Phylogenetic relationships in Bupleurum (Apiaceae) based on nuclear ribosomal DNA ITS sequence data

Annals of Botany

Volumn 93, Issue 4, 2004, Pages 379-398

  Neves, Susana S ^a,b   Watson, Mark F ^a  

^a ROYAL BOTANIC GARDEN EDINBURGH   (United Kingdom)

^b INSTITUTO DE TECNOLOGIA QUÍMICA E BIOLÓGICA   (Portugal)

Author keywords

Anginon; Apiaceae; Apioideae; Bupleurum; Heteromorpha; ITS; Molecular phylogeny; Nuclear ribosomal DNA; Penninervia; Subgenus nov.; Systematics; Umbelliferae

Indexed keywords

PHYLOGENETICS; TAXONOMY;

ANGINON; APIACEAE; APIALES; APIOIDEAE; BUPLEURUM; BUPLEURUM FALCATUM; BUPLEURUM RIGIDUM; BUPLEURUM SALICIFOLIUM; HETEROMORPHA; PHYSOSPERMUM; PLEUROSPERMUM;

RIBOSOMAL SPACER DNA; RIBOSOME DNA; RNA 5.8S;

ARTICLE; BUPLEURUM; CELL NUCLEUS; CHEMISTRY; CLASSIFICATION; DNA SEQUENCE; GENETICS; MOLECULAR EVOLUTION; MOLECULAR GENETICS; PHYLOGENY;

BUPLEURUM; CELL NUCLEUS; DNA, RIBOSOMAL; DNA, RIBOSOMAL SPACER; EVOLUTION, MOLECULAR; MOLECULAR SEQUENCE DATA; PHYLOGENY; RNA, RIBOSOMAL, 5.8S; SEQUENCE ANALYSIS, DNA;

EID: 2442669328     PISSN: 03057364     EISSN: None     Source Type: Journal    
DOI: 10.1093/aob/mch052     Document Type: Article

References (107)

