Molecular phylogenetics of core Brassicales, placement of orphan genera Emblingia, Forchhammeria, Tirania, and character evolution

Systematic Botany

Volumn 29, Issue 3, 2004, Pages 654-669

  Hall, Jocelyn C ^a,b   Iltis, Hugh H ^a   Sytsma, Kenneth J ^a  

^a UNIVERSITY OF WISCONSIN MADISON   (United States)

^b HARVARD UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BRASSICACEAE; BRASSICALES; EMBLINGIA; EMBRYOPHYTA; FORCHHAMMERIA; FORCHHAMMERIA PALLIDA; GYROSTEMONACEAE; PENTADIPLANDRACEAE; RESEDACEAE; TOVARIACEAE;

EID: 4444315082     PISSN: 03636445     EISSN: None     Source Type: Journal    
DOI: 10.1600/0363644041744491     Document Type: Article

References (91)

1. AIRY SHAW, H. K. 1965. Diagnoses of new families, new names, etc., for the seventh edition of Willis's 'Dictionary'. Kew Bulletin 18: 249-273.
2. ALVERSON, W. S., KAROL, K. G., D. A. BAUM, M. W. CHASE, S. M. SWENSEN, R. MCCOURT, and K. J. SYTSMA. 1998. Circumscription of the Malvales and relationships to other Rosidae: evidence from rbcL sequence data. American Journal of Botany 85: 876-887.
3. _, R. NYFFELER, B. WHITLOCK, C. BAYER, and D. A. BAUM. 1999. Phylogenetic analysis of the core Malvales based on sequences of ndhF. American Journal of Botany 86: 1474-1486.
4. ANDERSSON, L. and S. ANDERSSON. 2000. A molecular phylogeny of Tropaeolaceae and its systematic implications. Taxon 49: 721-736.
5. APG (ANGIOSPERM PHYLOGENY GROUP). 1998. An ordinal classification for the families of flowering plants. Annals of the Missouri Botanical Garden 85: 531-553.
6. _. 2003. An update of the Angiosperm Phylogeny Group classification for the orders and families of flowering plants: APG II. Botanical Journal of the Linnean Society 141: 399-436.
7. APPEL, O. and I. A. AL-SHEHBAZ. 2003. Cruciferae. Pp. 75-174 in The families and genera of vascular plants: V. Flowering plants, dicotyledons: Malvales, Capparales, and non-betalain Caryophyllales, eds. K. Kubitzki and C. Bayer. Berlin: Springer.
8. _ and C. BAYER. 2003. Tovariaceae. Pp 397-399 in The families and genera of flowering plants: V. Flowering plants, Dicotyledons: Malvales, Capparales, and non-betalain Caryophyllales, eds. K. Kubitzki and C. Bayer. Berlin: Springer.
9. APPELQUIST, W. L. and R. S. WALLACE. 2001. Phylogeny of the portulaceous cohort based on ndhF sequence data. Systematic Botany 26: 409-416.
10. BARKER, F. K. and F. M. LUTZONI. 2002. The utility of the incongruence length difference test. Systematic Biology 51: 625-637.
11. BARRETT, S. C. H. 2002. The evolution of plant sexual diversity. Nature Reviews Genetics 3: 274-284.
12. BAUM, D. A., K. J. SYTSMA, and P. C. HOCH. 1994. A phylogenetic analysis of Epilobium (Onagraceae) based on nuclear ribosomal DNA sequences. Systematic Botany 26: 406-419.
13. BAYER, C. and O. APPEL. 2003a. Pentadiplandraceae. Pp. 329-331 in The families and genera of vascular plants: V. Flowering plants, dicotyledons: Malvales, Capparales, and non-betalain Caryophyllales, eds. K. Kubitzki and C. Bayer. Berlin: Springer.
14. _ and _. 2003b. Akaniaceae. Pp. 21-24 in The families and genera of vascular plants: V. Flowering plants, dicotyledons: Malvales, Capparales, and non-betalain Caryophyllales, eds. K. Kubitzki and C Bayer. Berlin: Springer.
