Plant dna barcodes can accurately estimate species richness in poorly known floras

PLoS ONE

Volumn 6, Issue 11, 2011, Pages

  Costion, Craig ^a,b   Ford, Andrew ^c   Cross, Hugh ^a,d   Crayn, Darren ^b   Harrington, Mark ^b   Lowe, Andrew ^a,d  

^a UNIVERSITY OF ADELAIDE   (Australia)

^b JAMES COOK UNIVERSITY   (Australia)

^c CSIRO   (Australia)

^d State Herbarium of South Australia   (Australia)

Author keywords

[No Author keywords available]

Indexed keywords

PLANT DNA; VEGETABLE PROTEIN;

ACCURACY; ANGIOSPERM; ARTICLE; CONTROLLED STUDY; DNA BARCODING; FLORA; GENE LOCUS; GENETIC VARIABILITY; INTRASPECIFIC VARIATION; MATK GENE; MONOPHYLY; NONHUMAN; PHYTOCHEMISTRY; PLANT GENE; PSBA GENE; RBCLA GENE; SPECIES DIVERSITY; SPECIES RICHNESS; TRNH GENE; TROPICAL RAIN FOREST; CLASSIFICATION; GENETICS; METHODOLOGY; PHYLOGENY; PLANT; TREE;

MAGNOLIOPHYTA; TRACHEOPHYTA;

DNA BARCODING, TAXONOMIC; DNA, PLANT; PHYLOGENY; PLANT PROTEINS; PLANTS; TREES;

EID: 80855128836     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0026841     Document Type: Article

References (36)