1. Allison I, Van Wyk BE. 1997. A revision of the genus Anginon (Apiaceae). Nordic Journal of Botany 17: 561-577.
2. Arenas JA, García F. 1993. Atlas carpológico y corológico de la subfamilia Apioidea Drude (Umbelliferae) en España peninsular y Baleares. Ruizia 12.
3. Baldwin BG. 1992. Phylogenetic utility of the internal transcribed spacers of nuclear ribosomal DNA in plants: an example from the Compositae. Molecular Phylogenetics and Evolution 1: 3-16.
4. Baldwin BG, Sanderson MJ, Porter JM, Wojciechowski MF, Campbell CS, Donoghue MJ. 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.
5. Bateman RM. 1999. Integrating molecular and morphological evidence of evolutionary radiations. In: Hollingsworth PM, Bateman RM, Gornall RJ, eds. Molecular systematics and plant evolution. The Systematics Association Special Vol. 57. London and New York: Taylor & Francis, 432-471.
6. Berenbaum MR. 1990. Plant consumers and plant secondary chemistry: past, present and future. 4. A case study: furanocoumarins in Apiaceae. Oxford Surveys in Evolutionary Biology 7: 285-307.
7. Boissier E. 1872. Flora Orientalis. Vol. 2. Geneva and Basel.
8. Bolòs O, Vigo J. 1974. Notes on plant taxonomy and nomenclature I. Butlletí de la Institució Catalana d'Història Natural 38 [Secció de Botànica, 1]: 83.
9. Bremer K. 1988. The limits of amino acid sequence data in angiosperm phylogenetic reconstruction. Evolution 42: 795-803.
10. Bremer K. 1994. Branch support and tree stability. Cladistics 10: 295-304.
11. Briquet J. 1897. Monographie des buplèvres des Alpes Maritimes. In: Burnat E, ed. Matériaux pour servir à l'histoire de la flore des Alpes Maritimes. Geneva and Basel: Georg & Co, Libraires- Éditeurs.
12. Brummit RK, Powell CE. 1992. Authors of plant names. Richmond: Royal Botanic Gardens, Kew.
13. Burtt BL. 1991. Umbelliferae of Southern Africa: an introduction and annotated check-list. Edinburgh Journal of Botany 48: 133-282.
14. Calestani V. 1905. Contributo alla sistematica delle Ombellifere d'Europa. Webbia 1: 89-170.
15. Carbonnier J, Cauwet-Marc AM. 1979. Constituants du genre Bupleurum (Umbelliferae): mise au point des connaissances actuelles. Bulletin du Muséum National d'Histoire Naturelle (Paris). Série 4, section B, 1: 213-263.
16. Carbonnier J, Cauwet-Marc AM. 1981. A comparative phytochemical investigation of the genus Bupleurum L. (Umbelliferae). Taxon 30: 617-627.
17. Cauwet-Marc AM. 1970. Races chromosomiques, écologie et biologie du Bupleurum ranunculoides L. dans la partie orientale des Pyréné es. Bulletin de la Société Botanique de France 117: 373-384.
18. Cauwet-Marc AM. 1976. Biosystématique des Espèces Vivaces de Bupleurum L. (Umbelliferae) du Bassin Méditerranéen Occidental. PhD Thesis (3 vols). Université des Sciences et Techniques du Languedoc, Perpignan, France.
19. Cauwet-Marc AM. 1979a. Connaissances caryologiques actuelles sur le genre Bupleurum L. (Umbelliferae): nombres chromosomiques et nombres de base. Bulletin du Muséum National d'Histoire Naturelle (Paris). Série 4, section B, 1: 191-211.
20. Cauwet-Marc AM. 1979b. Contribution de la caryologie à la connaissance de la systématique et de la phylogénie du genre Bupleurum L. Candollea 34: 49-86.
21. Cauwet-Marc AM, Carbonnier J, Cerceau-Larrival MT, Dodin R, Guyot M. 1978. Contribution à l'étude multidisciplinaire du genre Bupleurum L. In: Cauwet-Marc AM, Carbonnier J, eds. 1982. Les Ombellifères: contributions pluridisciplinaires à la systématique: actes du 2ème Symposium International sur les Ombellifères, Centre Universitaire de Perpignan, 18-21 Mai 1977. St Louis, MO: Missouri Botanical Garden, 623-651.
22. Cerceau-Larrival MT. 1962. Plantules et pollens d'Ombellifères. Mémoires du Muséum d'Histoire Naturelle (Paris). Série B, Botanique, 14: 1-166.
