Genetic variation and phylogenetic relationships of a pantropical species group in Polystachya (Orchidaceae)

Botanical Journal of the Linnean Society

Volumn 165, Issue 3, 2011, Pages 235-250

  Russell, Anton ^a   Samuel, Rosabelle ^a   Bogarín, Diego ^b   Fernando, Suranjan ^c   Wijesundera, Siril ^c   Klejna, Verena ^a   Chase, Mark W ^d  

^a UNIVERSITY OF VIENNA   (Austria)

^b UNIVERSIDAD DE COSTA RICA   (Costa Rica)

^c Royal Botanical Garden ^*  (Sri Lanka)

^d JODRELL LABORATORY   (United Kingdom)

Author keywords

AFLP; Biogeography; Costa Rica; Epiphytic orchid; Low copy nuclear genes; Phylogenetic analysis; Polystachya concreta; Polystachya foliosa; Polystachya masayensis; Population structure; Splits network; Sri Lanka

Indexed keywords

BIOMARKER; GENETIC VARIATION; HERB; MONOCOTYLEDON; NEOTROPICAL KINGDOM; PALEOTROPICAL KINGDOM; PHYLOGENETICS; PHYLOGEOGRAPHY; POLYMORPHISM; POPULATION STRUCTURE;

AFRICA; COSTA RICA; INDIAN OCEAN; INDIAN OCEAN ISLANDS; SRI LANKA;

ORCHIDACEAE; POLYSTACHYA; POLYSTACHYA CONCRETA; POLYSTACHYA FOLIOSA;

EID: 79751499898     PISSN: 00244074     EISSN: 10958339     Source Type: Journal    
DOI: 10.1111/j.1095-8339.2010.01108.x     Document Type: Article

References (50)