15. _ and _. 2003c. Bataceae. Pp. 30-32 in The families and genera of vascular plants: V. Flowering plants, dicotyledons: Malvales, Capparales, and non-betalain Caryophyllales, eds. K. Kubitzki and C. Bayer. Berlin: Springer.
16. BUCKLEY, T. R., P. ARENSBURGER, C. SIMON, and G. K. CHAMBERS. 2002. Combined data, Bayesian phylogenetics, and the origin of the New Zealand cicada genera. Systematic Biology 51: 4-18.
17. _, C. SIMON, H. SHIMODAIRA, and G. K. CHAMBERS. 2001. Evaluating hypotheses on the origin and evolution of the New Zealand alpine cicadas (maoricicada) using multiple comparison tests of tree topology. Molecular Biology and Evolution 18: 223-234.
18. CARLQUIST, S. 1985. Vegetative anatomy and familial placement of Tovaria. Aliso 11: 69-76.
19. CHANDLER, G. T. and R. J. BAYER. 2000. Phylogenetic placement of the enigmatic Western Australian genus Emblingia based on rbcL sequences. Plant Species Biology 15: 67-72.
20. CHARLESWORTH, B. and D. CHARLESWORTH. 1978. A model for the evolution of dioecy and gynodioecy. American Naturalist 112: 975-997.
21. CONTI, E., T. ERIKSSON, J. SCHONENBERGER, K. J. SYTSMA, and D. A. BAUM. 2002. Early Tertiary out-of-India dispersal of Crypteroniaceae: evidence from phylogeny and molecular dating. Evolution 56: 1931-1942.
22. _, A. LITT, and K. J. SYTSMA. 1996. Circumscription of Myrtales and their relationships to other rosids: evidence from rbcL sequence data. American Journal of Botany 83: 221-233.
23. _, _, P. G. WILSON, S. A. GRAHAM, B. G. BRIGGS, L. A. S. JOHNSON, and K. J. SYTSMA. 1997. Interfamilial relationships in Myrtales: molecular phylogeny and patterns of morphological evolution. Systematic Botany 22: 629-647.
24. CRONQUIST, A. 1981. An integrated system of classification of flowering plants. Columbia University Press, New York, New York, USA.
25. DARLU, P. and G. LECOINTRE. 2002. When does the incongruence length difference test fail? Molecular Biology and Evolution 19: 432-437.
26. DICKISON, W. C. and R. B. MILLER. 1993. Morphology and anatomy of the malagasy genus Physena (Physenaceae), with a discussion of the relationships of the genus. Bulletin du Museum National d'Histoire Naturelle Section B Adansonia Botanique Phytochimie 15: 85-106.
27. DOYLE, J. J. and J. L. DOYLE. 1987. A rapid DNA isolation procedure for small quantities of fresh leaf tissues. Phytochemical Bulletin 19: 11-15.
28. ENDRESS, P. K. 1992. Evolution and floral diversity: the phylogenetic surroundings of Arabidopsis and Antirrhinum. International Journal of Plant Sciences 153: S106-S122.
29. ERDTMAN, G. P., P. LEINS, R. MELVILLE, and C. R. METCALFE. 1969. On the relationships of Emblingia. Botanical Journal of the Linnean Society 62: 169-186.
30. FARRIS, J. S., M. KÄLLERSJÖ, A. G. KLUGE, and C. BULT. 1994. Testing significance of incongruence. Cladistics 10: 315-319.
31. _, _, _, and _. 1995. Constructing a significance test for incongruence. Systematic Biology 44: 570-572.
32. FELSENSTEIN, J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39: 783-791.
33. FITCH, W. M. 1971. Toward defining the course of evolution: minimum change for a specific tree topology. Systematic Zoology 20: 406-416.
34. GADEK, P. A., C. J. QUINN, J. E. RODMAN, K. G. KAROL, E. CONTI, R. A. PRICE, and E. S. FERNANDO. 1992. Affinities of the Australian endemic Akaniaceae: new evidence from rbcL sequences. Australian Systematic Botany 5: 717-724.
