Biogeography of the Pistia clade (Araceae): Based on chloroplast and mitochondrial DNA sequences and Bayesian divergence time inference

Systematic Biology

Volumn 53, Issue 3, 2004, Pages 422-432

  Renner, Susanne S ^a   Zhang, Li Bing ^b  

^a UNIVERSITY OF MUNICH   (Germany)

^b Department of Environmental and Radiological Health Sciences   (United States)

Author keywords

Araceae; Bayesian divergence time estimation; Biogeography; Chloroplast DNA; Mitochondrial DNA; Phylogeny; Pistia

Indexed keywords

CHLOROPLAST DNA; MITOCHONDRIAL DNA;

ARACEAE; ARTICLE; BIOLOGICAL MODEL; CLASSIFICATION; COMPARATIVE STUDY; DEMOGRAPHY; DNA SEQUENCE; GENETICS; GEOGRAPHY; MOLECULAR EVOLUTION; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHYLOGENY; STATISTICAL MODEL;

ARACEAE; BASE SEQUENCE; DEMOGRAPHY; DNA, CHLOROPLAST; DNA, MITOCHONDRIAL; EVOLUTION, MOLECULAR; GEOGRAPHY; LIKELIHOOD FUNCTIONS; MODELS, GENETIC; MOLECULAR SEQUENCE DATA; PHYLOGENY; SEQUENCE ANALYSIS, DNA;

ALOCASIA; ARACEAE; ARISAEMA; ARUM; BIARUM; EMBRYOPHYTA; EMINIUM; HELICODICEROS; LACTUCA; LEMNA; PINELLIA; PISTIA; PISTIA STRATIOTES; PROTARUM; PROTARUM SECHELLARUM; REMUSATIA; STEUDNERA; STRATIOTES; THERIOPHONUM; TYPHONIUM;

EID: 3242718522     PISSN: 10635157     EISSN: None     Source Type: Journal    
DOI: 10.1080/10635150490445904     Document Type: Article

References (61)