1. Ackerman JD, Ward S. 1999. Genetic variation in a widespread, epiphytic orchid: where is the evolutionary potential? Systematic Botany 24: 282-291.
2. Albach DC. 2007. Amplified fragment length polymorphisms and sequence data in the phylogenetic analysis of polyploids: multiple origins of Veronica cymbalaria (Plantaginaceae). New Phytologist 176: 481-498.
3. Arditti J, Ghani AKA. 2000. Tansley review No. 110 - numerical and physical properties of orchid seeds and their biological implications. New Phytologist 145: 367-421.
4. Ávila-Díaz I, Oyama K. 2007. Conservation genetics of an endemic and endangered epiphytic Laelia speciosa (Orchidaceae). American Journal of Botany 94: 184-193.
5. Chase MW, Hills HG. 1991. Silica gel: an ideal material for field preservation of leaf samples for DNA studies. Taxon 40: 215-220.
6. Doyle JJ, Doyle JL. 1987. A rapid DNA isolation procedure for small quantities of fresh leaf tissue. Phytochemical Bulletin, Botanical Society of America 19: 11-15.
7. Dressler RL. 1993. Phylogeny and classification of the orchid family. Cambridge: Cambridge University Press.
8. Ehrich D. 2006. AFLPdat: a collection of R functions for convenient handling of AFLP data. Molecular Ecology Notes 6: 603-604.
9. Ehrich D. 2008. Structure 2.2-sum. Available at: Tromsø: University of Tromsø.
10. Excoffier L, Smouse PE, Quattro JM. 1992. Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data. Genetics 131: 479-491.
11. Frankham R. 1997. Do island populations have less genetic variation than mainland populations? Heredity 78: 311-327.
12. Garay LJ, Sweet HR. 1974. Terminilogía de orchidearum Jacquinii. Orquideologia 9: 200-210.
13. Govaerts R, Campacci MA, Holland Baptista D, Cribb PJ, George A, Kreuz K, Wood J. 2009. World checklist of Orchidaceae. Kew: The Board of Trustees of the Royal Botanic Gardens. Available at: Accessed 12 December 2009.
14. Guo YP, Vogl C, Van Loo M, Ehrendorfer F. 2006. Hybrid origin and differentiation of two tetraploid Achillea species in East Asia: molecular, morphological and ecogeographical evidence. Molecular Ecology 15: 133-144.
15. Harbaugh DT. 2008. Polyploid and hybrid origins of Pacific island sandalwoods (Santalum, Santalaceae) inferred from low-copy nuclear and flow cytometry data. International Journal of Plant Sciences 169: 677-685.
16. Hedrén M. 1996. Genetic differentiation, polyploidization and hybridization in northern European Dactylorhiza (Orchidaceae): evidence from allozyme markers. Plant Systematics and Evolution 201: 31-55.
17. Hedrén M. 2003. Plastid DNA variation in the Dactylorhiza incarnata/maculata polyploid complex and the origin of allotetraploid D.sphagnicola (Orchidaceae). Molecular Ecology 12: 2669-2680.
18. Hedrén M, Fay MF, Chase MW. 2001. Amplified fragment length polymorphisms (AFLP) reveal details of polyploid evolution in Dactylorhiza (Orchidaceae). American Journal of Botany 88: 1868-1880.
19. Holsinger KE, Lewis PO, Dey DK. 2002. A Bayesian approach to inferring population structure from dominant markers. Molecular Ecology 11: 1157-1164.
20. Huson DH, Bryant D. 2006. Application of phylogenetic networks in evolutionary studies. Molecular Biology and Evolution 23: 254-267.
21. Li JT, Yang J, Chen DC, Zhang XL, Tang ZS. 2007. An optimized mini-preparation technique to obtain high-quality genomic DNA from mature leaves of sunflower. Genetics and Molecular Research 6: 1064-1071.
22. McCain JW, Groth JV, Roelfs AP. 1992. Inter- and intrapopulation isozyme variation in collections from sexually reproducing populations of the bean rust fungus, Uromyces appendiculatus. Mycologia 84: 329-340.
23. Mathews S, Sharrock R. 1996. The phytochrome gene family in grasses (Poaceae): a phylogeny and evidence that grasses have a subset of the loci found in dicot angiosperms. Molecular Biology and Evolution 13: 1141-1150.
24. Meudt HM, Clarke AC. 2007. Almost forgotten or latest practice? AFLP applications, analyses and advances. Trends in Plant Science 12: 106-117.
25. Murren CJ. 2003. Spatial and demographic population genetic structure in Catasetum viridiflavum across a human-disturbed habitat. Journal of Evolutionary Biology 16: 333-342.
26. Murren C, Ellison A. 1998. Seed dispersal characteristics of Brassavola nodosa (Orchidaceae). American Journal of Botany 85: 675-680.
27. Nei M. 1973. Analysis of gene diversity in subdivided populations. Proceedings of the National Academy of Sciences, USA 70: 3321-3323.
