Molecular phylogeny and biogeography of Holcoglossum (Orchidaceae: Aeridinae) based on nuclear ITS, and chloroplast trnL-F and matK

Taxon

Volumn 58, Issue 3, 2009, Pages 849-861

  Fan, Jie ^a,b   Qin, Hai Ning ^a   Li, De Zhu ^c   Jin, Xiao Hua ^a,c  

^a INSTITUTE OF GEOLOGY AND GEOPHYSICS   (China)

^b UNIVERSITY OF CHINESE ACADEMY OF SCIENCES   (China)

^c KUNMING INSTITUTE OF BOTANY   (China)

Author keywords

Biogeography; Hengduan Mountains (Hengduanshan); Holcoglossum; Molecular phylogeny; Orchidaceae

Indexed keywords

BIODIVERSITY; CHLOROPLAST; DATA SET; EVOLUTIONARY BIOLOGY; GENE EXPRESSION; HERB; MOLECULAR ANALYSIS; PHYLOGENY; PHYLOGEOGRAPHY; POLLINATION; POPULATION DISTRIBUTION; UPLIFT; VICARIANCE;

ASIA; CHINA; EURASIA; FAR EAST; HENGDUAN MOUNTAINS;

AERIDINAE; HOLCOGLOSSUM; ORCHIDACEAE; VANDEAE;

EID: 70349516250     PISSN: 00400262     EISSN: None     Source Type: Journal    
DOI: 10.1002/tax.583013     Document Type: Article

References (67)