23. Cerceau-Larrival MT. 1971. Morphologie pollinique et correlations phylogénétiques chez les Ombellifères. In: Heywood VH, ed. The biology and chemistry of the Umbelliferae. London: Academic Press, 112-113.
24. Cerceau-Larrival MT, Roland-Heydacker F. 1978. Apport de la palynologie à la connaissance des Ombellifères actuelles et fossiles. In: Cauwet-Marc AM, Carbonnier J, eds. 1982. Les Ombellifères: contributions pluridisciplinaires à la systématique: actes du 2ème Symposium International sur les Ombellifères, Centre Universitaire de Perpignan, 18-21 Mai 1977. St Louis, MO: Missouri Botanical Garden, 213-229.
25. Chase MW, Hills HG. 1991. Silica gel: an ideal material for field preservation of leaf samples for DNA studies. Taxon 40: 215-220.
26. Choi HK, Kim HJ, Shin H, Kim Y. 1996. Phylogeny and ribosomal DNA variation of Bupleurum (Umbelliferae). Korean Journal of Plant Taxonomy 26: 219-233.
27. Denduangboripant J, Cronk QCB. 2001. Evolution and alignment of the hypervariable arm 1 of Aeschynanthus (Gesneriaceae) ITS2 nuclear ribosomal DNA. Molecular Phylogenetics and Evolution 20: 163-172.
28. Donoghue MJ, Olmstead RG, Smith JF, Palmer JD. 1992. Phylogenetic relationships of Dipsacales based on rbcL sequences. Annals of the Missouri Botanical Garden 79: 333-345.
29. Dover G. 1982. Molecular drive: a cohesive mode of species evolution. Nature 299: 111-117.
30. Downie SR, Katz-Downie DS. 1996. A molecular phylogeny of Apiaceae subfamily Apioideae: evidence from nuclear ribosomal DNA internal transcribed spacer sequences. American Journal of Botany 83: 234-251.
31. Downie SR, Katz-Downie DS. 1999. Phylogenetic analysis of chloroplast rps 16 intron sequences reveals relationships among woody southern African Apiaceae subfamily Apioideae. Canadian Journal of Botany 77: 1120-1135.
32. Downie SR, Katz-Downie DS, Spalik K. 2000a. A phylogeny of Apiaceae tribe Scandiceae: evidence from nuclear ribosomal DNA internal transcribed spacer sequences. American Journal of Botany 87: 76-95.
33. Downie SR, Katz-Downie DS, Watson MF. 2000b. A phylogeny of the flowering plant family Apiaceae based on chloroplast DNA rpl 16 and rpoC1 intron sequences: towards a suprageneric classification of subfamily Apioideae. American Journal of Botany 87: 273-292.
34. Downie SR, Ramanath S, Katz-Downie DS, Llanas E. 1998. Molecular systematics of Apiaceae subfamily Apioideae: phylogenetic analyses of nuclear ribosomal DNA internal transcribed spacer and plastid rpoC1 intron sequences. American Journal of Botany 85: 563-591.
35. Downie SR, Watson MF, Spalik K, Katz-Downie DS. 2000c. Molecular systematics of Old World Apioideae (Apiaceae): relationships among some members of tribe Peucedaneae sensu lato, the placement of several island-endemic species, and resolution within the apioid superclade. Canadian Journal of Botany 78: 506-528.
36. Doyle JJ. 1992. Gene trees and species trees: molecular systematics as one-character taxonomy. Systematic Botany 17: 144-163.
37. Doyle JJ. 1997. Trees within trees: genes and species, molecules and morphology. Systematic Biology 46: 537-553.
38. Doyle JJ, Doyle JL. 1987. A rapid DNA isolation procedure for small quantities of fresh leaf tissue. Phytochemical Bulletin 19: 11-15.
39. Drude O. 1898. Umbelliferae. In: Engler A, Prantl K, eds. Die natürlichen Pflanzenfamilien. Vol. 3, Part 8. Leipzig: Wilhelm Engelman, 63-250.
40. Elder JF, Turner BJ. 1995. Concerted evolution of repetitive DNA sequences in eukaryotes. Quarterly Review of Biology 70: 297-320.
41. Eriksson T. 1999. AutoDecay 4.0 [program distributed by the author]. Bergius Foundation, Royal Swedish Academy of Sciences, Stockholm.
