Generic delimitations within the Sium alliance (Apiaceae tribe Oenantheae) inferred from cpDNA rps16-5′trnK (UUU) and nrDNA ITS sequences

Taxon

Volumn 58, Issue 3, 2009, Pages 735-748

  Spalik, Krzysztof ^a   Downie, Stephen R ^b   Watson, Mark F ^c  

^a UNIVERSITY OF WARSAW   (Poland)

^b UNIVERSITY OF ILLINOIS AT URBANA CHAMPAIGN   (United States)

^c ROYAL BOTANIC GARDEN EDINBURGH   (United Kingdom)

Author keywords

Apiaceae; Nomenclature; Phylogeny; Taxonomy; Umbelliferae

Indexed keywords

BAYESIAN ANALYSIS; CLADISTICS; DNA; GENETIC ANALYSIS; GEOGRAPHICAL DISTRIBUTION; HERB; NOMENCLATURE; PARSIMONY ANALYSIS; PHYLOGENY; TAXONOMY;

AFROCARUM; APIACEAE; APIALES; APIUM; APIUM GRAVEOLENS; BERULA; BERULA ERECTA; CRYPTOTAENIA; HELOSCIADIUM; OENANTHEAE; SIUM; SIUM BRACTEATUM; SIUM BURCHELLII; SIUM REPANDUM;

EID: 70349516252     PISSN: 00400262     EISSN: None     Source Type: Journal    
DOI: 10.1002/tax.583004     Document Type: Article

References (60)

