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Identification of Cambodian Gnetum (Gnetaceae, Gnetales) species by DNA barcoding

  • Kim, Joo Hwan (Department of Biological Science, Daegu University) ;
  • Won, Hyosig (Department of Biological Science, Daegu University)
  • 투고 : 2016.06.08
  • 심사 : 2016.06.13
  • 발행 : 2016.06.30

초록

Gnetum (Gnetaceae, Gnetales) is a gymnosperm genus with ca. 35 species distributed in tropical forests around the world. Due to its dioecious habit and lack of diagnostic characters from vegetative tissue, the identification of Gnetum species is not easy without seeds or reproductive structures. To identify and verify their phylogenetic positions, we applied DNA barcoding to Cambodian Gnetum collections gathered between 2010 and 2015, with previously designed cp matK gene primers. We newly sequenced partial matK sequences from 72 Gnetum collections, 43 out of 72 from Cambodia, and analyzed 115 Gnetum accessions using the neighbor-joining method. The resulting neighbor-joining tree categorized Cambodian Gnetum samples into three clades of species: G. macrostachyum, G. montanum, and G. aff. gracilipes. The recognition of G. aff. gracilipes in Cambodia is reported here for the first time. Taxonomic information for the three recognized Cambodian Gnetum species is provided and the benefits of the taxonomic reevaluation assisted by DNA barcoding are emphasized in this work.

