Phylogenetic systematics and character evolution in the angiosperm family haloragaceae

American Journal of Botany

Volumn 94, Issue 12, 2007, Pages 2005-2025

  Moody, Michael L ^a,b   Les, Donald H ^a  

^a UNIVERSITY OF CONNECTICUT   (United States)

^b UNIVERSITY OF WESTERN AUSTRALIA   (Australia)

Author keywords

Aquatic; Bayes; Floral merosity; Haloragaceae; ITS; matK; Phylogenetics

Indexed keywords

ANGIOSPERM; BAYESIAN ANALYSIS; EVOLUTION; MOLECULAR ANALYSIS; PHYLOGENETICS; TAXONOMY;

CORE EUDICOTYLEDONS; HALORAGACEAE; HALORAGIS; HALORAGODENDRON; MAGNOLIOPHYTA; SAXIFRAGALES;

EID: 37549016423     PISSN: 00029122     EISSN: None     Source Type: Journal    
DOI: 10.3732/ajb.94.12.2005     Document Type: Article

References (82)

1. ALBERT, V. A., M. H. G. GUSTAFFSON, AND L. DILAURENZIO. 1998. Ontogenetic systematics, molecular developmental genetics, and the angiosperm petal. In D. E. Soltis, P. S. Soltis, and J. J. Doyle [eds.], Molecular systematics of plants II, 349-374. Kluwer, New York, New York, USA.
2. ALFARO, M. E., S. ZOLLER, AND F. LUTZONI. 2003. Bayes or bootstrap? A simulation study comparing the performance of Bayesian Markov chain Monte Carlo sampling and bootstrapping in assessing phylogenetic confidence. Molecular Biology and Evolution 20: 255-266.
3. ANGIOSPERM PHYLOGENY GROUP [APG]. 1998. An ordinal classification for the families of flowering plants. Annals of the Missouri Botanical Garden 85: 531-553.
4. ANGIOSPERM PHYLOGENY GROUP [APG II]. 2003. An updated classification of the angiosperms. Botanical Journal of the Linnean Society 141: 399-436.
5. AVISE, J. C. 1994. Molecular markers, natural history and evolution. Chapman and Hall, New York, New York, USA.
6. BALDWIN, B. G., M. J. SANDERSON, J. M. PORTER, M. F. WOJCIECHOWSKI, C. S. CAMPBELL, AND M. J. DONOGHUE. 1995. The ITS region of nuclear ribosomal DNA: a valuable source of evidence on angiosperm phylogeny. Annals of the Missouri Botanical Garden 82: 247-277.
7. BARKER, F. K., AND F. M. LUTZONI. 2002. The utility of the incongruence length difference test. Systematic Biology 51: 625-637.
8. BAWA, B. S. 1969a. Embryological studies on the Haloragidaceae. II. Laurembergia brevipes Schindl. and a discussion of systematic considerations. Proceedings of the National Academy of Sciences, India 35: 273-290.
9. BAWA, B. S. 1969b. Embryological studies on the Haloragidaceae. III. Myriophyllum intermedium DC. Beiträge zur Biologie der Pflanzen 45: 447-464.
10. BROWN, R. 1814. General remarks, geographical and systematical on the botany of Terra Australis. In M. Flinders [ed.], A voyage to Terra Australis, (533-613). G. & W. Nichol, London, UK.
11. BULL, J. J., J. P. HUELSENBECK, C. W. CUNNINGHAM, D. L. SWOFFORD, AND P. J. WADDELL. 1993. Partitioning and combining data in phylogenetic analyses. Systematic Biology 42: 384-397.
12. CANDOLLE, A. P. DE. 1828. Prodromus systematis naturalis regni vegetabilis, sive enumeratio contracta ordinum generum specierumque plantarum huc usque cognitarum, juxta methodi naturalis normas digesta, vol. 3. Sumptibus Sociorum Treuttel et Wurtz, Paris, France.
13. CHIPPINDALE, P. T., AND J. J. WIENS. 1994. Weighting, partitioning, and combining characters in phylogenetic analysis. Systematic Biology 43: 278-287.
14. COOK, C. D. K. 1996. Aquatic plant book. Academic Publishing, New York, New York, USA.
15. COOK, C. D. K. 1999. The numbers and kinds of embryo-bearing plants which have become aquatic: a survey. Perspectives in Plant Ecology, Evolution and Systematics 2: 79-102.
16. CRONK, J. K., AND M. S. FENNESSY. 2001. Wetland plants: biology and ecology. Lewis Publishers, Boca Raton, Florida, USA.
17. CRONQUIST, A. 1968. The evolution and classification of flowering plants. Houghton Mifflin, Boston, Massachusetts, USA.