1. Akaike, H. 1974. A new look at the statistical model identification. IEEE Transactions on Automatic Control 19: 716-723.
2. Álvarez, I. & Wendel, J.F. 2003. Ribosomal ITS sequences and plant phylogenetic inference. Molec. Phylog. Evol. 29: 417-434.
3. Arenas Posada, J.A. & García Martín, F. 1993. Atlas carpológico y corológico de la subfamilia Apioideae Drude (Umbelliferae) en Espana peninsular y Baleares. Ruizia 12: 1-245.
4. Burtt, B.L. 1991. Umbelliferae of southern Africa: an introduction and annotated check-list. Edinburgh J. Bot. 48: 133-282.
5. Calviño, C.I. & Downie, S.R. 2007. Circumscription and phylogeny of Apiaceae subfamily Saniculoideae based on chloroplast DNA sequences. Molec. Phylog. Evol. 44: 175-191.
6. Constance, L. 1990. Tardy transfers from Apium to Ciclospermum (Umbelliferae). Brittonia 42: 276-278.
7. Cronquist, A. 1961. Berula Hoffm. P. 519 in: Hitchcock, C.L. & Cronquist, A. (eds.), Vascular Plants of the Pacific North West, vol. 3. University of Washington, Seattle.
8. Downie, S.R. & Katz-Downie, D.S. 1999. Phylogenetic analysis of chloroplast rps16 intron sequences reveals relationships within the woody southern African Apiaceae subfamily Apioideae. Canad. J. Bot. 77: 1120-1135.
9. Downie, S.R., Katz-Downie, D.S. & Spalik, K. 2000a. A phylogeny of Apiaceae tribe Scandiceae: evidence from nuclear ribosomal DNA internal transcribed spacer sequences. Amer. J. Bot. 87: 76-95.
10. Downie, S.R., Katz-Downie, D.S., Sun, F.J. & Lee, C.-S. 2008. Phylogeny and biogeography of Apiaceae tribe Oenantheae inferred from nuclear rDNA ITS and cpDNA psbI-5′trnK(UUU) sequences, with emphasis on the North American Endemics clade. Botany 86: 1039-1064.
11. Downie, S.R., Plunkett, G.M., Watson, M.F., Spalik, K., Katz-Downie, D.S., Valiejo-Roman, C.M., Terentieva, E.I., Troitsky, A.V., Lee, B.Y., Lahham, J. & El-Oqlah, A. 2001. Tribes and clades within Apiaceae subfamily Apioideae: the contribution of molecular data. Edinburgh J. Bot. 58: 301-330.
12. Downie, S.R., Ramanath, S., Katz-Downie, D.S. & Llanas, E. 1998. Molecular systematics of Apiaceae subfamily Apioideae: phylogenetic analyses of nuclear ribosomal DNA internal transcribed spacer and plastid rpoC1 intron sequences. Amer. J. Bot. 85: 563-591.
13. Downie, S.R., Sun, F.J., Katz-Downie, D.S. & Colletti, G.J. 2004. A phylogenetic study of Perideridia (Apiaceae) based on nuclear ribosomal DNA ITS sequences. Syst. Bot. 29: 737-751.
14. Downie, S.R., Watson, M.F., Spalik, K. & Katz-Downie, D.S. 2000b. 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. Canad. J. Bot. 78: 506-528.
15. Drude, C.G.O. 1897-1898a. Umbelliferae. Pp. 63-250 in: Engler, A. & Prantl, K. (eds.), Die natürlichen Pflanzenfamilien, vol. 3. Engelmann, Leipzig.
16. Drude, C.G.O. 1897-1898b. Umbelliferae: Apioideae. Pp. 145-250 in: Engler, A. & Prantl, K. (eds.), Die natürlichen Pflanzenfamilien, vol. 3. Engelmann, Leipzig.
17. Farris, J.S., Källersjö, M., Kluge, A.G. & Bult, C. 1995. Testing significance of incongruence. Cladistics 10: 315-319.
18. Gardner, R. 2000. A variant of the native sea-celery, Apium prostratum (Umbelliferae). J. Auckland Bot. Soc. 55: 81.
19. Hale, M.L., Borland, A.M., Gustafsson, M.H.G. & Wolff, K. 2004. Causes of size homoplasy among chloroplast microsatellites in closely related Clusia species. J. Molec. Evol. 58: 182-190.
20. Hardway, T.M., Spalik, K., Watson, M.F., Katz-Downie, D.S. & Downie, S.R. 2004. Circumscription of Apiaceae tribe Oenantheae. S. African J. Bot. 70: 393-406.
21. Hedge, I.C. & Lamond, J.M. 1987. Berula Hoffm. Pp. 305-306 in: Hedge, I.C., Lamond, J.M. & Rechinger, K.H. (eds.), Umbelliferae, in: Rechinger, K.H. (ed.), Flora Iranica, vol. 162. Akademische Druckund Verlagsanstalt, Graz.
22. Heuertz, M., Carnevale, S., Fineschi, S., Sebastiani, F., Hausman, J.F., Paule, L. & Vendramin, G.G. 2006. Chloroplast DNA phylogeography of European ashes, Fraxinus sp., (Oleaceae): roles of hybridization and life history traits. Molec. Ecol. 15: 2131-2140.
23. Hiroe, M. & Constance, L. 1958. Umbelliferae of Japan. Univ. Calif. Publ. Bot. 30: 1-144.
24. Jeanmougin, F., Thompson, J.D., Gouy, M., Higgins, D.G. & Gibson, T.J. 1998. Multiple sequence alignment with CLUSTAL X. Trends Biochem. Sci. 23: 403-405.
25. Johow, F. 1896. Flora de las Islas de Juan Fernandez. Cervantes, Santiago de Chile.
26. Kelchner, S.A. 2000. The evolution of non-coding chloroplast DNA and its application in plant systematics. Ann. Missouri Bot. Gard. 87: 482-498.
27. Kelchner, S.A. 2002. Group II introns as phylogenetic tools: structure, function, and evolutionary constraints. Amer. J. Bot. 89: 1651-1669.
28. Koch, W.D.J. 1824. Generum tribuumque plantarum Umbelliferarum nova dispositio. Nova Acta Phys.-Med. Acad. Caes. Leop.-Carol. Nat. Cur. 12: 55-156.
29. Koso-Poljansky, B.M. 1915. Species Umbelliferarum minus cognitae. Vestn. Tiflissk. Bot. Sada 11: 136-170.
30. Lee, C.-S. & Downie, S.R. 2006. Phylogenetic relationships within Cicuta (Apiaceae tribe Oenantheae) inferred from nuclear rDNA ITS and cpDNA sequence data. Canad. J. Bot. 84: 453-468.
31. Llorens, L. 1982. Un nuevo endemismo de la isla de Menorca: Apium bermejoi. Fol. Bot. Misc. 3: 37-33.