35. GALLOWAY, G. L., R. L. MALMBERG, and R. A. PRICE. 1998. Phylogenetic utility of the nuclear gene arginine decarboxylase: an example from Brassicaceae. Molecular Biology and Evolution 15: 1312-1320.
36. GEORGE, A. S. 1982. Gyrostemonaceae. Flora of Australia: Lecythidales to Batales, volume 8. Canberra: Australian Government Publishing Service.
37. _. 2003. Gyrostemonaceae. Pp. 213-217 in The families and genera of vascular plants: V. Flowering plants, dicotyledons: Malvales, Capparales, and non-betalain Caryophyllales, eds. K. Kubitzki and C. Bayer. Berlin: Springer.
38. GIVNISH, T. G. 1980. Ecological constraints on the evolution of breeding systems in seed plants: dioecy and dispersal in gymnosperms. Evolution 34: 959-972.
39. GOLDMAN, N., J. P. ANDERSON, and A. G. RODRIGO. 2000. Likelihood-based tests of topologies in phylogenetics. Systematic Biology 49: 652-670.
40. HALL, J. C. 2003. Systematics and floral evolution of Capparaceae and other core Brassicales. Ph.D. Thesis, University of Wisconsin-Madison.
41. _, K. J. SYTSMA, and H. H. ILTIS. 2002. Phylogeny of Capparaceae and Brassicaceae based on chloroplast sequence data. American Journal of Botany 89: 1826-1842.
42. HANSEN, B. F. 1977. A monograph of Forchhammeria (Capparidaceae). M.S. Thesis, University of Wisconsin-Madison.
43. HIPP, A. L., J. C. HALL, and K. J. SYTSMA. 2004. Congruence versus phylogenetic accuracy: revisiting the incongruence length difference test. Systematic Biology 53: 81-89.
44. HUFFORD, L. 1996. Developmental morphology of female flowers of Gyrostemon and Tersonia and floral evolution among Gyrostemonaceae. American Journal of Botany 83: 1471-1487.
45. HUTCHINSON, J. 1967. The genera of flowering plants. Oxford: Clarendon Press.
46. _. 1973. The families of flowering plants. Dicotyledons arranged according to a system based on their probably phylogeny. Oxford: Clarendon Press.
47. ILTIS, H. H. 1999. Setchellanthaceae (Capparales), a new family for a relictual, glucosinolate-producing endemic of the Mexican deserts. Taxon 48: 257-275.
48. JUDD, W. S., R. W. SANDERS, and M. J. DONOGHUE. 1994. Angiosperm family pairs: preliminary phylogenetic analyses. Harvard Papers in Botany 5: 1-51.
49. KAROL, K.G., J.E. RODMAN, E. CONTI, and K. J. SYTSMA. 1999. Nucleotide sequence of rbcL and phylogenetic relationships of Setchellanthus caeruleus (Setchellanthaceae). Taxon 48: 303-315.
50. KERS, L. E. 2003. Capparaceae. Pp. 36-56 in The families and genera of vascular plants: V. Flowering plants, dicotyledons: Malvales, Capparales, and non-betalain Caryophyllales, eds. K. Kubitzki and C. Bayer. Berlin: Springer.
51. KOCH, M., B. HAUBOLD, and T. MITCHELL-OLDS. 2001. Molecular systematics of the Brassicaceae: evidence from plastidic matK and nuclear Chs sequences. American Journal of Botany 88: 534-544.
52. KUBITZKI, K. 2003a. Emblingiaceae. Pp. 206-207 in The families and genera of vascular plants: V. Flowering plants, dicotyledons: Malvales, Capparales, and non-betalain Caryophyllales, eds. K. Kubitzki and C. Bayer. Berlin: Springer.
53. _. 2003b. Introduction to Capparales. Pp. 7-11 in The families and genera of vascular plants: V. Flowering plants, dicotyledons: Malvales, Capparales, and non-betalain Caryophyllales, eds. K. Kubitzki and C. Bayer. Berlin: Springer.
54. _. 2003c. Caricaceae. Pp. 57-61 in The families and genera of vascular plants: V. Flowering plants, dicotyledons: Malvales, Capparales, and non-betalain Caryophyllales, eds. K. Kubitzki and C. Bayer. Berlin: Springer.
