A DNA barcode for land plants

Peter M. Hollingsworth; Laura L. Forrest; John L. Spouge; Mehrdad Hajibabaei; Sujeevan Ratnasingham; Michelle van der Bank; Mark W. Chase; Robyn S. Cowan; David L. Erickson; Aron J. Fazekas; Sean W. Graham; Karen E. James; Ki Joong Kim; W. John Kress; Harald Schneider; Jonathan van AlphenStahl; Spencer C.H. Barrett; Cassio van den Berg; Diego Bogarin; Kevin S. Burgess; Kenneth M. Cameron; Mark Carine; Juliana Chacón; Alexandra Clark; James J. Clarkson; Ferozah Conrad; Dion S. Devey; Caroline S. Ford; Terry A.J. Hedderson; Michelle L. Hollingsworth; Brian C. Husband; Laura J. Kelly; Prasad R. Kesanakurti; Jung Sung Kim; Young Dong Kim; Renaud Lahaye; Hae Lim Lee; David G. Long; Santiago Madriñán; Olivier Maurin; Isabelle Meusnier; Steven G. Newmaster; Chong Wook Park; Diana M. Percy; Gitte Petersen; James E. Richardson; Gerardo A. Salazar; Vincent Savolainen; Ole Seberg; Michael J. Wilkinson; Dong Keun Yi; Damon P. Little

doi:10.1073/pnas.0905845106

A DNA barcode for land plants

Peter M. Hollingsworth, Laura L. Forrest, John L. Spouge, Mehrdad Hajibabaei, Sujeevan Ratnasingham, Michelle van der Bank, Mark W. Chase, Robyn S. Cowan, David L. Erickson, Aron J. Fazekas, Sean W. Graham, Karen E. James, Ki Joong Kim, W. John Kress, Harald Schneider, Jonathan van AlphenStahl, Spencer C.H. Barrett, Cassio van den Berg, Diego Bogarin, Kevin S. BurgessKenneth M. Cameron, Mark Carine, Juliana Chacón, Alexandra Clark, James J. Clarkson, Ferozah Conrad, Dion S. Devey, Caroline S. Ford, Terry A.J. Hedderson, Michelle L. Hollingsworth, Brian C. Husband, Laura J. Kelly, Prasad R. Kesanakurti, Jung Sung Kim, Young Dong Kim, Renaud Lahaye, Hae Lim Lee, David G. Long, Santiago Madriñán, Olivier Maurin, Isabelle Meusnier, Steven G. Newmaster, Chong Wook Park, Diana M. Percy, Gitte Petersen, James E. Richardson, Gerardo A. Salazar, Vincent Savolainen, Ole Seberg, Michael J. Wilkinson, Dong Keun Yi, Damon P. Little

Botany and Plant Biotechnology

Research output: Contribution to journal › Article › peer-review

2178 Citations (Scopus)

Abstract

DNA barcoding involves sequencing a standard region of DNA as a tool for species identification. However, there has been no agreement on which region(s) should be used for barcoding land plants. To provide a community recommendation on a standard plant barcode, we have compared the performance of 7 leading candidate plastid DNA regions (atpF-atpH spacer, matK gene, rbcL gene, rpoB gene, rpoC1 gene, psbK-psbI spacer, and trnH-psbA spacer). Based on assessments of recoverability, sequence quality, and levels of species discrimination, we recommend the 2-locus combination of rbcL+matK as the plant barcode. This core 2-locus barcode will provide a universal framework for the routine use of DNA sequence data to identify specimens and contribute toward the discovery of overlooked species of land plants.