32. Martinez, S. 1999. Apiaceae. Pp. 46-64 in: Zuloaga, F.O. & Morrone, O. (eds.), Catalogo de las plantas vasculares de la Republica Argentina II. Monogr. Syst. Bot. 74: 1-1269.
33. Mathias, M.E. & Constance, L. 1951. A revision of the Andean genus Niphogeton (Umbelliferae). Univ. Calif. Publ. Bot. 23: 405-426.
34. Maticorena, C. & Quezada, M. 1985. Catalogo de la flora vascular de Chile. Gayana, Bot. 42: 1-155.
35. Nylander, J.A.A. 2004. MrModeltest v2. Program distributed by the author. Evolutionary Biology Centre, Uppsala University. http://www.abc.se/&nylander/.
36. Petit, R.J., Brewer, S., Bordacs, S., Burg, K., Cheddadi, R., Coart, E., Cottrell, J., Csaikl, U.M., Van Dam, B., Deans, J.D., Espinel, S., Fineschi, S., Finkeldey, R., Glaz, I., Goicoechea, P.G., Jensen, J.S., Koenig, A.O., Lowe, A.J., Madsen, S.F., Matyas, G., Munro, R.C., Popescu, F., Slade, D., Tabbener, H., De Vries, S.G.M., Ziegenhagen, B., De Beaulieu, J.-L. & Kremer, A. 2002. Identification of refugia and post-glacial colonisation routes of European white oaks based on chloroplast DNA and fossil pollen evidence. Forest Ecol. Managem. 156: 49-74.
37. Pimenov, M.G. & Leonov, M.V. 1993. The Genera of the Umbelliferae. Royal Botanic Gardens, Kew.
38. Plunkett, G.M. & Downie, S.R. 1999. Major lineages within Apiaceae subfamily Apioideae: a comparison of chloroplast restriction site and DNA sequence data. Amer. J. Bot. 86: 1014-1026.
39. Plunkett, G.M., Soltis, D.E. & Soltis, P.S. 1996. Evolutionary patterns in Apiaceae: inferences based on matK sequence data. Syst. Bot. 21: 477-495.
40. Ronquist, F. & Huelsenbeck, J.P. 2003. MRBAYES 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19: 1572-1574.
41. Schischkin, B.K. 1950. Berula Hoffm. Pp. 466-468 in: Schischkin, B.K. (ed.), Flora SSSR, vol. 16. Izdatelstvo Akademii Nauk SSSR, Moskva, Leningrad.
42. Shaw, J., Lickey, E.B., Beck, J.T., Farmer, S.B., Liu, W., Miller, J., Siripun, K.C., Winder, C.T., Schilling, E.E. & Small, R.L. 2005. The tortoise and the hare II: relative utility of 21 noncoding chloroplast DNA sequences for phylogenetic analyses. Amer. J. Bot. 92: 142-166.
43. Shaw, J., Lickey, E.B., Schilling, E.E. & Small, R.L. 2007. Comparison of whole chloroplast genome sequences to choose noncoding regions for phylogenetic studies in angiosperms: the tortoise and the hare III. Amer. J. Bot. 94: 275-288.
44. Short, P.S. 1979. Apium L. sect. Apium (Umbelliferae) in Australasia. J. Adelaide Bot. Gard. 1: 205-235.
45. Spalik, K. & Downie, S.R. 2006. The evolutionary history of Sium sensu lato (Apiaceae): dispersal, vicariance, and domestication as inferred from ITS rDNA phylogeny. Amer. J. Bot. 93: 747-761.
46. Spalik, K. & Downie, S.R. 2007. Intercontinental disjunctions in Cryptotaenia (Apiaceae, Oenantheae): an appraisal using molecular data. J. Biogeogr. 34: 2039-2054.
47. Spalik, K., Wojewódzka, A. & Downie, S.R. 2001. Delimitation of genera in Apiaceae with examples from Scandiceae subtribe Scandicinae. Edinburgh J. Bot. 58: 331-346.
48. Swofford, D.L. 1998. PAUP*. Phylogenetic Analysis Using Parsimony (* and Other Methods), version 4. Sinauer, Sunderland.
49. Townsend, C.C. 1989. Umbelliferae. Pp. 1-127 in: Polhill, R.M. (ed.), Flora of Tropical East Africa. A.A. Balkema, Rotterdam.
50. Tutin, T.G. 1968a. Lereschia Boiss. P. 353 in: Tutin, T.G., Heywood, V.H., Burges, N.A., Moore, D.M., Valentine, D.H., Walters, M. & Webb, D.A. (eds.), Flora Europaea, vol. 2. Cambridge University Press, Cambridge.
51. Tutin, T.G. 1968b. Apium L. Pp. 351-351 in: Tutin, T.G., Heywood, V.H., Burges, N.A., Moore, D.M., Valentine, D.H., Walters, M. & Webb, D.A. (eds.), Flora Europaea, vol. 2. Cambridge University Press, Cambridge.
52. Van Moorsel, R.C.M.J. & Baudewijn, O. 2000. Apium, Berula en Sium. Gorteria 26: 244-245.
53. Van Wyk, B.E. & Tilney, P.M. 2004. Diversity of Apiaceae in Africa. S. African J. Bot. 70: 433-445.
54. Wen, J. 1999. Evolution of eastern Asian and eastern North American disjunct distributions in flowering plants. Annual Rev. Ecol. Syst. 30: 421-455.
55. Wen, J. 2001. Evolution of eastern Asian-eastern North American biogeographic disjunctions: a few additional issues. Int. J. Pl. Sci. 162: S117-S122.
56. Wen, J. & Zimmer, E.A. 1996. Phylogeny and biogeography of Panax L. (the ginseng genus, Araliaceae): inferences from ITS sequences of nuclear ribosomal DNA. Molec. Phylog. Evol. 6: 167-177.
57. White, T.J., Bruns, T., Lee, S. & Taylor, J. 1990. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. Pp. 315-322 in: Innis, M.A., Gelfand, D.H., Sninsky, J.J. & White, T.J. (eds.), PCR Protocols: A Guide to Methods and Applications. Academic Press, San Diego.
58. Wolff, H. 1927. Umbelliferae-Apioideae-Ammineae-Carinae, Ammineae novemjugatae et genuinae. Pp. 1-398 in: Engler, A. (ed.), Das Pflanzenreich, Heft 90. Engelmann, Berlin.
59. Yoo, K.O., Lowry, P.P. & Wen, J. 2002. Discordance of chloroplast and nuclear ribosomal DNA data in Osmorhiza (Apiaceae). Amer. J. Bot. 89: 966-971.
60. Zhou, J., Peng, H., Downie, S.R., Liu, Z.-W. & Gong, X. 2008. A molecular phylogeny of Chinese Apiaceae subfamily Apioideae inferred from nuclear ribosomal DNA internal transcribed spacer sequences. Taxon 57: 402-416.