1. Averyanov, L.V. & Averyanova, A.L. 2003. Updated Checklist of the Orchids of Vietnam. Vietnam National University Publishing House, Hanoi.
2. Barker, F.K. & Lutzoni, F.M. 2002. The utility of the in- congruence length difference test. Syst. Bot. 51: 625-637.
3. Bellstedt, D.U., Linder, H.P. & Harley, E.H. 2001. Phyloge- netic relationships in Disa based on non-coding trnL-trnF chloroplast sequences: evidence of numerous repeat re- gions. Amer. J. Bot. 88: 2088-2100.
4. Carlsward, B.S., Whitten, W.M., Williams, N.H. & Bytebier, B. 2006. Molecular phylogenetics of Vandeae (Orchidaceae) and the evolution of leaflessness. Amer. J. Bot. 93: 770-786.
5. Chen, S.T., Guan, K.Y., Zhou, Z.K., Olmstead, R. & Cronk, Q. 2005. Molecular phylogeny of Incarvillea (Bignonia- ceae) based on ITS and trnL-F sequences. Amer. J. Bot. 92: 625-633.
6. Christenson, E.A. 1987. An infrageneric classification of Hol- coglossum Schltr. (Orchidaceae: Sarcanthinae) with a key to the genera of the Aerides-Vanda alliance. Notes Roy. Bot. Gard. Edinburgh 44: 249-256.
7. Christenson, E.A. 1998. Two new species of Holcoglossum Schltr. (Orichidaceae: Aeridinae) from China. Lindleyana 13: 121-124.
8. Christenson, E.A. 2001. Phalaenopsis. Timber Press, Portland.
9. Cunningham, C.W. 1997. Can three incongruence tests predict when data should be combined? Molec. Biol. Evol. 14: 733-740.
10. Dolphin, K., Belshaw, R., Orme, C.D.L. & Quicke, D.L.J. 2000. Noise and incongruence: interpreting results of the incongruence length difference test. Molec. Phylog. Evol. 17: 401-406.
11. Doyle, J.J. & Doyle, J.L. 1987. A rapid isolation procedure from smalll quantities of fresh leaf tissue. Phytochem. Bull. 19: 11-15.
12. Dressler, R.L. 1993. Phylogeny and Classification of the Or- chid Family. Cambridge University Press, Cambridge.
13. Farris, J.S., Källersjö, M., Kluge, A.G. & Bult, C. 1994. Test- ing significance of incongruence. Cladistics 10: 315-319.
14. Farris, J.S., Källersjö, M., Kluge, A.G. & Bult, C. 1995. Constructing a significance test for incongruence. Syst. Biol. 44: 570-572.
15. Garay, L.A. 1972. On the systematics of the monopodial or- chids I. Bot. Mus. Leafl. 23: 149-212.
16. Gravendeel, B., Schuiteman, A. & Vogel, E.F. de. 2005. Mo- lecular dating and vicariance analysis of Coelogyninae (Orchidaceae). Pp. 131-148 in: Bakker, F.T., Chatrou, L.W., Gravendeel, B. & Pelser, P.B. (eds.), Plant Species-level Systematics: New Perspectives on Pattern & Process. Reg-num Vegetabile 143. Gantner, Ruggell.
17. Hall, T.A. 1999. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/ NT. Nucleic Acids Symp. Ser. 41: 95-98.
18. Harbaugh, D.T. & Baldwin, B.G. 2007. Phylogeny and bio- geography of the sandalwoods (Santalum, Santalaceae): repeated dispersals throughout the pacific. Amer. J. Bot. 94: 1028-1040.
19. Harrison, T.M., Copeland, P., Kidd, W.S.F. & Yin, A. 1992. Raising Tibet. Science 255: 1663-1670.
20. Hovenkamp, P. 2001. A direct method for the analysis of vicari- ance patterns. Cladistics 17: 260-265.
21. Jin, X.H. 2005. Generic delimitation and a new infrageneric system in the genus Holcoglossum (Orchidaceae: Aeridi- nae). J. Linn. Soc., Bot. 149: 465-468.
22. Jin, X.H., Chen, S.C. & Li, D.Z. 2007a. Holcoglossum nuji- angense (Orchidaceae), a new species and its pollination system. Nord. J. Bot. 25: 125-128.
23. Jin, X.H., Chen, S.C & Qin, H.N. 2005. Pollination system of Holcoglossum rupestre: a special and unstable system. Pl. Syst. Evol. 254: 31-38.
24. Jin, X.H., Chen, S.C., Qin, H.N., Zhu, G.H. & Siu L.P. 2004b. A new species of Holcoglossum (Orchidaceae) from China. Novon 14: 178-179.
25. Jin X.H., Qin, H.N. & Chen, S.C. 2004a. A new species of Holcoglossum (Orchidaceae: Aeridinae) from China. Kew Bull. 59: 633-635.
26. Jin, X.H., Zhang, T., Gu, Z.J. & Li, D.Z. 2007b. Cytological studies on the genus Holcoglossum (Orchidaceae: Aeridi- nae). J. Linn. Soc., Bot. 154: 283-288.
27. Kocyan, A., Vogel, E.F. de, Conti, E. & Gravendeel, B. 2008. Molecular phylogeny of Aerides (Orchidaceae) based on nuclear and two plastid markers: A step forward in un-derstanding the evolution of the Aerdinae. Molec. Phylog. Evol. 48: 422-443.
28. Lang, K.Y. 1983. The geographical distribution and floristic features of the orchid flora in the Mt. Emei in China. Acta Phytotax. Sin. 21: 254-265.
29. Li, X.W. & Li, J. 1993. A preliminary floristic study on the seed plants from the region of Hengduan Moutain. Acta Bot. Yunnan 15: 217-231.
30. Liu, J.Q., Wang, Y.J., Wang, A.L., Hideaki, O. & Abbott, R.J. 2006. Radiation and diversification within the Ligu- laria-Cremanthodium-Parasenecio complex (Asteraceae) triggered by uplift of the Qinghai-Tibetan Plateau. Molec. Phylog. Evol. 38: 31-49.
31. Liu, K.W., Liu, Z.J., Huang, L.Q., Li, L.Q., Chen, L.J. & Tang, G. D. 2006. Self-fertilization strategy in an orchid. Nature 441: 945-946.
32. Miller, J.T. & Bayer, R.J. 2001. Molecular phylogenetics of Acacia (Fabaceae: Mimosodieae) based on the chloroplast matK coding sequence and flanking trnK intron spacer regions. Amer. J. Bot. 88: 697-705.
33. Mittermeier, R.A., Gil, P.R., Hoffman, M., Pilgrim, J., Brooks, T., Mittermeier, C.G., Lamoreux, J. & da Fonseca, G.A.B. 2005. Hotspots Revisited: Earth's Bio- logically Richest and Most Endangered Terrestrial Ecore- gions. Cemex, Conservation International and Agrupacion Sierra Madre, Monterrey.
