Molecular identification of species in Juglandaceae: A tiered method

Journal of Systematics and Evolution

Volumn 49, Issue 3, 2011, Pages 252-260

  Xiang, Xiao Guo ^a,b   Zhang, Jing Bo ^a,b   Lu, An Ming ^a   Li, Rui Qi ^a  

^a INSTITUTE OF BOTANY   (China)

^b UNIVERSITY OF CHINESE ACADEMY OF SCIENCES   (China)

Author keywords

DNA barcoding; ITS; Juglandaceae; matK; rbcL; trnH psbA

Indexed keywords

ANNAMOCARYA; CARYA; CYCLOCARYA; ENGELHARDIA; JUGLANDACEAE; JUGLANS; PLATYCARYA; PTEROCARYA;

EID: 84860390503     PISSN: 16744918     EISSN: 17596831     Source Type: Journal    
DOI: 10.1111/j.1759-6831.2011.00116.x     Document Type: Article

References (69)

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34. Newmaster SG, Ragupathy S. 2009. Testing plant barcoding in a sister species complex of pantropical Acacia (Mimosoideae, Fabaceae). Molecular Ecology Resources 9: 172-180.
35. Nitta JH. 2008. Exploring the utility of three plastid loci for biocoding the filmy ferns (Hymenophyllaceae) of Moorea. Taxon 57: 725-2E(-722).
36. Ren BQ, Xiang XG, Chen ZD. 2010. Species identification of Alnus (Betulaceae) using nrDNA and cpDNA genetic markers. Molecular Ecology Resources 10: 594-605.
37. Conrad F, Salazar GA, Richardson JE, Hollingsworth ML, Barraclough TG, Kelly L, Wilkinson M. 2007. A proposal for a standardised protocol to barcode all land plants. Taxon 56: 295-299. (Pubitemid 47025828)
38. Chen SL, Yao H, Han JP, Liu C, Song JY, Shi LC, Zhu YJ, Ma XY, Gao T, Pang XH, Luo K, Li Y, Li XW, Jia XC, Lin YL, Leon C. 2010. Validation of the ITS2 region as a novel DNA barcode for identifying medicinal plant species. PLoS ONE 5: e8613.
39. Cuenoud P, Savolainen V, Chatrou LW, Powell M, Grayer RJ, Chase MW. 2002. Molecular phylogenetics of the Caryophylles based on 18SrDNA, rbcL, atpB and matK sequences. American Journal of Botany 89: 132-144. (Pubitemid 34196580)
40. Doyle JJ, Doyle JL. 1987. A rapid DNA isolation procedure for small quantities of fresh leaf tissue. Phytochemical Bulletin 19: 11-15.
41. Dunning LT, Savolainen V. 2010. Broad-scale amplification of matK for DNA barcoding plants, a technical note. Botanical Journal of the Linnean Society 164: 1-9.
42. Edwards D, Horn A, Taylor D, Savolainen V, Hawkins JA. 2008. DNA barcoding of a large genus, Aspalathus L. (Fabaceae). Taxon 57: 1317-1314.
43. Fazekas AJ, Burgess KS, Kesanakurti PR, Graham SW, Newmaster SG, Husband BC, Percy DM, Hajibabaei M, Barrett SCH. 2008. Multiple multilocus DNA barcodes from the plastid genome discriminate plant species equally well. PLoS One 3: e2802.
44. Hajibabaei M, Smith MA, Janzen DH, Rodriguez JJ, Whitfield JB, Hebert PDN. 2006. A minimalist barcode can identify a specimen whose DNA is degraded. Molecular Ecology Notes 6: 959-964. (Pubitemid 44807914)
45. Hall TA. 1999. BioEdit: A user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symposium Series 41: 95-98.
46. Hebert PDN, Cywinska A, Ball SL, Dewaard JR. 2003. Biological identifications through DNA barcodes. Proceedings of the Royal Society of London Series B: Biological Science 270: 313-322.
47. Hebert PDN, Penton EH, Burns JM, Janzen DH, Hallwachs W. 2004. Ten species in one: DNA barcoding reveals cryptic species in the neotropical skipper butterfly Astraptes fulgerator. Proceedings of the National Academy of Sciences USA 101: 14812-14817. (Pubitemid 39410757)
48. Kelly LJ, Ameka GK, Chase MW. 2010. DNA barcoding of African Podostemaceae (river-weeds): A test of proposed barcode regions. Taxon 59: 251-260.
49. Kress W, Erickson D. 2007. A two-locus global DNA barcode for land plants: The coding rbcL gene complements the non-coding trnH-psbA spacer region. PLoS One 2: e508.