42. Farris JS. 1989. The retention index and the rescaled consistency index. Cladistics 5: 417-419.
43. Felsenstein J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39: 783-791.
44. Fitch WM. 1971. Toward defining the course of evolution: minimal change for a specific tree topology. Systematic Zoology 20: 406-416.
45. Grenier M, Godron M. 1848. Flore de France. Vol. 1. Paris.
46. Gruas-Cavagnetto C, Cerceau-Larrival MT. 1978. Presence de pollens d'Ombellifères fossiles dans le Paleogene du Bassin Anglo-Parisien: premiers resultats. In: Cauwet-Marc AM, Carbonnier J, eds. 1982. Les Ombellifères: contributions pluridisciplinaires à la systématique: actes du 2ème Symposium International sur les Ombellifères, Centre Universitaire de Perpignan, 18-21 Mai 1977. St Louis, MO: Missouri Botanical Garden, 255-267.
47. Hara H, Williams HJ. 1979. An Enumeration of the Flowering Plants of Nepal, Vol. 2. London: Trustees of the British Museum (Natural History), 184-185.
48. Hasegawa M, Kishino H, Yano T. 1985. Dating of the human-ape splitting by a molecular clock of mitochondrial DNA. Journal of Molecular Evolution 22: 160-174.
49. Hershkovitz MA, Zimmer EA. 1996. Conservation patterns in angiosperm rDNA ITS2 sequences. Nucleic Acids Research 24: 2857-2867.
50. Hershkovitz MA, Zimmer EA. 2000. Ribosomal DNA evidence and disjunctions of Western American Portulacaceae. Molecular Phylogenetics and Evolution 15: 419-439.
51. Hershkovitz MA, Zimmer EA, Hahn WJ. 1999. Ribosomal DNA sequences and angiosperm systematics. In: Hollingsworth PM, Bateman RM, Gornall RJ, eds. Molecular Systematics and Plant Evolution. The Systematics Association Special Vol. 57. London and New York: Taylor & Francis, 268-326.
52. Heywood VH. 1971. Systematic survey of Old World Umbelliferae. In: Heywood VH, ed. The biology and chemistry of the Umbelliferae. London: Academic Press, 31-41.
53. Hillis DM, Moritz C, Porter CA, Baker RJ. 1991. Evidence for biased gene conversion in concerted evolution of ribosomal DNA. Science 251: 308-310.
54. Holmgren PK, Holmgren NH, Barnett LC. 1990. Index herbariorum. Part I. The herbaria of the world, 8th edn. New York: New York Botanical Garden.
55. Jukes TH, Cantor CR. 1969. Evolution of protein molecules. In: Munro HN, ed. Mammalian protein metabolism. Vol. 3. New York: Academic Press, 21-132.
56. Katz-Downie DS, Valiejo-Roman CM, Terentieva EI, Troitsky AV, Pimenov MG, Lee B, Downie SR. 1999. Towards a molecular phylogeny of Apiaceae subfamily Apioideae: additional information from nuclear ribosomal DNA ITS sequences. Plant Systematics and Evolution 216: 167-195.
57. Kimura M. 1980. A simple method for estimating evolutionary rates of base substitution through comparative studies of nucleotide sequences. Journal of Molecular Evolution 16: 111-120.
58. Kluge AG, Farris JS. 1969. Quantitative phyletics and the evolution of anurans. Systematic Zoology 18: 1-32.
59. Kondo K, Terabayashi S, Okada M, Yuan C, He S. 1996. Phylogenetic relationship of medicinally important Cnidium officinale and Japanese Apiaceae based on rbcL sequences. Journal of Plant Research 109: 21-27.
60. Koso-Poljansky BM. 1913. Epitome Bupleurorum Rossiae. Acta Horti Petropolitani 30: 135-333.
61. Küpfer P. 1969. Recherches cytotaxinomiques sur la flore des montagnes de la Péninsule Ibérique. Bulletin de la Société Neuchateloise des Sciences Naturelles 92: 31-48.
62. Lanyon SM. 1985. Detecting internal inconsistencies in distance data. Systematic Zoology 34: 397-403.
63. Lee BY, Downie SR. 1999. A molecular phylogeny of Apiaceae tribe Caucalideae and related taxa: inferences based on ITS sequence data. Systematic Botany 24: 461-479.
64. Lee SB, Rasmussen SK. 1998. Phylogenetic analysis of rDNA internal transcribed spacer of Angelica, Bupleurum and Peucedanum species. Risø-R-1091 (EN) [internal report]. Roskilde, Denmark: Riso National Laboratory, 5-13.
