Combined genotypic-phenotypic phylogeny of the tribe Spathicarpeae (Araceae) with reference to independent events of invasion to Andean regions

Molecular Phylogenetics and Evolution

Volumn 43, Issue 3, 2007, Pages 1023-1039

  Gonçalves, Eduardo G ^a   Mayo, Simon J ^c   Sluys, Marie Anne Van ^b   Salatino, Antonio ^b  

^a UNIVERSIDADE CATÓLICA DE BRASÍLIA   (Brazil)

^b UNIVERSITY OF SÃO PAULO   (Brazil)

^c ROYAL BOTANIC GARDENS   (United Kingdom)

Author keywords

Araceae; Bayesian inference; Bognera; Combined data; Dieffenbachia; matK; Spathicarpeae; Total evidence; trnL F

Indexed keywords

CHLOROPLAST DNA;

ARACEAE; ARTICLE; BAYES THEOREM; CLASSIFICATION; DNA SEQUENCE; GENETICS; GENOTYPE; GEOGRAPHY; MOLECULAR EVOLUTION; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHENOTYPE; PHYLOGENY; SOUTH AMERICA;

ARACEAE; BAYES THEOREM; DNA, CHLOROPLAST; EVOLUTION, MOLECULAR; GENOTYPE; GEOGRAPHY; MOLECULAR SEQUENCE DATA; PHENOTYPE; PHYLOGENY; SEQUENCE ANALYSIS, DNA; SOUTH AMERICA;

ARACEAE; ASTEROSTIGMA; DIEFFENBACHIA; SPATHICARPEAE;

EID: 34249099339     PISSN: 10557903     EISSN: 10959513     Source Type: Journal    
DOI: 10.1016/j.ympev.2007.01.008     Document Type: Article

References (68)