50. Kress WJ, Wurdack KJ, Zimmer EA, Weigt LA, Janzen DH. 2005. Use of DNA barcodes to identify flowering plants. Proceedings of theNationalAcademy of Sciences USA 102: 8369-8374. (Pubitemid 40803501)
51. Kumar S, Nei M, Dudley J, Tamura K. 2008. MEGA:Abiologistcentric software for evolutionary analysis of DNA and protein sequences. Briefings in Bioinformatics 9: 299-306. (Pubitemid 351890826)
52. Lahaye R, Savolainen V, Duthoit S, Maurin O, Van Der Bank M. 2008a. A test of psbK-psbI and atpF-atpH as potential plant DNA barcodes using the flora of the Kruger National Park (South Africa) as a model system. Nature Precedings [online]. Available from: http://precedings. nature. com/documents/1896/version/ 1/files/npre20081896-1. pdf [accessed 10 November 2008].
53. Lahaye RRY, Van Der Bank M, Bogarin D, Warner J, Pupulin F, Gigot G, Maurin O, Duthoit S, Barraclough TG, Savolainen V. 2008b. DNA barcoding the floras of biodiversity hotspots. Proceedings of the NationalAcademy of Sciences USA 105: 2923-2928. (Pubitemid 351723645)
54. Li RQ, Chen ZD, Lu AM, Soltis DE, Soltis PS, Manos PS. 2004. Phylogenetic relationships in Fagales based on DNA sequences from three genomes. International Journal of Plant Sciences 165: 311-324. (Pubitemid 38791405)
55. Logacheva MD, Valiejo-Roman CM, Pimenov MG. 2008. ITS phylogeny of West Asian Heracleum species and related taxa of Umbelliferae-Tordylieae WDJ Koch, with notes on evolution of their trnH-psbA sequences. Plant Systematics and Evolution 270: 139-157.
56. Lu AM. 1982. On the geographical distribution of the Juglandaceae. Acta Phytotaxonomica Sinica 20: 257-274 (in Chinese with English abstract).
57. Lu AM, Stone DE. 1999. Juglandaceae. In: Wu ZY, Raven PH eds. Flora of China. Beijing: Science Press; St. Louis: Missouri Botanical Garden Press. 4: 277-285.
58. Manchester SR. 1987. The fossil history of the Juglandaceae. Monographs in Systematic Botany from the Missouri Botanical Garden 21: 1-137.
59. Manchester SR. 1999. Biogeographical relationships of North American Tertiary floras. Annals of the Missouri Botanical Garden 86: 472-522. (Pubitemid 29358259)
60. Manning WE. 1978. The classification within the Juglandaceae. Annals of the Missouri Botanical Garden 65: 1058-1087.
61. Manos PS, Steele KP. 1997. Phylogenetic analyses of "higher" Hamamelididae based on plastid sequence data. American Journal of Botany 84: 1407-1419. (Pubitemid 27451559)
62. Manos PS, Stone DE. 2001. Evolution, phylogeny, and systematics of the Juglandaceae. Annals of the Missouri Botanical Garden 88: 231-269. (Pubitemid 32646424)
63. Manos PS, Soltis PS, Soltis DE, Manchester SR, Oh SH, Bell CD, Dilcher DL, Stone DE. 2007. Phylogeny of extant and fossil Juglandaceae inferred from the integration of molecular and morphological data sets. Systematic Biology 56: 412-430.
64. Meier R, Shiyang K, Vaidya G, Ng PKC. 2006. DNA barcoding and taxonomy in Diptera: A tale of high intraspecific variability and low identification success. Systematic Biology 55: 715-728.
65. Newmaster SG, Fazekas AJ, Ragupathy S. 2006. DNA barcoding in land plants: Evaluation of rbcL in a multigene tiered approach. Botany 84: 335-341. (Pubitemid 44426667)
66. Newmaster SG, Fazekas AJ, Steeves RAD, Janovec J. 2008. Testing candidate plant barcode regions in the Myristicaceae. Molecular Ecology Resources 8: 480-490. (Pubitemid 351703576)
67. Newmaster SG, Ragupathy S. 2009. Testing plant barcoding in a sister species complex of pantropical Acacia (Mimosoideae, Fabaceae). Molecular Ecology Resources 9: 172-180.
68. Nitta JH. 2008. Exploring the utility of three plastid loci for biocoding the filmy ferns (Hymenophyllaceae) of Moorea. Taxon 57: 725-2E(-722).
69. Ren BQ, Xiang XG, Chen ZD. 2010. Species identification of Alnus (Betulaceae) using nrDNA and cpDNA genetic markers. Molecular Ecology Resources 10: 594-605.