New universal matK primers for DNA barcoding angiosperms

Journal of Systematics and Evolution

Volumn 49, Issue 3, 2011, Pages 176-181

  Yu, Jing ^a   Xue, Jian Hua ^b   Zhou, Shi Liang ^a  

^a INSTITUTE OF BOTANY   (China)

^b UNIVERSITY OF CHINESE ACADEMY OF SCIENCES   (China)

Author keywords

Angiosperm; DNA barcoding; matK; Primer

Indexed keywords

EMBRYOPHYTA; MAGNOLIOPHYTA;

EID: 84860403938     PISSN: 16744918     EISSN: 17596831     Source Type: Journal    
DOI: 10.1111/j.1759-6831.2011.00134.x     Document Type: Article

References (30)

1. Barthet MM. 2006. Expression and function of the chloroplastencoded gene matK. Blacksburg: Virginia Polytechnic Institute and State University.
2. CBOL Plant Working Group. 2009. A DNA barcode for land plants. Proceedings of the National Academy of Sciences USA 106: 12794-12797.
3. Chase MW, Cowan RS, Hollingsworth PM, Petersen G, Seberg O, Jorgsensen T, Cameron KM, Carine M. 2007. A proposal for a standardised protocol to barcode all land plants. Taxon 56: 295-299. (Pubitemid 47025828)
4. ChaseMW, SalaminN, WilkinsonM, Dunwell JM, Kesanakurthi RP, Haidar N, Savolainen V. 2005. Land plants and DNA barcodes: short-term and long-term goals. Philosophical Transactions of the Royal Society Series B Biological Sciences 360: 1889-1895. (Pubitemid 44365049)
5. Cuenoud P, Savolainen V, Chatrou LW, Powell M, Grayer RJ, Chase MW. 2002. Molecular phylogenetics of Caryophyllales based on nuclear 18S rDNA and plastid rbcL, atpB, and matK DNA sequences. American Journal of Botany 89: 132-144. (Pubitemid 34196580)
6. Doyle JJ, Doyle JL. 1987. A rapid DNA isolation procedure for small quantities of fresh leaf tissue. Phytochemical Bulletin 19: 11-15.
7. 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.
8. Fazekas AJ, Burgess KS, Kesanakurti PR, Graham SW, Newmaster SG, Husband BC, PercyDM, Hajibabaei M, Barrett SCH. 2008. Multiple multilocus DNA barcodes from the plastid genome discriminate plant species equally well. PLOS one 3: e2802.
9. Gao X, Zhu YP, Wu BC, Zhao YM, Chen JQ, Hang YY. 2008. Phylogeny of Dioscorea sect. Stenophora based on chloroplast matK, rbcL and trnL-F sequences. Journal of Systematics and Evolution 46: 315-321.
10. Hausner G, Olson R, Simon D, Johnson I, Sanders ER, Karol KG, McCourt RM, Zimmerly S. 2006. Origin and evolution of the chloroplast trnK (matK) intron: a model for evolution of group II intron RNA structures. Molecular Biology and Evolution 23: 380-391. (Pubitemid 43100052)
11. Hebert PDN, Cywinska A, Ball SL, DeWaard JR. 2003. Biological identifications through DNA barcodes. Proceedings of the Royal Society B: Biological Sciences 270: 313-321. (Pubitemid 36228536)
12. Hilu KW, Borsch T, Muller K, Soltis DE, Soltis PS, Savolainen V, Chase MW, Powell MP, Alice LA, Evans R. 2003. Angiosperm phylogeny based on matK sequence information. American Journal of Botany 90: 1758-1776. (Pubitemid 38092687)
13. Kress WJ, Erickson DL. 2007. A two-locus global DNA barcode for land plants: the coding rbcL gene complements the noncoding trnH-psbA spacer region. PLOS one 2: e508.
14. 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)
15. Lahaye R, Van der Bank M, Bogarin D, Warner J, Pupulin F, Gigot G, Maurin O, Duthoit S, Barraclough TG, Savolainen V. 2008. DNA barcoding the floras of biodiversity hotspots. Proceedings of theNationalAcademy of Sciences USA 105:2923-2928. (Pubitemid 351723645)
16. Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, McWilliam H, Valentin F, Wallace IM, Wilm A, Lopez R, Thompson JD, Gibson TJ, Higgins DG. 2007. Clustal W and Clustal X version 2. 0. Bioinformatics 23: 2947-2948.
17. Li X-X, Zhou Z-K. 2007. The higher-level phylogeny of monocots based on matK, rbcL and 18S rDNA sequences. Acta Phytotaxonomica Sinica 45: 113-133. (Pubitemid 46584575)
18. Librado P, Rozas J. 2009. DnaSP v5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics 25: 1451-1452.
19. Müller KF, Borsch T, Hilu KW. 2006. Phylogenetic utility of rapidly evolving DNA at high taxonomical levels: contrasting matK, trnT-F, and rbcL in basal angiosperms. Molecular Phylogenetics and Evolution 41: 99-117. (Pubitemid 44376584)
20. Neuhaus H, Link G. 1987. The chloroplast tRNA Lys (UUU) gene from mustard (Sinapis alba) contains a class II intron potentially coding for a maturase-related polypeptide. Current Genetics 11: 251-257.
21. 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)
22. 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)
23. Page RDM. 1993. COMPONENT: tree comparison software for Microsoft Windows Ver 2. 00a. User's Guide. London: Natural History Museum.
24. Qiu YL, Lee J, Bernasconi-Quadroni F, Soltis DE, Soltis PS, Zanis M, Zimmer EA, Chen Z, Savolainen V, Chase MW. 1999. The earliest angiosperms: evidence from mitochondrial, plastid and nuclear genomes. Nature 402: 404-407. (Pubitemid 129544826)
25. Rambaut A. 1996. Se-Al: Sequence Alignment Editor (Se-Al v2. 0a11) [online]. Available from: http://tree. bio. ed. ac. uk/software/seal [accessed 24 March 2009].
26. Sass C, Little DP, StevensonDW, SpechtCD. 2007. DNA barcoding in the cycadales: testing the potential of proposed barcoding markers for species identification of cycads. PLOS one 2: e1154.
27. Swofford DL. 2000. PAUP. 4. 0: Phylogenetic analysis using parsimony (* and other methods). Version 4. 0 b10. Sunderland, MA: Sinauer Associates.
28. Wang Y-L, Li Y, Zhang S-Z, Yu X-S. 2006. The utility of matK gene in the phylogenetic analysis of the genus Magnolia. Acta Phytotaxonomica Sinica 44: 135-147. (Pubitemid 43844511)
29. Wolfe KH. 1991. Protein-coding genes in chloroplastDNA: compilation of nucleotide sequences, data base entries, and rates of molecular evolution. In: Bogorad L, Vasil IK eds. Cell culture and somatic cell genetics of plants. Vol. 7B. SanDiego: Academic Press. 467-482.
30. Yoo HS, Eah J, Kim JS, Kim Y, Min M, Paek WK, Lee H, Kim C. 2006. DNA barcoding Korean birds. Molecules and Cells 22: 323-327. (Pubitemid 46062297)