1. Bakker F.T., Culham A., Gomez-Martinez R., Carvalho J., Compton J., Dawtrey R., and Gibby M. Patterns of nucleotide substituition in angiosperms cpDNA trnL (UAA)-trnF(GAA) regions. Mol. Biol. Evol. 17 (2000) 1146-1155
2. Baum B.R. Combining trees as a way of combining data sets for phylogenetic inference, and the desirability of combining gene trees. Taxon 41 (1992) 3-10
3. Bogner J. A preliminary survey of Taccarum (Araceae) including a new species from Bolivia. Willdenowia 19 (1989) 191-198
4. Bogner J. New taxa of Araceae. Sendtnera 4 (1997) 5-12
5. Bogner J., and Gonçalves E.G. The genus Gearum N.E.Br. (Araceae: Tribe Spathicarpeae). Aroideana 22 (1999) 20-29
6. Bogner J., and Hesse M. Zamioculcadoideae, a new subfamily of Araceae. Aroideana 28 (2005) 3-20
7. Bogner J., and Nicolson D.H. A revision of the South American genus Gorgonidium Schott (Araceae: Spathicarpeae). Bot. Jahrb. 109 (1988) 529-554
8. Bogner J., and Nicolson D.H. A revised classification of Araceae with dichotomous keys. Willdenowia 21 (1991) 35-50
9. Bremer K. The limits of amino acid sequence data in angiosperm phylogenetic reconstruction. Evolution 42 (1988) 785-803
10. Coates A.G., Jackson J.B.C., Collins L.S., Cronin T.M., Dowsett L.M., Jung P., and Obando J.A. Closure of the Isthmus of Panama: the near shore marine record of Costa Rica and western Panamá. Geol. Soc. Am. Bull. 104 (1992) 814-828
11. Crisci J.V. Flora Argentina: Araceae. Rev. Mus. La Plata Bot. 11 (1971) 193-284
12. Croat T.B. Revision of Dieffenbachia (Araceae) of Mexico, Central America and the West Indies. Ann. Missouri Bot. Gard. 91 (2004) 668-772
13. Cuénoud P., Savolainden V., Chatrou L.W., Powell M., Grayer R.J., and Chase M.W. Molecular phylogenetics of Caryophyllales based on nuclear 18S rDNA and plastid rbcL, atpB and matK DNA sequences. Am. J. Bot. 89 (2002) 132-144
14. Cunningham C.W. Can three incongruence tests predict when data should be combined. Mol. Biol. Evol. 14 (1997) 733-740
15. De Queiróz A. For consensus (sometimes). Syst. Biol. 42 3 (1993) 368-372
16. De Queiróz A., Donoghue M.J., and Kim J. Separate versus combined analysis of phylogenetic evidence. Annu. Rev. Ecol. Syst. 26 (1995) 657-681
17. Engler, A. 1920. Araceae-Aroideae, Araceae-Pistioideae. In: A. Engler (Ed.), Das Pflanzenreich. 73 (IV.23F):1-274.
18. Eriksson, T. 2001. AutoDecay ver. 5.0 (program distributed by the author). Bergius Foundation, Royal Swedish Academy of Sciences, Stockholm.
19. Farris J.S., Källersjö M., Kluge A.G., and Bult C. Testing significance of incongruence. Cladistics 10 (1995) 315-319
20. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J. Mol. Evol. 17 (1981) 368-376
21. Fitch W.M. Toward defining the course of evolution: minimum change for a specific tree topology. Syst. Zool. 20 (1971) 406-416
22. French J.C., Chung M.G., and Jur Y.K. Chloroplast DNA phylogeny of the Ariflorae. In: Rudall P., Cribb P.J., Cuttler D.F., and Humphries J. (Eds). Monocotyledons: Systematic and Evolution (1995), Royal Botanic Gardens, Kew 255-275
23. Gonçalves E.G. A revised key for the genus Asterostigma Fisch & C.A. Mey. (Araceae: Tribe Spathicarpeae) and a new species from southeastern Brazil. Aroideana 22 (1999) 30-33
24. Gonçalves E.G. Elucidating the elusive Taccarum warmingii (Araceae - Tribe Spathicarpeae) and a revised key for the genus Taccarum. Aroideana 26 (2003) 16-21
25. Gonçalves E.G. New species and two new combinations for the tribe Spathicarpeae (Araceae). Aroideana 26 (2003) 22-26
26. Gonçalves E.G. Araceae from Central Brazil: comments on their diveristy and biogeography. Ann. Missouri Bot. Gard. 91 (2004) 457-463
27. Gonçalves E.G. Two new Andean genera for the tribe Spathicarpeae (Araceae). Willdenowia. 35 (2005) 319-326
28. Gravendeel B., Chase M.W., Vogel E.F., Roos M.C., Mes T.H.M., and Bachmann R. Molecular phylogeny of Coelogyne (Epidendroideae: Orchidaceae) based on plastid RFLPS, matK, and nuclear ribosomal ITS sequences: evidence for polyphyly. Am. J. Bot. 88 10 (2001) 1915-1927
29. Grayum M.H. Evolution and phylogeny of the Araceae. Ann. Missouri Bot. Gard. 77 (1990) 628-697
30. Gregory-Wodzicki K.M. Uplift history of the Central and Northern Andes: a review. GSA Bull. 112 (2000) 1091-1105
31. Grob G.B.J., Gravendeel B., Eurlings M.C.M., and Hetterscheid W.L.A. Phylogeny of the tribe Thomsonieae (Araceae) based on chloroplast matK and trnL intron sequences. Syst. Bot. 27 3 (2002) 453-467
32. Hasegawa M., Kishino H., and Yano T. Dating the human-ape splitting by a molecular clock of mitochondrial DNA. J. Mol. Evol. 22 (1985) 160-174
33. Hilu K.W., and Hongping L. The matK gene: sequence variation and application in plant systematics. Am. J. Bot. 84 6 (1997) 830-839
34. Hilu K.W., Borsch T., Müller K., Soltis D.E., Soltis P.S., Savolainen V., Chase M.W., Powell M.P., Alice L.A., Evans R., Sauquet H., Neinhuis C., Slotta T.A.B., Rohwer J.G., Campbll C.S., and Chatrou L.W. Angiosperm phylogeny based on matK sequence information. Am. J. Bot. 90 (2003) 1758-1776