18. DARLU, P., AND G. LECOINTRE. 2002. When does the incongruence length difference test fail? Molecular Biology and Evolution 19: 432.
19. DOLPHIN, K., R. BELSHAW, D. L. C. ORME, AND D. L. J. QUICKE. 2000. Noise and incongruence: interpreting results of the incongruence length difference test. Molecular Phylogenetics and Evolution 17: 401-406.
20. DONAGHUE, M. J., AND M. J. SANDERSON. 1992. The suitability of molecular and morphological evidence in reconstructing plant phylogeny. In P. S. Soltis, D. E. Soltis, and J. J. Doyle [eds.], Molecular systematics of plants, 340-368. Chapman and Hall, New York, New York, USA.
21. DOYLE, J. J., AND J. L. DOYLE. 1987. A rapid DNA isolation procedure for small quantities of fresh leaf tissue. Phytochemical Bulletin 19: 11-15.
22. DRINNAN, A. N., P. R. CRANE, AND S. B. HOOT. 1994. Patterns of floral evolution in the early diversification of non-magnoliid dicotyledons (eudicots). Plant Systematics and Evolution 8 (Supplement): 93-122.
23. ELLSTRAND, N. C., R. WHITKUS, AND L. H. RIESEBERG. 1996. Distribution of spontaneous plant hybrids. Proceedings of the National Academy of Sciences, USA 93: 5090-5093.
24. ENDRESS, P. K. 1990. Patterns of floral construction in ontogeny and phylogeny. Biological Journal of the Linnean Society 39: 153-175.
25. ENDRESS, P. K. 1994. Floral structure and evolution of primitive angiosperms: recent advances. Plant Systematics and Evolution 192: 79-97.
26. ERIXON, P., B. SVENNBLAD, T. BRITTON, AND B. OXELMAN. 2003. Reliability of Bayesian posterior probabilities and bootstrap frequencies in phylogenetics. Systematic Biology 52: 665-673.
27. FISHBEIN, M., C. HIBSCH-JETTER, D. E. SOLTIS, AND L. HUFFORD. 2001. Phylogeny of Saxifragales (angiosperms, eudicots): analysis of a rapid, ancient radiation. Systematic Biology 50: 817-847.
28. GRAHAM, S. W., P. A. REEVES, A. C. E. BURNS, AND R. G. OLMSTEAD. 2000. Microstructural changes in noncoding chloroplast DNA: interpretation, evolution, and utility of indels and inversions in basal angiosperm phylogenetic inference. International Journal of Plant Sciences 161 (Supplement): S83-S96.
29. HUCKERBY, E., AND F. OLDFIELD. 1976. The quaternary vegetational history of the French pays basque, II. Plant macrofossils, and additional pollen-analytical data. New Phytologist 77: 499-526.
30. HUELSENBECK, J. P., AND F. RONQUIST. 2001. MrBayes: Bayesian inference of phylogenetic trees. Bioinformatics 17: 754-755.
31. HUTCHINSON, J. 1959. The families of flowering plants, vol. 1, 2nd ed. Clarendon Press, Oxford, UK.
32. JOHNSON, L. A., AND D. E. SOLTIS. 1994. matK DNA sequences and phylogenetic reconstruction in Saxifragaceae s. str. Systematic Botany 19: 143-156.
33. JUDD, W. S., C. S. CAMPBELL, E. A. KELLOGG, P. F. STEVENS, AND M. J. DONOGHUE. 2002. Plant systematics: a phylogenetic approach, 2nd ed. Sinauer, Sunderland, Massachusetts, USA.
34. KATZ, J. A., S. V. KATZ, AND M. G. KIPIANOI. 1965. Atlas and keys of fruits and seeds occurring in the quaternary deposits of the USSR Moscow. Academy of Sciences of the U.S.S.R., Commission for Investigations of the Quaternary Period, Nauka, Moscow, U.S.S.R.
35. KIM, Y-D., AND R. K. JANSEN. 1996. Phylogenetic implication of rbcL and ITS sequence variation in the Berberidaceae. Systematic Botany 21: 381-396.
36. LES, D. H., D. J. CRAWFORD, E. LANDOLT, J. D. GABEL, AND R. T. KIMBALL. 2002a. Phylogeny and systematics of Lemnaceae, the duckweed family. Systematic Botany 27: 221-240.
37. LES, D. H., M. L. MOODY, S. W. L. JACOBS, AND R. J. BAYER. 2002b. Systematics of seagrasses (Zosteraceae) in Australia and New Zealand. Systematic Botany 27: 468-484.
38. LEWIS, P. O. 2001. A likelihood approach to estimating phylogeny from discrete morphological character data. Systematic Biology 50: 913-925.