Original language	English
Pages (from-to)	12794-12797
Number of pages	4
Journal	Proceedings of the National Academy of Sciences of the United States of America
Volume	106
Issue number	31
DOIs	https://doi.org/10.1073/pnas.0905845106
Publication status	Published - 4 Aug 2009

Keywords

Species identification
matK
rbcL

ASJC Scopus subject areas

Multidisciplinary

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10.1073/pnas.0905845106

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Hollingsworth, P. M., Forrest, L. L., Spouge, J. L., Hajibabaei, M., Ratnasingham, S., van der Bank, M., Chase, M. W., Cowan, R. S., Erickson, D. L., Fazekas, A. J., Graham, S. W., James, K. E., Kim, K. J., John Kress, W., Schneider, H., van AlphenStahl, J., Barrett, S. C. H., van den Berg, C., Bogarin, D., ... Little, D. P. (2009). A DNA barcode for land plants. Proceedings of the National Academy of Sciences of the United States of America, 106(31), 12794-12797. https://doi.org/10.1073/pnas.0905845106

@article{ca54f01166e04cc498e423f5e57d2a7a,

title = "A DNA barcode for land plants",

abstract = "DNA barcoding involves sequencing a standard region of DNA as a tool for species identification. However, there has been no agreement on which region(s) should be used for barcoding land plants. To provide a community recommendation on a standard plant barcode, we have compared the performance of 7 leading candidate plastid DNA regions (atpF-atpH spacer, matK gene, rbcL gene, rpoB gene, rpoC1 gene, psbK-psbI spacer, and trnH-psbA spacer). Based on assessments of recoverability, sequence quality, and levels of species discrimination, we recommend the 2-locus combination of rbcL+matK as the plant barcode. This core 2-locus barcode will provide a universal framework for the routine use of DNA sequence data to identify specimens and contribute toward the discovery of overlooked species of land plants.",

keywords = "Species identification, matK, rbcL",

author = "Hollingsworth, {Peter M.} and Forrest, {Laura L.} and Spouge, {John L.} and Mehrdad Hajibabaei and Sujeevan Ratnasingham and {van der Bank}, Michelle and Chase, {Mark W.} and Cowan, {Robyn S.} and Erickson, {David L.} and Fazekas, {Aron J.} and Graham, {Sean W.} and James, {Karen E.} and Kim, {Ki Joong} and {John Kress}, W. and Harald Schneider and {van AlphenStahl}, Jonathan and Barrett, {Spencer C.H.} and {van den Berg}, Cassio and Diego Bogarin and Burgess, {Kevin S.} and Cameron, {Kenneth M.} and Mark Carine and Juliana Chac{\'o}n and Alexandra Clark and Clarkson, {James J.} and Ferozah Conrad and Devey, {Dion S.} and Ford, {Caroline S.} and Hedderson, {Terry A.J.} and Hollingsworth, {Michelle L.} and Husband, {Brian C.} and Kelly, {Laura J.} and Kesanakurti, {Prasad R.} and Kim, {Jung Sung} and Kim, {Young Dong} and Renaud Lahaye and Lee, {Hae Lim} and Long, {David G.} and Santiago Madri{\~n}{\'a}n and Olivier Maurin and Isabelle Meusnier and Newmaster, {Steven G.} and Park, {Chong Wook} and Percy, {Diana M.} and Gitte Petersen and Richardson, {James E.} and Salazar, {Gerardo A.} and Vincent Savolainen and Ole Seberg and Wilkinson, {Michael J.} and Yi, {Dong Keun} and Little, {Damon P.}",

year = "2009",

month = aug,

day = "4",

doi = "10.1073/pnas.0905845106",

language = "English",

volume = "106",

pages = "12794--12797",

journal = "Proceedings of the National Academy of Sciences of the United States of America",

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publisher = "National Academy of Sciences",

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Hollingsworth, PM, Forrest, LL, Spouge, JL, Hajibabaei, M, Ratnasingham, S, van der Bank, M, Chase, MW, Cowan, RS, Erickson, DL, Fazekas, AJ, Graham, SW, James, KE, Kim, KJ, John Kress, W, Schneider, H, van AlphenStahl, J, Barrett, SCH, van den Berg, C, Bogarin, D, Burgess, KS, Cameron, KM, Carine, M, Chacón, J, Clark, A, Clarkson, JJ, Conrad, F, Devey, DS, Ford, CS, Hedderson, TAJ, Hollingsworth, ML, Husband, BC, Kelly, LJ, Kesanakurti, PR, Kim, JS, Kim, YD, Lahaye, R, Lee, HL, Long, DG, Madriñán, S, Maurin, O, Meusnier, I, Newmaster, SG, Park, CW, Percy, DM, Petersen, G, Richardson, JE, Salazar, GA, Savolainen, V, Seberg, O, Wilkinson, MJ, Yi, DK & Little, DP 2009, 'A DNA barcode for land plants', Proceedings of the National Academy of Sciences of the United States of America, vol. 106, no. 31, pp. 12794-12797. https://doi.org/10.1073/pnas.0905845106

TY - JOUR

T1 - A DNA barcode for land plants

AU - Hollingsworth, Peter M.