키워드

참고문헌

  1. Ajmal Ali, M. A., G. Gyulai, N. Hidvégi, B. Kerti, F. M.A. Ali Hemaid, A. K. Pandey, and J. Lee. 2014. The changing epitome of species identification - DNA barcoding. Saudi Journal of Biological Sciences 21: 204-231. https://doi.org/10.1016/j.sjbs.2014.03.003
  2. Biye, E. H., K. Balkwill, and G. V. Cron. 2014. A clarification of Gnetum L. (Gnetaceae) in Africa and the description of two new species. Plant Systematics and Evolution 300: 263-272. https://doi.org/10.1007/s00606-013-0879-6
  3. CBOL Plant Working Group. 2009. A DNA barcode for land plants. Proceedings of the National Academy of Sciences of the United States of America 106: 12794-12797. https://doi.org/10.1073/pnas.0905845106
  4. Cheng, W.-C. 1964. A new name for a species of Gnetum. Acta Phytotaxonomica Sinica 9: 386.
  5. Cheng, W.-C., L.-K. Fu, and C.-Y. Cheng. 1975. Gymnospermae Sinicae. Acta Phytotaxonomica Sinica 13: 80-89. (in Chinese).
  6. China Plant BOL Group, D.-Z. Li, L.-M. Gao, H.-T. Li, H. Wang, X.-J. Ge, J.-Q. Liu, Z-D. Chen, S.-L. Zhou, S.-L. Chen, J.-B. Yang, C.-X. Fu, C.-X. Zeng, H.-F. Yan, Y.-J. Zhu, Y.-S. Sun, S.-Y. Chen, L. Zhao, K. Wang, T. Yang, and G.-W. Duan. 2011. Comparative analysis of a large dataset indicates that internal transcribed spacer (ITS) should be incorporated into the core barcode for seed plants. Proceedings of the National Academy of Sciences of the United States of America 108:19641-19646. https://doi.org/10.1073/pnas.1104551108
  7. Dong, W.-P., C. Xu, C.-H. Li, J.-H. Sun, Y.-J. Zuo, S. Shi, T. Cheng, J.-J. Guo, and S.-L. Zhou. 2015. Ycf1, the most promising plastid DNA barcode of land plants. Scientific Report 5: 8348. doi:10.1038/srep08348.
  8. Fazekas, A. J., K. S. Burgess, P. R. Kesanakurti, S. W. Graham, S. G. Newmaster, B. C. Husband, D. M. Percy, M. Hajibabaei, and S. C. H. Barrett. 2008. Multiple multilocus DNA barcodes from the plastid genome discriminate plant species equally well. PLoS ONE 3: e2802. https://doi.org/10.1371/journal.pone.0002802
  9. Fazekas, A. J., M. L. Kuzmina, S. G. Newmaster, and P. M. Hollingsworth. 2012. DNA barcoding methods for land plants. In DNA Barcodes: Methods and Protocols, Methods in Molecular Biology, Vol. 858. Kress, W. J. and D. L. Erickson (eds.), Springer Science+Business Media. Pp. 223-252.
  10. Fu, L., Y. Yu, and M. G. Gilbert. 1999a. Gnetaceae. In Flora of China, Vol. 4, Wu, Z.-Y. and Raven, P. H. (eds.), Beijing, Science Press. Pp 102-105.
  11. Fu, L., Y. Yu, and M. G. Gilbert. 1999b. Validation of an invalidly described species of Gnetum (Gnetaceae) from Hainan Island, China. Novon 9: 187-189. https://doi.org/10.2307/3391796
  12. Hebert, P. D. N., A. Cywinska, S. L. Ball, and J. R. deWaard. 2003. Biological identification through DNA barcodes. Proceedings of the Royal Society, Biological Science Series B. 270: 313-321. https://doi.org/10.1098/rspb.2002.2218
  13. Hiep, N. T. and J. E. Vidal. 1996. Gnetaceae. In Flore du Cambodge, du Laos et du Vietnam, Vol. 28. Morat, P. (ed.), Museum National D'Histoire Naturelle, Paris. Pp. 133-153.
  14. Hou, C., A. M. Humphreys, O. Thureborn, and C. Rydin. 2015. New insights into the evolutionary history of Gnetum (Gnetales). Taxon 64: 239-253. https://doi.org/10.12705/642.12
  15. Kress, W. J., K. J. Wurdack, E. A. Zimmer, L. A. Weigt, and D. H. Janzen. 2005. Use of DNA barcodes to identify flowering plants. Proceedings of the National Academy of Sciences of the United States of America 102: 8369-8374. https://doi.org/10.1073/pnas.0503123102
  16. Kress, W. J., C. Garcia-Robledo, M. Uriarte, and D. L. Erickson. 2015. DNA barcodes for ecology, evolution, and conservation. Trends in Ecology and Evolution 30: 25-35. https://doi.org/10.1016/j.tree.2014.10.008
  17. Kubitzki, K. 1990. Gnetaceae. In The Families and Genera of Vascular Plants, Vol. 1. Pterdophytes and Gymnosperms. Kramer, K. U. and P. S. Green (eds.), Berlin, Heidelberg, Springer. Pp. 383-386.
  18. Lahaye, R., M. van der Bank, D. Bogarin, J. Warner, F. Pupulin, G. Gigot, O. Maurin, S. Duthoit, T. G. Barraclough, and V. Savolainen. 2008. DNA barcoding the floras of biodiversity hotspots. Proceedings of the National Academy of Sciences of the United States of America 105: 2923-2928. https://doi.org/10.1073/pnas.0709936105
  19. Larsson, A. 2014. AliView: a fast and lightweight alignment viewer and editor for large data sets. Bioinformatics 30: 3276-3278. http://dx.doi.org/10.1093/bioinformatics/btu531
  20. Li, F.-W., L.-Y. Kuo, C. J. Rothfels, A. Ebihara, W.-L. Chiou, M. D. Windham, and K. M. Pryer. 2011. rbcL and matK earn two thumbs up as the core DNA barcode for ferns. PLoS One 6: e26597. https://doi.org/10.1371/journal.pone.0026597
  21. Markgraf, F. 1929. Monographie der Gattung Gnetum. Bulletin du Jardin Botanique de Buitenzorg Ser. 3, 10: 407-511.
  22. Markgraf, F. 1930. Diagnoses de Gnetum nouveaux d'Indo-Chine. Bulletin du Museum National d'Histoire Naturelle Ser. 2, 1: 686-687.
  23. Markgraf, F. 1951. Gnetaceae. In Flora Malesiana ser. I, 4. van Steenis, C.G.G.J. (ed.), Batavia Djakart. Pp. 336-471.
  24. Markgraf, F. 1965. New discoveries of Gnetum in tropical America. Annals of the Missouri Botanical Garden 52: 379-386. https://doi.org/10.2307/2394800
  25. Phengklai, C. 1975. Gnetaceae. In Flora of Thailand, Vol. 2, Part 3. Smitinand, T. and K. Larsen (eds.), Applied Scientific Research Corporation of Thailand, Bangkok. Pp. 204-210.
  26. Price, R. A. 1996. Systematics of the Gnetales: a review of morphological and molecular evidence. International Journal of Plant Science 157 (6 Suppl.): S40-S49. https://doi.org/10.1086/297402
  27. Stevenson, D., and T. Zanoni. 1991. Gnetaceae. In Flora of the Guianas (series A) 9. Gorts-van Rijn, A. R. A. (ed.), Royal Botanic Gardens, Kew. Pp. 12-18.
  28. Swofford, D. L. 2002. PAUP*. Phylogenetic Analysis Using Parsimony (* and Other Methods). Version 4. Sinauer Associates, Sunderland. Massachusetts. (4.0a147)
  29. Taylor, H. R. and W. E. Harris. 2012. An emergent science on the brink of irrelevance: a review of the past 8 years of DNA barcoding. Molecular Ecology Resources 12: 377-388. doi: 10.1111/j.1755-0998.2012.03119.x.
  30. Valentini, A., F. Pompanon, and P. Taberlet. 2008. DNA barcoding for ecologists. Trends in Ecology and Evolution 24: 110-117.
  31. Won, H. and S. S. Renner. 2003. Horizontal gene transfer from flowering plants to Gnetum. Proceedings of the National Academy of Sciences of the United States of America 100: 10824-10829. https://doi.org/10.1073/pnas.1833775100
  32. Won, H. and S. S. Renner. 2005a. The internal transcribed spacer of nuclear ribosomal DNA in the gymnosperms Gnetum. Molecular Phylogenetics and Evolution 36: 581-597. https://doi.org/10.1016/j.ympev.2005.03.011
  33. Won, H. and S. S. Renner. 2005b. Molecular evolution of the chloroplast trnT-trnF region in the seed plant lineage Gnetales. Journal of Molecular Evolution 61: 425-436. https://doi.org/10.1007/s00239-004-0240-3
  34. Won, H. and S. S. Renner. 2006. Dating dispersal and radiation in the gymnosperm Gnetum (Gnetales) - Clock calibration when outgroup relationships are uncertain. Systematic Biology 55: 610-622. https://doi.org/10.1080/10635150600812619
  35. Won, H. 2009. Phylogenetic position of Corchoropsis Siebold & Zucc. (Malvaceae s.l.) inferred from plastid DNA sequences. Journal of Plant Biology 52: 411-416. https://doi.org/10.1007/s12374-009-9052-8

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