65. Leonardis W, Fichera G, Longhitano N, Marietta G, Fiumara PMR, Zizza A. 1997. Indagine palinologica su alcune specie di Bupleurum L. e Smyrnium L. (Umbelliferae) in relazione alia posizione sistematica. Allionia 35: 219-223.
66. Linnaeus C. 1753. Species Plantarum. Vol. 1. Stockholm [Bupleurum in pp. 236-239].
67. Maddison WP. 1997. Gene trees in species trees. Systematic Biology 46: 523-536.
68. Maddison WP, Maddison, DR. 1992. MacClade: analysis of phylogeny and character evolution. Version 3. Sunderland, MA: Sinauer Associates.
69. Maddison WP, Donoghue MJ, Maddison DR. 1984. Outgroup analysis and parsimony. Systematic Zoology 33: 83-103.
70. Mai JC, Coleman AW. 1997. The internal transcribed spacer 2 exhibits a common secondary structure in green algae and flowering plants. Journal of Molecular Evolution 44: 258-271.
71. Merrgen WQ. 1994. On the pollen morphology of Bupleurum L. from Nei Menggu and its classification. Acta Scientiarium Naturalium Universitatis Neimenggu 25: 554-560.
72. Möller M, Cronk QCB. 1997. Origin and relationships of Saintpaulia (Gesneriaceae) based on ribosomal DNA internal transcribed spacer (ITS) sequences. American Journal of Botany 84: 956-965.
73. Nasir E. 1955. The bupleura (Umbelliferae) of North-West Himalaya. University of California Publications in Botany 27: 417-444.
74. Neves SS. 2000. Taxonomy and evolution in Bupleurum L. (Umbelliferae) in the W Mediterranean and Macaronesia. PhD Thesis, University of Edinburgh, UK.
75. Ohta S. 1991. Cytogenetical study on the speciation of Bupleurum falcatum L. (Umbelliferae). Journal of Science of Hiroshima University, Ser. B, Div. 2 (Botany) 23: 273-348.
76. Oskolski AA. 2001. Phylogenetic relationships within Apiales: evidence from wood anatomy. Edinburgh Journal of Botany 58: 201-206.
77. Panelatti J. 1959. Contribution a l'étude anatomique du genre Bupleurum L. au Maroc. Travaux de l'Institut Scientifique Chérifien, Série Botanique 15.
78. Pimenov MG, Leonov MV. 1993. The genera of the Umbelliferae: a nomenclator. Richmond and Moscow: Royal Botanic Gardens Kew and Botanical Garden of Moscow State University.
79. Plunkett GM, Downie SR. 1999. Major lineages within Apiaceae subfamily Apioideae: a comparison of chloroplast restriction site and DNA sequence data. American Journal of Botany 86: 1014-1026.
80. Plunkett GM, Downie SR. 2000. Expansion and contraction of the chloroplast inverted repeat in Apiaceae subfamily Apioideae. Systematic Botany 25: 648-667.
81. Plunkett GM, Soltis DE, Soltis PS. 1996a. Higher level relationships of Apiales (Apiaceae and Araliaceae) based on phylogenetic analysis of rbcL sequences. American Journal of Botany 83: 499-515.
82. Plunkett GM, Soltis DE, Soltis PS. 1996b. Evolutionary patterns in Apiaceae: inferences based on matK sequence data. Systematic Botany 21: 477-495.
83. Plunkett GM, Soltis DE, Soltis PS. 1997. Clarification of the relationship between Apiaceae and Araliaceae based on matK and rbcL sequence data. American Journal of Botany 84: 565-580.
84. Punt W. 1984. Umbelliferae. In: Punt W, Clarke GC, eds. The Northwest European Pollen Flora, Vol. 4 (37). Amsterdam: Elsevier Science, 155-363.
85. Rechinger KH, Snogerup S. 1987. Bupleurum. In: Hedge IC, Lamond JM, Rechinger KH et al. eds. Umbelliferae. In: Rechinger KH, ed. Flora Iranica, Vol. 162. Graz, Austria: Akademische Druck- u. Verlagsanstalt, 269-297.
86. Rodriguez RL. 1957. Systematic anatomical studies on Myrrhidendron and other woody Umbellales. University of California Publications in Botany 29: 145-318.
87. Rogers JS, Swofford DL. 1998. A fast method for approximating maximum likelihoods of phylogenetic trees from nucleotide sequences. Systematic Biology 47: 77-89.