39. LINDER, C. R., AND L. H. RIESEBERG. 2004. Reconstructing patterns of reticulate evolution in plants. American Journal of Botany 91: 1700-1708.
40. MADDISON, D. R., AND W. P. MADDISON. 2001. MacClade. Analysis of phylogeny and character evolution. 4.01. Sinauer, Sunderland, Massachusetts, USA.
41. MADDISON, W. P., AND D. R. MADDISON. 2003. Mesquite: a modular system for evolutionary analyses, version 1.04. Website http://mesquiteproject.org [accessed October 2006].
42. MELCHIOR, H. 1964. Engler's syllabus der Pflanzenfamilien, vol. 2, 12th ed. Gebrüder Bornträger, Berlin, Germany.
43. MOODY, M. L. 2004. Systematics of the angiosperm family Haloragaceae R. Br. emphasizing the aquatic genus Myriophyllum: phylogeny, hybridization and character evolution. Ph.D. dissertation, University of Connecticut, Storrs, Connecticut, USA.
44. MOODY, M. L., L. HUFFORD, D. E. SOLTIS, AND P. S. SOLTIS. 2001. Phylogenetic relationships of Loasaceae subfamily Gronovioideae inferred from matK and ITS sequence data. American Journal of Botany 88: 326-336.
45. MOODY, M. L., AND D. H. LES. 2002. Evidence of hybridity in invasive watermilfoil (Myriophyllum) populations. Proceedings of the National Academy of Sciences, USA 99: 14867-14871.
46. MOOERS, A. O., AND D. SCHLUTER. 1999. Reconstructing ancestor states with maximum likelihood: support for one- and two-rate models. Systematic Biology 48: 623-633.
47. MORGAN, D. R., AND D. E. SOLTIS. 1993. Phylogenetic relationships among Saxifragaceae sensu lato based on rbcL sequence data. Annals of the Missouri Botanical Garden 80: 631-660.
48. NYLANDER, J. A. A. 2003. MrModeltest 1.1b. Department of Systematic Zoology, EBC, Uppsala University, Sweden. Available at website http://www.abc.se/~nylander/.
49. NYLANDER, J. A. A., F. RONQUIST, J. P. HUELSENBECK, AND J. L. NIEVES-ALDREY. 2004. Bayesian phylogenetic analysis of combined data. Systematic Biology 53: 47-67.
50. ORCHARD, A. E. 1975. Taxonomic revisions in the family Haloragaceae. 1. The genera Haloragis, Haloragodendron, Glischrocaryon, Meziella and Gonocarpus. Bulletin of the Auckland Institute and Museum 10: 1-299.
51. ORCHARD, A. E. 1979. Haloragaceae in Australasia. 1. New Zealand: a revision of the genus and a synopsis of the family. Brunonia 2: 247-287.
52. ORCHARD, A. E. 1981. A revision of South American Myriophyllum (Haloragaceae) and its repercussions on some Australian and North American species. Brunonia 4: 27-65.
53. ORCHARD, A. E. 1985. Myriophyllum (Haloragaceae) in Australasia. II. The Australian species. Brunonia 8: 173-291.
54. ORCHARD, A. E. 1990. Flora of Australia: Haloragaceae, vol. 18. AGPS Press, Canberra, Australia.
55. ORCHARD, A. E., AND G. J. KEIGHERY. 1993. The status, ecology and relationships of Meziella (Haloragaceae). Nuytsia 9: 111-117.
56. ORCHARD, A. E., B. J. LEPSCHI, AND M. HISLOP. 2005. New taxa, a new record and a rediscovery in Western Australian Haloragis (Haloragaceae). Nuytsia 15: 431-443.
57. PRAGLOWSKI, J. 1970. The pollen morphology of the Haloragaceae with reference to taxonomy. Grana 10: 159-239.
58. RIESEBERG, L. H. 1991. Homoploid reticulate evolution in Helianthus: evidence from ribosomal genes. American Journal of Botany 78: 1218-1237.
59. RIESEBERG, L. H. 1997. Hybrid origins of plant species. Annual Review of Ecology and Systematics 28: 359-389.
60. RIESEBERG, L. H., AND J. F. WENDEL. 1993. Introgression and its consequences in plants. In R. G. Harrison [ed.], Hybrid zones and the evolutionary process, 70-109. Oxford University Press, New York, New York, USA.
61. ROGSTAD, S. H. 1992. Saturated NaCl-CTAB solution as a means of field preservation of leaves for DNA analyses. Taxon 41: 701-708.