55. _. 2003d. Koeberliniaceae. Pp. 218-219 in The families and genera of vascular plants: V. Flowering plants, dicotyledons: Malvales, Capparales, and non-betalain Caryophyllales, eds. K. Kubitzki and C. Bayer. Berlin: Springer.
56. _. 2003e. Moringaceae. Pp. 312-314 in The families and genera of vascular plants: V. Flowering plants, dicotyledons: Malvales, Capparales, and non-betalain Caryophyllales, eds. K. Kubitzki and C. Bayer. Berlin: Springer.
57. _. 2003f. Resedaceae. Pp. 334-338 in The families and genera of vascular plants: V. Flowering plants, dicotyledons: Malvales, Capparales, and non-betalain Caryophyllales, eds. K. Kubitzki and C. Bayer. Berlin: Springer.
58. _. 2003g. Setchellanthaceae. Pp. 353-354 in The families and genera of vascular plants: V. Flowering plants, dicotyledons: Malvales, Capparales, and non-betalain Caryophyllales, eds. K. Kubitzki and C. Bayer. Berlin: Springer.
59. LES, D. H. 1994. Molecular systematics and taxonomy of lake cress (Neobeckia aquatica; Brassicaceae), an imperiled aquatic mustard. Aquatic Botany 49: 149-165.
60. MADDISON, D. R. and W. P. MADDISON. 2002. MacClade 4: analysis of phylogeny and character evolution. Sunderland: Sinauer Associates.
61. MORTON, C.M., K.G. KAROL, and M. W. CHASE. 1997. Taxonomic affinities of Physena (Physenaceae) and Asteropeia (Theaceae). Botanical Review 63: 231-239.
62. OLMSTEAD, R. G., J. A. SWEERE, and K. H. WOLFE. 1993. Ninety extra nucleotides in the ndhF gene of tobacco chloroplast DNA: a summary of revisions to the 1986 genome sequence. Plant Molecular Biology 22: 1191-1193
63. OLSON, M. E. 2002a. Combining data from DNA sequences and morphology for a phylogeny of Moringaceae (Brassicales). Systematic Botany 27: 55-73.
64. _. 2002b. Intergeneric relationships within the Caricaceae-Moringaceae clade (Brassicales) and potential morphological synapomorphies of the clades and its families. International Journal of Plant Sciences 163: 51-65.
65. PAX, F. and K. HOFFMANN. 1936. Capparidaceae. Pp. 146-233 in Die naturlichen pflanzenfamilien, 17b, eds. A. Engler and K. Prantl. Leipzig: Engelmann.
66. POSADA, D. and K. A. CRANDALL. 1998. Modeltest: testing the model of DNA substitution. Bioinformatics 14: 817-818.
67. PRICE, R. A. and J. D. PALMER. 1993. Phylogenetic relationships of the Geraniaceae and Geraniales from rbcL sequence comparisons. Annals of the Missouri Botanical Garden 80: 661-671.
68. RAMBAUT, A. 2001. Sequence alignment editor, v2.0a6. http:/evolve.zoo.ox. ac.uk/.
69. RENNER, S. S. and R. E. RICKLEFS. 1995. Dioecy and its correlates in the flowering plants. American Journal of Botany 82: 596-606.
70. RODMAN, J. E. 1991. A taxonomic analysis of glucosinolate-producing plants, part 2: cladistics. Systematic Botany 16: 619-629.
71. _, K. G. KAROL, R. A. PRICE, E. CONTI, and K. J. SYTSMA. 1994. Nucleotide sequences of rbcL confirm the Capparalean affinity of the Australian endemic Gyrostemonaceae. Australian Systematic Botany 7: 57-69.
72. _, _, _, and K. J. SYTSMA. 1996. Molecules, morphology, and Dahlgren's expanded order Capparales. Systematic Botany 21: 289-307.
73. _, R. A. PRICE, K. KAROL, E. CONTI, K. J. SYTSMA, and J. D. PALMER. 1993. Nucleotide sequences of the rbcL gene indicate monophyly of mustard oil plants. Annals of Missouri Botanical Garden 80: 686-699.