34. Myers, N., Mittermeier, R.A., Mittermeier, C.G., da Fonseca, G.A.B. & Kent, J. 2000. Biodiversity hotspots for conservation priorities. Nature 403: 853-858.
35. Nie, Z.L., Wen, J., Sun, H. & Bartholomew, B. 2005. Mono- phyly of Kelloggia Torrey ex Benth. (Rubiaceae) and evo- lution of its intercontinental disjunction between western North America and eastern Asia. Amer. J. Bot. 92: 642-652.
36. Norup, M.V., Dransfield, J., Chase M.W., Barfod, A.S., Fer- nando, E.S. & Baker, W.J. 2006. Homoplasious charac- ter combinations and generic delimitation: a case study from the Indo-Pacific arecoid palms (Arecaceae: Areceae). Amer. J. Bot. 93: 1065-1080.
37. Posada, D. & Crandall, K.A. 1998. Modeltest: testing the model of DNA substitution. Bioinformatics 14: 817-818.
38. Ran, J.H., Wei, X.X. & Wang, X.Q. 2007. Molecular phylog- eny and biogeography of Picea (Pinaceae): implications for phylogeographical studies using cytoplasmic haplotypes. Molec. Phylog. Evol. 41: 405-419.
39. Ronouist, F. & Huelsenbeck, J.P. 2003. MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19: 1572-1574.
40. Schlechter, R. 1919. Orchideologiae Sino-Japonicae Prodro- mus. Feddes Repert. Spec. Nov. Regni Veg. Beih. 4: 285
41. Seidenfaden, G. 1988. The orchid genera in Thailand XIV. Fifty-nine vandoid genera. Opera Bot. 95: 304-308.
42. Seidenfaden, G. 1992. The orchids of Indochina. Opera Bot. 114: 441-443.
43. Shi, Y.F., Li, J.J. & Li, B.Y. 1998. Uplift and Environmental Changes of Qinghai-Tibetan Plateau in the Late Cenozoic. Guangdong Science and Technology Press, Guangzhou. [In Chinese.]
44. Simmons, M.P. & Ochoterena, H. 2000. Gaps as characters in sequence-based phylogenetic analyses. Syst. Biol. 49: 369-381.
45. Spicer, R.A., Harris, N.B., Widdowson, W.M., Herman, A.B., Guo, S., Valdes, P.J., Wolfe, J.A. & Kelley, S.P. 2003. Constant elevation of southern Tibet over the past 15 million years. Nature 421: 622-624.
46. Sun, H. 2002a. Tethys retreat and Himalayas-Hengduanshan mountains uplift and their significane on the origin and development of the Sino-Himalayan elements and alpine flora. Acta Bot. Yunnan 24: 273-288.
47. Sun, H. 2002b. Evolution of Arctic-Tertiary Flora in Himala- yan-Hengduan Mountains. Acta Bot. Yunnan 24: 671-688.
48. Sun, H. & Zhou, Z.K. 1996. The characters and origin of the flora from the big bend gorge of Yalutsangpu (Brahmabu- tra) River, Eastern Himalayas. Acta Phytotax. Sin. 18: 185-204.
49. Sun, H. & Zhou, Z.K. 1997. The phytogeographical affini- ties and nature of the big bend gorge of the Yalu Tsangpo river, S.E. Tibet, E. Himalayas. Chin. J. Appl. Environm. Biol. 3: 184-190.
50. Swofford, D.L. 2002. PAUP*: Phylogenetic Analysis using Parsimony (* and Other Methods), version 4.0b10. Sinauer, Sunderland.
51. Taberlet, P., Gielly, L., Pautou, G. & Bouvet, J. 1991. Univer- sal primers for amplification of three non-coding regions of chloroplast DNA. Pl. Molec. Biol. 17: 1105-1109.
52. Taylor, D.J. & Piel, W.H. 2004. An assessment of accuracy, error, and conflict with support values from genome-scale phylogenetic data. Molec. Biol. Evol. 21: 1534-1537.
53. Thompson, J.D., Gibson, T.J., Plewniak, F., Jeanmougin, F. & Higgins, D.G. 1997. The Clustal X windows inter- face: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 25: 4876-4882.
54. Topik, H., Yukawa, T. & Ito, M. 2005. Molecular phyloge- netics of subtribe Aeridinae (Orchidaceae): insights from plastid matK and nuclear ribosomal ITS sequences. J. Pl. Res. 118: 271-284.
55. Tsai, C.C., Huang, S.C. & Chou, C.H. 2005. Molecular phy- logeny of Phalaenopsis Blume (Orchidaceae) based on the intern al transcribed spacer of the nuclear ribosomal DNA. Pl. Syst. Evol. 256: 1-16.
56. Tsi, Z.H. 1982. A study of the genus Holcoglossum of Orchi- daceae. Acta Phytotax. Sin. 20: 439-444.
57. Tsi, Z.H. 1999. Aeridinae. Pp. 269-437 in: Tsi Z.H. (ed.), Flora Reipublicae Popularis Sinicae, vol. 19. Science Press, Bei- jing.
58. Wang W.T. 1992a. On some distribution patterns and some migration routes found in the eastern Asiatic Region. Acta Phytotax. Sin. 30: 1-24.
59. Wang W.T. 1992b. On some distribution patterns and some mi- gration routes found in the eastern Asiatic Region (cont.). Acta Phytotax. Sin. 30: 97-117.
60. Ward, F.K. 1927. The Sino-Himalayan flora. Proc. Linn. Soc. London 136: 67-74.
61. Ward, F.K. 1935. Sketch of the geography and botany of Tibet. Proc. Linn. Soc. London 148: 138-158.
62. Wei, X.X. & Wang, X.Q. 2004. Recolonization and radiation in Larix (Pinaceae): evidence from nuclear ribosomal DNA paralogues. Molec. Ecol. 13: 3115-3123.
63. Wolfe, J.A. 1975. Some aspects of plant geography of the Northern Hemisphere during the Late Cretaceous and Tertiary. Ann. Missouri Bot. Gard. 62: 264-279.
64. Wu, C.Y. 1980. Vegetation of China. Science Press, Beijing.
65. Wu, C.Y. 1987. Flora of Tibet, vol. 5. Science Press, Beijing.
66. Wu, C.Y. 1988. Hengduan Mountains flora and her signifi- cance. J. Jap. Bot. 63: 297-311.
67. Zhang, Z.Y., Fan, L.M., Yang, J.B., Hao, X.J. & Gu, Z.J. 2006. Alkaloid polymorphism and ITS sequence varia-tion in the Spirea japonica complex (Rosaceae) in China: Traces of the biological effects of the Himalaya-Tibet Plateau uplift. Amer. J. Bot. 93: 762-769.