88. Roux M, Carbonnier J, Cauwet-Marc AM. 1978. Un exemple d'analyse cladistique: Le genre Bupleurum L. (Umbelliferae). In: Cauwet-Marc AM, Carbonnier J, eds. 1982. Les Ombellifères: contributions pluridisciplinaires à la systématique: actes du 2ème Symposium International sur les Ombellifères, Centre Universitaire de Perpignan, 18-21 Mai 1977. St Louis, MO: Missouri Botanical Garden, 575-592.
89. Sang T, Crawford DJ, Stuessy TF. 1995. Documentation of reticulate evolution in peonies (Paeonia) using internal transcribed spacer sequences of nuclear ribosomal DNA: implications for biogeography and concerted evolution. Proceedings of the National Academy of Sciences USA 92: 6813-6817.
90. Saitou N, Nei M. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Molecular Biology and Evolution 4: 406-425.
91. Snogerup S. 1972. Bupleurum. In: Davis PH, ed. Flora of Turkey, Vol. 4. Edinburgh: Edinburgh University Press, 393-416.
92. Snogerup S, Snogerup B. 2001. Bupleurum L. (Umbelliferae) in Europe. 1. The annuals, B. sect. Bupleurum and sect. Aristata. Willdenowia 31: 205-308.
93. Soltis DE, Soltis PS. 1998. Choosing an approach and an appropriate gene for phylogenetic analysis. In: Soltis DE, Soltis PS, Doyle JJ, eds. Molecular systematics of plants II: DNA sequencing. Boston: Kluwer Academic Publishers, 1-42.
94. Sprengel K. 1820. Umbelliferae. In: Roemer JJ, Schultes JA, eds. Systema vegetabilium, Vol. 6. Sttutgart, Germany.
95. Sunding P. 1979. Origins of the Macaronesian flora. In: Bramwell, D. ed. Plants and islands. London: Academic Press, 13-40.
96. Swofford DL. 2000. PAUP*: Phylogenetic analysis using parsimony (*and other methods). Version 4. Sunderland, MA: Sinauer Associates.
97. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG. 1997. The Clustal_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Research 25: 4876-4882.
98. Tournefort JP. 1694. Eĺémens de botanique, Vol 1. Paris: L'Imprimerie Royale.
99. Tutin TG. 1968. Bupleurum. In: Tutin TG, Heywood VG, Burges NA, Moore DM, Valentine DH, Walter SM, Webb DA, eds. Flora Europaea, Vol. 2. Cambridge: Cambridge University Press, 345-350.
100. Valiejo-Roman CM, Pimenov MG, Terentieva EI, Downie SR, Katz-Downie DS, Troitsky AV. 1998. Molecular systematics of the Umbelliferae: using nuclear ribosomal DNA internal transcribed spacer sequences to resolve issues of evolutionary relationships. Botanicheskii Zhurnal 83: 1-22.
101. Valiejo-Roman CM, Terentieva EI, Samigullin TH, Pimenov MG. 2002. Relationships among genera in Saniculoideae and selected Apioideae (Umbelliferae) inferred from nrITS sequences. Taxon 51: 91-101.
102. Watrous LE, Wheeler QD. 1981. The out-group comparison method of character analysis. Systematic Zoology 30: 1-11.
103. White TJ, Bruns T, Lee S, Taylor J. 1990. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In: Innis MA, Gelfand DH, Sninsky JJ, White TJ, eds. PCR protocols, a guide to methods and applications. San Diego, London: Academic Press, 315-322.
104. Wolff H. 1910. Bupleurum. In: Engler A, ed. Das Pflanzenreich Regnis Vegetabilis Conspectus, IV.228. Leipzig, Germany: Verlag von Wilhelm Engelmann, 36-173.
105. Yang Z. 1993. Maximum-likelihood estimation of phylogeny from DNA sequences when substitution rates differ over sites. Molecular Biology and Evolution 10: 1396-1401.
106. Yang Z. 1996. Among-site rate variation and its impact on phylogenetic analyses. Trends in Ecology and Evolution 11: 367-372.
107. Yokota Y, Kawata T, Iida Y, Kato A, Tanifuji S. 1989. Nucleotide sequences of the 5.8S rRNA gene and internal transcribed spacer regions in carrot and broad bean ribosomal DNA. Journal of Molecular Evolution 29: 294-301.