74. _, P. S. SOLTIS, D. E. SOLTIS, K. J. SYTSMA, and K. G. KAROL. 1998. Parallel evolution of glucosinolate biosynthesis inferred from congruent nuclear and plastid gene phylogenies. American Journal of Botany 85: 997-1006.
75. RONSE DE CRAENE, L. P. 2002. Floral development and anatomy of Pentadiplandra (Pentadiplandraceae): a key genus in the identification of floral morphological trends in the core Brassicales. Canadian Journal of Botany 80: 443-459.
76. _, J. DE LAET, and E. F. SMETS. 1998. Floral development and anatomy of Moringa oleifera (Moringaceae): what is the evidence for a Capparalean or Sapindalean affinity? Annals of Botany 82: 273-284.
77. _, T. Y. A. YANG, P. SCHOLS, and E. F. SMETS. 2002. Floral anatomy and systematics of Bretschneidera (Bretschneideraceae). Botanical Journal of the Linnean Society 139: 29-45.
78. SAKAI, A. K., W. L. WAGNER, D. M. FERGUSON, and D. R. HERBST. 1995. Biogeographical and ecological correlates of dioecy in the Hawaiian flora. Ecology 76: 2530-2543.
79. SHIMODAIRA, H. and M. HASEGAWA. 1999. Multiple comparisons of log-likelihoods with applications to phylogenetic inference. Molecular Biology and Evolution 16: 1114-1116.
80. SMITH, J. F., K. J. SYTSMA, J. S. SHOEMAKER, and R. L. SMITH. 1991. A qualitative comparison of total cellular DNA extractions protocols. Phytochemical Bulletin 23: 2-9.
81. SWOFFORD, D. L. 2002. PAUP*. Phylogenetic analysis using parsimony (*and other methods). Version 4. Sunderland: Sinauer Associates.
82. SYTSMA, K. J., J. F. SMITH, and P. E. BERRY. 1991. The use of chloroplast DNA to assess biogeography and evolution of morphology, breeding systems, and flavonoids in Fuchsia sect. Skinnera (Onagraceae). Systematic Botany 16: 257-269.
83. _, J. MORAWETZ, J. C. PIRES, M. NEPOKROEFF, E. CONTI, M. ZJHRA, J. C. HALL, and M. W. CHASE. 2002. Urticalean rosids: circumscription, rosid ancestry, and phylogenetics based on rbcL, trnL-F, and ndhF sequences. American Journal of Botany 89: 1531-1546.
84. _, A. LITT, M. L. ZJHRA, J. C. PIRES, M. NEPOKROEFF, E. CONTI, and P. WILSON. (Accepted pending revision). Clades, clocks, and continents: historical and biogeographical analysis of Myrtaceae, Vochysiaceae, and relatives in the southern hemisphere. International Journal of Plant Sciences.
85. THORNE, R. F. 1992. Classification and geography of the flowering plants. Botanical Review 58: 225-348.
86. VILLIERS, J. F. 1973. Pentadiplandraceae. In A. Audbreville and J. F. Leroy [eds.] Flore du Gabon vol. 15, pp. 163-170. Paris: Museum National d'Histoire Naturelle.
87. WEIBLEN, G. D., R. K. OYAMA, and M. J. DONOGHUE. 2000. Phylogenetic analysis of dioecy in monocotyledons. American Naturalist 155: 46-58.
88. WELLER, S. G. and A. K. SAKAI. 1999. Using phylogenetic approaches for the analysis of plant breeding system evolution. Annual Review of Ecology and Systematics 30: 167-199.
89. WILSON P. G., M. M. O'BRIEN, P. A. GADEK, and C. J. QUINN. 2001. Myrtaceae revisited: a reassessment of infrafamilial groups. American Journal of Botany 88: 2013-2025.
90. 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.
91. ZHU, G., R. G. JENSEN, and H. J. BOHNERT. 1997. DNA sequence of ribulose-1,5-biphosphate carboxylase/oxygenase large subunit from Arabidopsis thaliana. Plant Physiology 114: 395.