DNA barcoding the Canadian Arctic flora: core plastid barcodes (rbcL + matK) for 490 vascular plant species

PloS One
Jeffery M SaarelaRoger D Bull

Abstract

Accurate identification of Arctic plant species is critical for understanding potential climate-induced changes in their diversity and distributions. To facilitate rapid identification we generated DNA barcodes for the core plastid barcode loci (rbcL and matK) for 490 vascular plant species, representing nearly half of the Canadian Arctic flora and 93% of the flora of the Canadian Arctic Archipelago. Sequence recovery was higher for rbcL than matK (93% and 81%), and rbcL was easier to recover than matK from herbarium specimens (92% and 77%). Distance-based and sequence-similarity analyses of combined rbcL + matK data discriminate 97% of genera, 56% of species, and 7% of infraspecific taxa. There is a significant negative correlation between the number of species sampled per genus and the percent species resolution per genus. We characterize barcode variation in detail in the ten largest genera sampled (Carex, Draba, Festuca, Pedicularis, Poa, Potentilla, Puccinellia, Ranunculus, Salix, and Saxifraga) in the context of their phylogenetic relationships and taxonomy. Discrimination with the core barcode loci in these genera ranges from 0% in Salix to 85% in Carex. Haplotype variation in multiple genera does not correspond to speci...Continue Reading

References

Jan 1, 1992·Proceedings of the National Academy of Sciences of the United States of America·P S SoltisC J Smiley
Jan 15, 2000·American Journal of Botany·T AzumaH Ohashi
Aug 26, 2000·Science·R J AbbottJ Balfour
Oct 18, 2000·American Journal of Botany·K T HansenC Brochmann
May 17, 2001·American Journal of Botany·S FjellheimC Brochmann
Jan 5, 2002·Crop Science·Stacy A. BonosWilliam A. Meyer
Jan 22, 2003·Molecular Ecology·Richard J Abbott, Christian Brochmann
Nov 15, 2003·Molecular Phylogenetics and Evolution·Keith L Adams, Jeffrey D Palmer
Mar 23, 2004·Nucleic Acids Research·Robert C Edgar
Apr 6, 2004·Molecular Phylogenetics and Evolution·Pilar CatalánRichard G Olmstead
Dec 16, 2004·Proceedings of the National Academy of Sciences of the United States of America·Yangrae ChoJeffrey D Palmer
May 6, 2005·Nature·David E Schindel, Scott E Miller
Jun 2, 2005·Proceedings of the National Academy of Sciences of the United States of America·W John KressDaniel H Janzen
Jun 24, 2005·Nucleic Acids Research·Natalia IvanovaLovisa Holmberg Schiavone
Oct 11, 2005·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·Mark W ChaseVincent Savolainen
Jan 19, 2006·Proceedings of the National Academy of Sciences of the United States of America·Mehrdad HajibabaeiPaul D N Hebert
Jan 24, 2006·Proceedings of the National Academy of Sciences of the United States of America·Marilyn D WalkerPhilip A Wookey
Dec 16, 2006·Nucleic Acids Research·Pierre TaberletEske Willerslev
Mar 14, 2007·Ontogenez·O I Iudakova, T N Shakina
May 4, 2007·Journal of Plant Research·Jean-Michel Guillon
Aug 11, 2007·BMC Evolutionary Biology·Jeffrey P MowerJeffrey D Palmer
Sep 14, 2007·Molecular Ecology·P B EidesenC Brochmann
Nov 3, 2007·Evolution; International Journal of Organic Evolution·Natalia V TkachKlaus Bernhard von Hagen
Feb 9, 2008·Proceedings of the National Academy of Sciences of the United States of America·Renaud LahayeVincent Savolainen
Jul 5, 2008·Science·Kirsten Brun KjelstrupMay-Britt Moser
Aug 22, 2008·Proceedings of the National Academy of Sciences of the United States of America·M Alex SmithPaul D N Hebert
Sep 12, 2008·Molecular Ecology Notes·Sujeevan Ratnasingham, Paul D N Hebert
Sep 12, 2008·Molecular Ecology Notes·Kevin C R KerrPaul D N Hebert
Nov 14, 2008·Proceedings. Biological Sciences·José A Jurado-RiveraJesús Gómez-Zurita
Feb 26, 2009·PloS One·Ole Seberg, Gitte Petersen
Mar 25, 2009·The New Phytologist·Matthias H Hoffmann, Martin Röser
Jul 10, 2009·European Journal of Public Health·Janas HarringtonEmer Shelley
Aug 12, 2009·Proceedings of the National Academy of Sciences of the United States of America·UNKNOWN CBOL Plant Working Group
Aug 18, 2009·Ecology Letters·Melanie A HarschRichard P Duncan

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Citations

Sep 5, 2014·Molecular Ecology Resources·Xin-Cun WangJian-Qin Li
Aug 28, 2015·PhytoKeys·Lynn J GillespieRoger D Bull
Aug 3, 2016·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·Peter M HollingsworthAlex D Twyford
Aug 4, 2016·Genome Génome / Conseil National De Recherches Canada·Tomas Roslin, Sanna Majaneva
May 29, 2018·Journal of Food Science·Yajun WuYingchun Wang
Oct 27, 2018·Molecules : a Journal of Synthetic Chemistry and Natural Product Chemistry·Ke HanChunyu Wang
Dec 19, 2016·BioData Mining·Ravi Prabhakar MoreHemant J Purohit
Jan 5, 2018·Applications in Plant Sciences·Maria L KuzminaPaul D N Hebert
Mar 9, 2017·Frontiers in Plant Science·Nancai PeiW J Kress
Nov 23, 2018·Ecology and Evolution·Shengchun LiDianxiang Zhang
Jan 11, 2017·PloS One·Thomas W A BraukmannPaul D N Hebert
Jul 17, 2020·Frontiers in Plant Science·Chelsea ChisholmWayne H Pollard
Nov 30, 2019·International Journal of Molecular Sciences·Xinbo PangBin Li
Jun 22, 2021·Journal, Genetic Engineering & Biotechnology·Viet The HoSasanti Widiarsih

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Methods Mentioned

BETA
PCR

Software Mentioned

MUSCLE
Geneious
TaxonDNA
BLASTN
VASCAN
BOLD
CBOL
CodonCode Aligner
Tropicos
Basic Local Alignment Search Tool ( BLAST )

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