1. Leu group-I intron. Curr. Genet. 37:12-23.
2. Bogner, J., and D. H. Nicolson. 1991. A revised classification of Araceae with dichotomous keys. Wildenowia 21:35-50.
3. Braithwaite, C. J. R. 1984. Geology of the Seychelles. Pages 17-38 in Biogeography and ecology of the Seychelles Islands (D. R. Stoddart, ed.). Junk, The Hague.
4. Brenner, G. J. 1996. Evidence for the earliest stage of angiosperm pollen evolution: A paleoequatorial section from Israel. Pages 91-115 in Flowering plant origin, evolution, and phylogeny (D. W. Taylor and L. J. Kickey, eds.). Chapman & Hall, New York.
5. Brown, J. H., and M. V. Lomolino. 1998. Biogeography, 2nd ed. Sinauer, Sunderland, MA.
6. Buzgo, M. 1994. Inflorescence development of Pistia stratiotes (Araceae). Bot. Jahrb. Syst. 115:557-570.
7. Conant, G. C., and P. O. Lewis. 2001. Effect of nucleotide composition bias on the success of the parsimony criterion in phylogenetic infer-ence. Mol. Biol. Evol. 18:1024-1033.
8. Cummings, M. P., S. A. Handley, D. S. Myers, D. L. Reed, A. Rokas, and K. Winkas. 2003. Comparing bootstrap and posterior probability values in the four-taxon case. Syst. Biol. 52:477-487.
9. DeBry, R. W., and R. G. Olmstead. 2000. A simulation study of reduced tree-search effort in bootstrap resampling analysis. Syst. Biol. 49:171-179.
10. Demesure, B., N. Sodzi, and R. J. Petit. 1995. A set of universal primers for amplification of polymorphic non-coding regions of mitochondrial and chloroplast DNA in plants. Mol. Ecol. 4:129-131.
11. Dorofeev, P. I. 1955. Ob ostatkach rastenij iz treticnych otlozenij v rajone s. Novonikolskogo na Irtyse v Zapadnoj Sibiri. Dokl. Akad. Nauka S.S.S.R. 101:941-944.
12. Dorofeev, P. I. 1958. Novye dannye ob oligocenovoj flore u d. Rezenki v Zapadnoij Sibiri. Dokl. Akad. Nauk. S.S.S.R. 123:543-545.
13. Dorofeev, P. I. 1963. Terticnye flory zapadnoj Sibiri. [The Tertiary floras of western Siberia.] Izd. Akad. Nauka S.S.S.R., Moskva and Leningrad.
14. Doyle, J., and J. Doyle. 1987. A rapid DNA isolation procedure for small quantities of fresh leaf tissue. Phytochem. Bull. 19:11-15.
15. Engler, A. 1920. Araceae-Aroideae und Pistioideae. Pages 1-274 in Das Pflanzenreich (A. Engler, ed.), IV:23F (Heft 73). W. Engelmann, Leipzig.
16. Fauron, C. M.-R., B. Moore, and M. Casper. 1995. Maize as a model of higher plant mitochondrial genome plasticity. Plant Sci. 112:11-32.
17. Felsenstein, J. 1981. Evolutionary trees from DNA sequences: A maximum likelihood approach. J. Mol. Evol. 17:368-376.
18. French, J. C., M. Chung, and Y. Hur. 1995. Chloroplast DNA phylogeny of the Ariflorae. Pages 255-275 in Monocotyledons: Systematics and evolution (P. J. Rudall, P. J. Cribb, D. F. Cutler, and C. J. Humphries, eds.). Royal Botanic Gardens, Kew, London.
19. Friis, E. M. 1985. Angiosperm fruits and seeds from the Middle Miocene of Jutland (Denmark). Kongl. Danske Vid. Selskb. Biol. Skrifter 24:1-165.
20. Grayum, M. H. 1990. Evolution and phylogeny of the Araceae. Ann. Missouri Bot. Gard. 77:628-697.
21. Hamilton, M. B. 1999. Four primer pairs for the amplification of chloroplast intergenic regions with intraspecific variation. Mol. Ecol. 8:521-523.
22. Hasegawa, M., H. Kishino, and T. Yano. 1985. Dating of the human-ape splitting by a molecular clock of mitchondrial DNA. J. Mol. Evol. 22:160-174
23. Hay, A. 1992. A new Australian genus of Araceae, with notes on generic limits and biogeography of the Areae. Bot. J. Linn. Soc. 109:427-434.
24. Hay, A. 1993. The genus Typhonium (Araceae-Areae) in Australasia. Blumea 37:345-376.
25. Herendeen, P. S., and P. R. Crane. 1995. The fossil history of the monocotyledons. Pages 1-21 in Monocotyledons: Systematics and evolution (P. J. Rudall, P. Cribb, D. F. Cutler, and C. J. Humphries, eds.). Royal Botanic Gardens, Kew, London.
26. Hetterscheid, W. L. A., and P. C. Boyce. 2000. A reclassification of Sauromatum Schott and new species of Typhonium Schott (Araceae). Aroideana 23:48-55.
27. Hillis, D. M., and J. J. Bull. 1993. An empirical test of bootstrapping as a method for assessing confidence in phylogenetic analyses. Syst. Biol. 42:182-192.
28. Huelsenbeck, J. P., and F. R. Ronquist. 2001. MrBayes: Bayesian inference of phylogeny. Bioinformatics 17:754-755.
29. Hughes, N. F. 1994. The Enigma of Angiosperm Origins. Cambridge University Press, Cambridge, UK.
30. Kimura, M. 1981. Estimation of evolutionary distances between homologous nucleotide sequences. Proc. Natl. Acad. Sci. U.S.A. 78:454-458.
31. Knowlton, F. H. 1926. Flora of the Latah formation of Spokane, Washington, and Coeur d'Alene, Idaho. U.S. Geological Survey, Reston, VA. Professional Paper 140A:1-81.