35. Huelsenbeck J.P., and Crandall K.A. Phylogeny estimation and hypothesis test using maximum likelihood. Ann. Rev. Ecol. Syst. 28 (1997) 437-446
36. Huelsenbeck J.P., Ronquist F., Nielsen R., and Bollback J.P. Bayesian inference of phylogeny and its impact on evolutionary biology. Science 294 (2001) 2310-2314
37. Ito M., Kawamoto A., Kita Y., Yukawa T., and Kurita S. Phylogenetic relationship of Amaryllidaceae based on matK sequence data. J. Plant. Res. 112 (1999) 207-216
38. Jukes T.H., and Cantor C.R. Evolution of protein molecules. In: Munro H.N. (Ed). Mammalian Protein Metabolism (1969), Academic Press, New York 21-132
39. Kelchner S.A. The evolution of non-coding chloroplast DNA and its application in plant systematics. Ann. Missouri Bot. Gard. 87 (2000) 482-498
40. Lee M.S.Y. Uninformative characters and apparent conflict between molecules and morphology. Mol. Biol. Evol. 18 (2001) 676-680
41. Lewis P.O. A likelihood approach to estimating phylogeny from discrete morphological character data. Syst. Biol. 50 (2001) 913-925
42. Maddison D.R. The discovery and importance of multiple islands of most-parsimonious trees. Syst. Zool. 40 (1991) 315-328
43. Madison M.T. A new Asterostigma (Araceae) from Ecuador. Phytologia 35 (1976) 101-102
44. Mayo S.J., Bogner J., and Boyce P.C. The Genera of Araceae (1997), Royal Botanic Gardens, Kew
45. Mindell D.P., and Thacker C.E. Rates of molecular evolution: phylogenetic issues and applications. Ann. Rev. Ecol. Syst. 27 (1996) 279-303
46. Molvray M.P., Kores P.J., and Chase M.W. Polyphyly of mycoheterotrophic orchids and functional influences on floral and molecular characters. In: Wilson K.L., and Morrison D.A. (Eds). Monocotyledons: Systematics and Evolution (2000), CSIRO, Collingwood 441-448
47. Nixon K.C., and Carpenter J.M. On simultaneous analysis. Cladistics 12 (1996) 221-241
48. Nylander J.A.A., Ronquist F., Huelsenbeck J.P., and Nieves-Aldrey J.L. Bayesian analysis of combined data. Syst. Biol. 53 (2004) 47-67
49. Oliveira P.E., Barreto A.M.F., and Suguio K. Late Pleistocene/Holocene climatic and vegetatitonal history of the Brazilian Caatinga: the fossil dunes of the middle São Francisco River. Palaeogeograph. Palaeoclimatol. Palaeoecol. 152 (1999) 319-337
50. Patterson C., Williams D.M., and Humphries C.J. Congruence between molecular and morphological phylogenies. Ann. Rev. Ecol. Syst. 24 (1993) 153-188
51. Posada D., and Crandal K.A. Modeltest, testing the models of substitution. Bioinformatics 14 (1998) 817-818
52. Potter D., Gao F., Bortiri P.E., Oh S.H., and Baggett S. Phylogenetic relationships in Rosaceae inferred from chloroplast matK and trnL-trnF nucleotide sequence data. Pl. Syst. Evol. 231 (2002) 77-89
53. Prado D.E., and Gibbs P.E. Patterns of species distributions in the dry seasonal forests of South America. Ann. Missouri Bot. Gard. 80 (1993) 902-927
54. Rambo S.J. Aráceas Riograndenses. Sellowia. 2 (1950) 119-123
55. Rodriguez F., Oliver J.L., Mari{dotless}́n A., and Medina J.R. The general stochastic method of nucleotide substitution. J. Theor. Biol. 142 (1990) 485-501
56. Salatino A., Salatino M.L.F., Silva R.M., Sluy M.A.V., Giannasi D.E., and Price R.A. Phylogenetic inference in Velloziaceae using chloroplast trnL-F sequences. Syst. Bot. 26 (2001) 92-103
57. Shaffer H.B., Meylan P., and McKnight M.L. Tests of turtle phylogeny: molecular, morphological, and paleontological approaches. Syst. Biol. 46 (1997) 235-268
58. Schott H.W. Synopsis Aroidearum (1856), Typis congregationis mechitharisticae, Vienna
59. Simmons M.P., and Ochoterena H. Gaps as characters in sequence-based phylogenetic analyses. Syst. Biol. 49 (2000) 369-381
60. Sogo A., Setoguchi H., Noguchi J., Jaffré T., and Tobe H. Molecular phylogeny of Casuarinaceae based on rbcL and matK sequences. J. Plant Res. 114 (2001) 459-464
61. Steele K.P., and Vilgalys R. Phylogenetic analysis of Polemoniaceae using nucleotid sequences of the plastid gene matK. Syst. Bot. 19 (1994) 126-142
62. Swofford, D.L. 2002. PAUP*; Phylogenetic Analysis Using Parsimony and other methods. Ver 4.0 beta 10. Sinauer, Sunderland.
63. Taberlet P., Gielly L., Pautou G., and Bouvet J. Universal primers for amplification of three non-coding regions of chloroplast DNA. Plant Mol. Biol. 17 (1991) 1105-1109
64. Thompson J.D., Higgins D.G., and Gibson T.J. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties and weigh matrix choice. Nucl. Acid. Res. 22 (1994) 4673-4680
65. Uhlarz H. Typologische und ontogenetische Untersuchungen an Spathicarpa sagittifolia Schott (Araceae): Wuchsform und Infloreszenz. Beitr. Biol. Pflanzen 57 (1983) 389-429
66. Wiley E.O., Johnson G.D., and Dimmick W.W. The phylogenetic relationships of Lampridiform fishes (Teleostei: Acanthomorpha), based on a total-evidence analysis of morphological and molecular data. Mol. Phylogenet. Evol. 10 (1998) 417-425
67. Yang Z. Maximum-likelihood phylogenetic estimation from DNA sequences with variable rates over sites: approximate methods. J. Mol. Evol. 39 (1994) 306-314
68. Young H. Beetle pollination of Dieffenbachia longispatha (Araceae). Am. J. Bot. 73 (1986) 931-944