AU - Forrest, Laura L.

AU - Spouge, John L.

AU - Hajibabaei, Mehrdad

AU - Ratnasingham, Sujeevan

AU - van der Bank, Michelle

AU - Chase, Mark W.

AU - Cowan, Robyn S.

AU - Erickson, David L.

AU - Fazekas, Aron J.

AU - Graham, Sean W.

AU - James, Karen E.

AU - Kim, Ki Joong

AU - John Kress, W.

AU - Schneider, Harald

AU - van AlphenStahl, Jonathan

AU - Barrett, Spencer C.H.

AU - van den Berg, Cassio

AU - Bogarin, Diego

AU - Burgess, Kevin S.

AU - Cameron, Kenneth M.

AU - Carine, Mark

AU - Chacón, Juliana

AU - Clark, Alexandra

AU - Clarkson, James J.

AU - Conrad, Ferozah

AU - Devey, Dion S.

AU - Ford, Caroline S.

AU - Hedderson, Terry A.J.

AU - Hollingsworth, Michelle L.

AU - Husband, Brian C.

AU - Kelly, Laura J.

AU - Kesanakurti, Prasad R.

AU - Kim, Jung Sung

AU - Kim, Young Dong

AU - Lahaye, Renaud

AU - Lee, Hae Lim

AU - Long, David G.

AU - Madriñán, Santiago

AU - Maurin, Olivier

AU - Meusnier, Isabelle

AU - Newmaster, Steven G.

AU - Park, Chong Wook

AU - Percy, Diana M.

AU - Petersen, Gitte

AU - Richardson, James E.

AU - Salazar, Gerardo A.

AU - Savolainen, Vincent

AU - Seberg, Ole

AU - Wilkinson, Michael J.

AU - Yi, Dong Keun

AU - Little, Damon P.

PY - 2009/8/4

Y1 - 2009/8/4

N2 - DNA barcoding involves sequencing a standard region of DNA as a tool for species identification. However, there has been no agreement on which region(s) should be used for barcoding land plants. To provide a community recommendation on a standard plant barcode, we have compared the performance of 7 leading candidate plastid DNA regions (atpF-atpH spacer, matK gene, rbcL gene, rpoB gene, rpoC1 gene, psbK-psbI spacer, and trnH-psbA spacer). Based on assessments of recoverability, sequence quality, and levels of species discrimination, we recommend the 2-locus combination of rbcL+matK as the plant barcode. This core 2-locus barcode will provide a universal framework for the routine use of DNA sequence data to identify specimens and contribute toward the discovery of overlooked species of land plants.

AB - DNA barcoding involves sequencing a standard region of DNA as a tool for species identification. However, there has been no agreement on which region(s) should be used for barcoding land plants. To provide a community recommendation on a standard plant barcode, we have compared the performance of 7 leading candidate plastid DNA regions (atpF-atpH spacer, matK gene, rbcL gene, rpoB gene, rpoC1 gene, psbK-psbI spacer, and trnH-psbA spacer). Based on assessments of recoverability, sequence quality, and levels of species discrimination, we recommend the 2-locus combination of rbcL+matK as the plant barcode. This core 2-locus barcode will provide a universal framework for the routine use of DNA sequence data to identify specimens and contribute toward the discovery of overlooked species of land plants.

KW - Species identification

KW - matK

KW - rbcL

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U2 - 10.1073/pnas.0905845106

DO - 10.1073/pnas.0905845106

M3 - Article

C2 - 19666622

AN - SCOPUS:69149084832

SN - 0027-8424

VL - 106

SP - 12794

EP - 12797

JO - Proceedings of the National Academy of Sciences of the United States of America

JF - Proceedings of the National Academy of Sciences of the United States of America

IS - 31

ER -

A DNA barcode for land plants

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Keywords

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