62. RONQUIST, F., AND J. P. HUELSENBECK. 2003. MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics Applications Note 19: 1572-1574.
63. SANG, T., AND Y. ZHONG. 2000. Testing hybridization hypotheses based on incongruent gene trees. Systematic Biology 49: 422-434.
64. SCHINDLER, A. K. 1905. Halorrhagaceae. In H. G. A. Engler [ed.], Das Pflanzenreich, IV, 1-133. Wilhelm Engelmann, Leipzig, Germany.
65. SCULTHORPE, C. D. 1967. The biology of aquatic vascular plants. Edward Arnold, London, UK.
66. SEELANEN, T. A., A. SCHNABEL, AND J. F. WENDEL. 1997. Congruence and consensus in the cotton tribe (Malvaceae). Systematic Botany 22: 259-290.
67. SHAW, H. K. A. 1966. A dictionary of the flowering plants and ferns, 7th ed. Harvard University Press, Cambridge, Massachusetts, USA.
68. SOLTIS, D. E., C. HIBSCH-JETTER, P. S. SOLTIS, M. CHASE, AND J. S. FARRIS. 1997. Molecular phylogenetic relationships among angiosperms: an overview based on rbcL and 18S rDNA sequences. In K. Iwatsuki and P. H. Raven [eds.], Evolution and diversification of land plants. Springer, Tokyo, Japan.
69. SOLTIS, D. E., AND R. K. KUZOFF. 1995. Discordance between nuclear and chloroplast phylogenies in the Heuchera group (Saxifragaceae). Evolution 49: 727-742.
70. SOLTIS, D. E., A. E. SENTERS, M. J. ZANIS, S. KIM, J. D. THOMPSON, P. S. SOLTIS, L. P. RONSE DE CRAENE, P. K. ENDRESS, AND J. S. FARRIS. 2003. Gunnerales are sister to other core eudicots: implications for the evolution of pentamery. American Journal of Botany 90: 461-470.
71. STEBBINS, G. L. 1974. Flowering plants: evolution above the species level. Harvard University Press, Cambridge, Massachusetts, USA.
72. SUZUKI, Y., G. V. GLAZKO, AND M. NEI. 2002. Overcredibility of molecular phylogenies obtained by Bayesian phylogenetics. Proceedings of the National Academy of Sciences, USA 99: 16138-16143.
73. SWOFFORD, D. L. 2000. Phylogenetic analysis using parsimony, version 4.0. Sinauer, Sunderland, Massachusetts, USA.
74. SWOFFORD, D. L., G. J. OLSEN, P. J. WADDELL, AND D. M. HILLIS. 1996. Phylogenetic inference. In D. M. Hillis, C. Moritz, and B. K. Mable [eds.], Molecular systematics, 407-514. Sinauer, Sunderland, Massachusetts, USA.
75. TAKHTAJAN, A. 1969. Flowering plants: origin and dispersal. Smithsonian Institution Press, Washington, D.C., USA.
76. THORNE, R. F. 1968. Synopsis of a putatively phylogenetic classification of the flowering plants. Aliso 6: 57-66.
77. WENDEL, J. F., AND J. J. DOYLE. 1998. Phylogenetic incongruence: window into genome history and molecular evolution. In P. Soltis, D. Soltis, and J. Doyle [eds.], Molecular systematics of plants II, 265-296. Kluwer, Dordrecht, Netherlands.
78. WENDEL, J. F., A. SCHNABEL, AND T. SEELANAN. 1995. Bidirectional interlocus concerted evolution following allopolyploid speciation in cotton (Gossypium). Proceedings of the National Academy of Sciences, USA 92: 280-284.
79. WENDEL, J. F., J. MC D. STEWART, AND J. H. RETTIG. 1991. Molecular evidence for homoploid reticulate evolution among Australian species of Gossypium. Evolution 45: 694-711.
80. WHITE, T. J., S. L. BRUNS, AND J. TAYLOR. 1990. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In M. A. Innis, D. H. Gelfand, J. J. Sninsky, and T. J. White [eds.], PCR protocols: a guide to methods and applications, 315-322. Academic Press, San Diego, California, USA.
81. WILCOX, T. P., D. J. ZWICKL, T. A. HEATH, AND D. M. HILLIS. 2002. Phylogenetic relationships of the dwarf boas and a comparison of Bayesian and bootstrap measures of phylogenetic support. Molecular Phylogenetics and Evolution 25: 361-371.
82. YODER, A. D., J. A. IRWIN, AND B. A. PAYSEUR. 2001. Failure of the ILD to determine data combinability for slow loris phylogeny. Systematic Biology 50: 408-424.