28. Oxelman B, Yoshikawa N, McConaughy BL, Luo J, Denton AL, Hall BD. 2004. RPB2 gene phylogeny in flowering plants, with particular emphasis on asterids. Molecular Phylogenetics and Evolution 32: 462-479.
29. Pansarin ER, Amaral MCE. 2006. Biologia reprodutiva e polinização de duas espécies de Polystachya Hook. no Sudeste do Brasil: evidência de pseudocleistogamia em Polystachyeae (Orchidaceae). Revista Brasileira de Botânica 29: 423-432.
30. Pillon Y, Fay MF, Hedrén M, Devey DS, Shipunov A, van der Bank M, Bateman RM, Chase MW. 2007. Evolution and temporal diversification of western European polyploid species complexes in Dactylorhiza (Orchidaceae). Taxon 56: 1185-1208.
31. Pritchard JK, Stephens M, Donnelly P. 2000. Inference of population structure using multilocus genotype data. Genetics 155: 945-959.
32. Rupp B, Samuel R, Russell A, Temsch EM, Chase MW, Leitch IJ. 2010. Genome size in Polystachya (Orchidaceae) and its relationships to epidermal characters. Botanical Journal of the Linnean Society 163: 223-233.
33. Russell G. 2007. The Polystachya concreta story. The McAllen International Orchid Society Journal 8: 5-9.
34. Russell A, Samuel R, Klejna V, Barfuss MHJ, Rupp B, Chase MW. 2010a. Reticulate evolution in diploid and tetraploid species of Polystachya (Orchidaceae) as shown by plastid DNA sequences and low-copy nuclear genes. Annals of Botany 106: 37-56.
35. Russell A, Samuel MR, Rupp B, Barfuss MHJ, Šafran M, Besendorfer V, Chase MW. 2010b. Phylogenetics and cytology of a pantropical orchid genus Polystachya (Polystachyinae; Vandeae; Orchidaceae): evidence from plastid DNA sequence data. Taxon 59: 389-404.
36. Samuel R, Kathriarachchi H, Hoffmann P, Barfuss MHJ, Wurdack KJ, Davis CC, Chase MW. 2005. Molecular phylogenetics of Phyllanthaceae: evidence from plastid matK and nuclear PHYC sequences. American Journal of Botany 92: 132-141.
37. Schatz GE. 1996. Malagasy/Indo-Australo-Malesian phytogeographic connections. In: Lourenço WR, ed. Biogeography of Madagascar. Paris: ORSTOM, 73-83.
38. Schlüter PM, Harris SA. 2006. Analysis of multilocus fingerprinting data sets containing missing data. Molecular Ecology Notes 6: 569-572.
39. Ståhlberg D. 2009. Habitat differentiation, hybridization and gene flow patterns in mixed populations of diploid and autotetraploid Dactylorhiza maculata s.l. (Orchidaceae). Evolutionary Ecology 23: 295-328.
40. Sun G, Pourkheirandish M, Komatsuda T. 2009. Molecular evolution and phylogeny of the RPB2 gene in the genus Hordeum. Annals of Botany 103: 975-983.
41. *and other methods). Version 4. Sunderland, MA: Sinauer Associates.
42. Tank DC, Olmstead RG. 2009. The evolutionary origin of a second radiation of annual Castilleja (Orobanchaceae) species in South America: the role of long distance dispersal and allopolyploidy. American Journal of Botany 96: 1907-1921.
43. Tel-Zur N, Abbo S, Myslabodski D, Mizrahi Y. 1999. Modified CTAB procedure for DNA isolation from epiphytic cacti of the genera Hylocereus and Selenicereus (Cactaceae). Plant Molecular Biology Reporter 17: 249-254.
44. Thomas MM, Garwood NC, Baker WJ, Henderson SA, Russell SJ, Hodel DR, Bateman RM. 2006. Molecular phylogeny of the palm genus Chamaedorea, based on the low-copy nuclear genes PRK and RPB2. Molecular Phylogenetics and Evolution 38: 398-415.
45. Trapnell DW, Hamrick JL. 2005. Mating patterns and gene flow in the Neotropical epiphytic orchid, Laelia rubescens. Molecular Ecology 14: 75-84.
46. Trapnell DW, Hamrick JL, Nason JD. 2004. Three-dimensional fine-scale genetic structure of the neotropical epiphytic orchid, Laelia rubescens. Molecular Ecology 13: 1111-1118.
47. Vos P, Hogers R, Bleeker M, Reijans M, Van de Lee T, Hornes M, Frijters A, Pot J, Peleman J, Kuiper M, Zabeau M. 1995. AFLP: a new technique for DNA fingerprinting. Nucleic Acids Research 23: 4407-4414.
48. Wallace LE. 2004. A comparison of genetic variation and structure in the allopolyploid Platanthera huronensis and its diploid progenitors, Platanthera aquilonis and Platanthera dilatata (Orchidaceae). Canadian Journal of Botany 82: 244-252.
49. Werle E, Schneider C, Renner M, Völker M, Fiehn W. 1994. Convenient single-step, one tube purification of PCR products for direct sequencing. Nucleic Acids Research 22: 4354-4355.
50. Yuan Y-M, Wohlhauser S, Möller M, Klackenberg J, Callmander MW, Küpfer P. 2005. Phylogeny and biogeography of Exacum (Gentianaceae): a disjunctive distribution in the Indian Ocean Basin resulted from long distance dispersal and extensive radiation. Systematic Biology 54: 21-34.