nuclear DNA markers in phylogenetic reconstruction (2009, methodology): “However, it has recently been proposed to use the plastid markers such us rpoC1, rpoB and matK or rpoC1, matK, and psbA-trnH (Chase et al. 2007).”
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].”
New universal matK primers for DNA barcoding angiosperms (2011, methodology): “Being a coding region, the very high evolutionary rate of matK has made it usable in phylogenetic reconstructions at high taxonomic levels, such as Order or Family, and sometimes also at low taxonomic levels, such as Genus or Species (Wolfe, 1991; Hilu et al., 2003; Müller et al., 2006; Chase et al”
Multiple Multilocus DNA Barcodes from the Plastid Genome Discriminate Plant Species Equally Well (2008, background): “two coding regions (matK and rpoC1), or three coding regions combined (matK, rpoB and rpoC1) [9].”
A DNA barcode for land plants (2009, background): “In addition, trnH–psbA has a median length of 418 bp (IQR 296–500 bp) in the dataset examined here, which is well-suited for DNA barcoding, but its upper length of 1,000 bp in some monocot (3) and conifer (11) species can lead to problems obtaining bidirectional sequences without using taxon-specifi”
Barcoding diatoms: evaluation of the V4 subregion on the 18S rRNA gene, including new primers and protocols (2011, background): “But as discussed in many other studies, some problems, such as species delimitation and α-taxonomy, presumably cannot be solved with only one barcode (e.g. Chase et al. 2007; Cowan et al. 2006; Kress and Erickson 2007).”