32. Kvacek, Z. 1998. Bilina: A window on early Miocene marshland environments. Rev. Palaeobot. Palynol. 101:111-123.
33. Lemon, G. D., and U. Psluszny. 2000. Shoot development and evolution in Pistia stratiotes (Araceae). Int. J. Plant Sci. 161:721-732.
34. Les, D. H., D. J. Crawford, E. Landolt, J. D. Gabel, and R. T. Kimball. 2002. Phylogeny and systematics of Lemnaceae, the duckweed family. Syst. Bot. 27:221-240.
35. Loh, J. P., R. Kiew, A. Hay, A. Kee, L. H. Gan, and Y.-Y. Gan. 2000. Intergeneric and interspecific relationships in Araceae tribe Caladieae and development of molecular markers using amplified fragment length polymorphism (AFLP). Ann. Bot. 85:371-378.
36. Mai, H. D., and H. Walter. 1983. Die fossilen Floren des Weisselster-Beckens und seiner Randgebiete. Hall. Jb. f. Geowiss. 8:59-74.
37. Mayo, S. J. 1993. Aspects of aroid geography. Pages 44-58 in The Africa-South America connection (W. George, and R. Lavocat, eds.). Clarendon Press, Oxford.
38. Mayo, S. J., J. Bogner, and P. C. Boyce. 1997. The Genera of Araceae. Royal Botanic Gardens, Kew, London.
39. Michel, F., and J.-L. Ferat. 1995. Structure and activities of group II introns. Ann. Rev. Biochem. 64:435-461.
40. Michel, F., K. Umesono, and H. Ozeki. 1989. Comparative and functional anatomy of group II catalytic introns - a review. Gene 82:5 30.
41. Minin, V., Z. Abdo, P. Joyce, and J. Sullivan. 2003. Performance-based selection of likelihood models for phylogeny estimation. Syst. Biol. 52:1-10 (on-line).
42. Murata, J. 1990. Present status of Arisaema systematics. Bot. Mag. (Tokyo) 103:371-382.
43. Posada, D., and K. A. Crandall. 1998. ModelTest: Testing the model of DNA substitution. Bioinformatics 14:817-818.
44. Ray, T., and S. S. Renner. 1990. Comparative studies on the morphology of the Araceae. Transl. from A. Engler, 1876, with an introduction, updated nomenclature, and a glossary. Englera 12:1-140.
45. Renner, S. S., and A. Weerasooriya. 2002. Phylogeny of Pistia and its 16 closest generic relatives among Aroideae. AIBS abstracts, published at http://www.botany2002.org/viewer.shtml.
46. Renner, S. S., L.-B. Zhang, and J. Murata. 2004. A chloroplast phylogeny of Arisaema (Araceae) illustrates Tertiary floristic links between Asia, North America, and East Africa. Am. J. Bot. in press.
47. Riedl, H. 1980. The importance of ecology for generic and specific differentiation in Araceae-Aroideae. Aroideana 3:49-54.
48. Rodríguez-Trelles, F., R. Tarrío, and F. J. Ayala. 2002. A methodological bias towards overestimation of molecular evolutionary time scales. Proc. Natl. Acad. Sci. U. S. A. 99:8112-8115.
49. Sanderson, M. J. 1997. A nonparametric approach to estimating divergence times in the absence of rate constancy. Mol. Biol. Evol. 14:1218-1232.
50. Sanderson, M. J. 2002. Estimating absolute rates of molecular evolution and divergence times: A penalized likelihood approach. Mol. Biol. Evol. 19:101-109.
51. Stockey, R. A., G. L. Hoffman, and G. W. Rothwell. 1997. The fossil monocot Limnobiophyllum scutatum: Resolving the phylogeny of Lemnaceae. Am. J. Bot. 84:355-368.
52. Swofford, D. L. 2002. PAUP*. Phylogenetic Analysis Using Parsimony (*and Other Methods). Version 4. Sinauer Associates, Sunderland, MA.
53. Suzuki, Y., G. V. Glazko, and M. Nei. 2002. Overcredibility of molecular phylogenies obtained by Bayesian phylogenetics. Proc. Natl. Acad. Sci. U. S. A. 99:16138-16143.
54. Taberlet, P., L. Gielly, G. Pautou, and J. Bouvet. 1991. Universal primers for amplification of three non-coding regions of chloroplast DNA. Plant Mol. Biol. 17:1105-1109.
55. Thorne, J. L., H. Kishino, and I. S. Painter. 1998. Estimating the rate of evolution of the rate of molecular evolution. Mol. Biol. Evol. 15:1647-1657.
56. Thorne, J. E., and H. Kishino. 2002. Divergence time estimation and rate evolution with multilocus data sets. Syst. Biol. 51:689-702.
57. Wilde, V., Z. Kvacek, and J. Bogner. In press. Fossil leaves of Araceae from the European Eocene and notes on other aroid fossils. Int. J. Plant Sci.
58. Won, H., and S. S. Renner. 2003. Horizontal gene transfer from flowering plants to Gnetum. Proc. Natl. Acad. Sci. U. S. A. 100:10824-10829.
59. Yang, Z. 1997. PAML: A program package for phylogenetic analysis by maximum likelihood. CABIOS 13:555-556. http://abacus.gene.ucl.ac.uk/software/ paml.html.
60. Yang, Z., and A. D. Yoder. 2003. Comparison of likelihood and Bayesian methods for estimating divergence times using multiple gene loci and calibration points, with application to a radiation of cute-looking mouse lemur species. Syst. Biol. 52:1-12.
61. Zhang, L.-B., and S. S. Renner. 2003. The deepest splits in Chloranthaceae as resolved by chloroplast sequences. Int. J. Plant Sci. 164(5 Suppl.):S383-S392.