1. Myers N, Mittermeier RA, Mittermeier CG, da Fonseca GAB, Kent J, (2000) Biodiversity hotspots for conservation priorities. Nature 403: 853-858.
2. Gonzalez MA, Baraloto C, Engel1 J, Mori SA, Pétronelli P, et al. (2009) Identification of Amazon trees with DNA barcodes. PLoS ONE 4 (10): e7483.
3. Brooks TM, Mittermeier RA, da Fonseca GAB, Gerlach J, Hoffmann M, et al. (2006) Global biodiversity conservation priorities. Science 313: 58-61.
4. Smith MA, Woodley NE, Janzen DH, Hallwachs W, Hebert PD, (2006) DNA barcodes reveal cryptic host-specificity within the presumed polyphagous members of a genus of parasitoid flies (Diptera: Tachinidae). Proc Natl Acad Sci USA 103 (10): 3657-62.
5. Burns JM, Janzen DH, Hajibabaei M, Hallwachs W, Hebert PD, (2008) DNA barcodes and cryptic species of skipper butterflies in the genus Perichares in Area de Conservacion Guanacaste, Costa Rica. Proc Natl Acad Sci U S A 105 (17): 6350-5.
6. Jackson RB, Moore LA, Hoffmann WA, Pockman WT, Linder CR, (1999) Ecosystem rooting depth determined with caves and DNA. Proc Natl Acad Sci USA 96: 11387-11392.
7. Kesanakurti PR, Fazekas AJ, Burgess KS, Percy DM, Newmaster SG, et al. (2011) Spatial patterns of plant diversity below-ground as revealed by DNA barcoding. Mol Ecol 20 (6): 1289-302.
8. Armstrong KF, Ball SL, (2005) DNA barcodes for biosecurity: invasive species identification. Phil Trans R Soc B 360: 1813-1823.
9. Cross HB, Lowe AJ, Gurgel CF, (2010) DNA barcoding of Invasive Species. In: Richardson D, editors. Fifty years of invasion ecology: The legacy of Charles Elton (Ed. Richardson D.) Chapter 22. Blackwells.
10. Bickford D, Lohman DJ, Sodhi NS, Ng PKL, Meier R, et al. (2007) Cryptic species as a window on diversity and conservation. Trends Ecol Evol 22 (3): 148-155.
11. Lara A, Ponce de Leon JL, Rodriguez R, Casanova D, Côté G, et al. (2009) DNA barcoding of Cuban freshwater fishes: evidence for cryptic species and taxonomic conflicts. Mol Ecol Res 10: 421-430.
12. Kaartinen R, Stone GN, Hearn J, Lohse K, Roslin T, (2010) Revealing secret liaisons: DNA barcoding changes our understanding of food webs. Ecol Entomol 35: 623-638.
13. Bonants P, Groenewald E, Rasplus JY, Maes M, De Vos P, (2010) QBOL: a new EU project focusing on DNA barcoding of Quarantine organisms. Eppo Bulletin 40 (1): 30-33.
14. Eaton MJ, Meyers GL, Kolokotronis SO, Leslie MS, Martin AP, et al. (2010) Barcoding bushmeat: molecular identification of Central African and South American harvested vertebrates. Conserv Genet 11: 1389-1404.
15. Lowe AJ, Cross HB, (2011) The Application of DNA to Timber Tracking and Origin Verification. Int Assoc Wood Anat J 32: 251-262.
16. Lahaye R, van der Bank M, Bogarin D, Warner J, Pupulin F, et al. (2008) DNA barcoding the floras of biodiversity hotspots. Proc Natl Acad Sci USA 105: 2923-2928.
17. Kress JW, Erickson DL, (2008) DNA Barcoding-a Windfall for Tropical Biology? Biotropica 40 (4): 405-408.
18. Colpaert N, Cavers S, Bandou E, Caron H, Gheysen G, et al. (2005) Sampling tissue for DNA analysis of trees: trunk cambium as an alternative to canopy leaves. Silv Genet 54: 265-269.
19. CBOL Plant Working Group (2009) A DNA barcode for land plants. Proc Natl Acad Sci USA 106: 12794-12797.
20. Hall TA, (1999) BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucl Acids Symp Ser 41: 95-98.
21. Tamura K, Peterson D, Peterson N, Stecher G, Nei M, et al. (2011) MEGA5: Molecular Evolutionary Genetics Analysis using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods. Mol Biol Evol (in press).
22. Kress WJ, Erickson DL, (2007) A Two-Locus Global DNA Barcode for Land Plants: The Coding rbcL Gene Complements the Non-Coding trnHpsbA Spacer Region. PLoS ONE 2 (6): e508.
23. Dunning LT, Savolainen V, (2010) Broad-scale amplification of matK for DNA barcoding plants, a technical note. Bot J Linn Soc 164: 1-9.
24. Whitlock BA, Hale AM, Groff PA, (2010) Intraspecific Inversions Pose a Challenge for the trnH-psbA Plant DNA Barcode. PLoS ONE 5 (7): e11533.
25. Fazekas AJ, Kesanakurti PR, Burgess KS, Percy DM, Graham SW, et al. (2009) Are plant species inherently harder to discriminate than animal species using DNA barcoding markers? Mol Ecol Res 9s1: 130-139.
26. Kress JW, Erickson DL, Jones FA, Swenson NG, Perez R, et al. (2009) Plant DNA barcodes and a community phylogeny of a tropical forest dynamics plot in Panama. Proc Natl Acad Sci USA 106: 18621-18626.
27. Faith DP, (1992) Conservation evaluation and phylogenetic diversity. Biol Consv 61: 1-10.
28. Sechrest W, Brooks TM, da Fonseca GAB, Konstant WR, Mittermeler RA, et al. (2002) Hotspots and the conservation of evolution history. Proc Natl Acad Sci USA 99: 2067-2071.
29. Forest F, Grenyer R, Rouget M, Davies TJ, Cowling RM, et al. (2007) Preserving the evolutionary potential of floras in biodiversity hotspots. Nature 445: 757-760.
30. Faith DP, (2008) Threatened Species and the Potential Loss of Phylogenetic Diversity: Conservation Scenarios Based on Estimated Extinction Probabilities and Phylogenetic Risk Analysis. Consv Biol 22: 1461-1470.
31. Edwards D, Horn A, Taylor D, Savolainen V, Hawkins JA, (2008) DNA barcoding of a large genus, Aspalathus L. (Fabaceae). TAXON 57: 1317-1327.
32. Du ZY, Qimike A, Yang CF, Chen JM, Wang QF, (2011) Testing four barcoding markers for species identification of Potamogetonaceae. Jour Syst Evol In press.
33. Ratnasingham S, Hebert PDN, (2007) BOLD: The Barcode of Life Data System (www.barcodinglife.org). Mol Ecol Notes 7: 355-364.
34. Newmaster SG, Ragupathy S, (2009) Testing plant barcoding in a sister species complex of pantropical Acacia (Mimosoideae, Fabaceae). Mol Ecol Res 9 (Suppl. 1): 172-180.
35. Ragupathy S, Newmaster SG, Murugesan M, Balasubramaniam V, (2009) DNA barcoding discriminates a new cryptic grass species revealed in an ethnobotany study by the hill tribes of the Western Ghats in southern India. Mol Ecol Res 9 (Suppl. 1): 164-171.
36. Rubinoff D, Cameron S, Will K, (2006) Are plant DNA barcodes a search for the Holy Grail? Trends Ecol Evol 21: 1-2.