Phylogenetic relationships of Vulpia and related genera (Poeae, Poaceae) based on analysis of its and trnL-F sequences

Annals of the Missouri Botanical Garden

Volumn 91, Issue 1, 2004, Pages 124-158

  Torrecilla, Pedro ^a,b   López Rodríguez, José Angel ^a   Catalán, Pilar ^a  

^a UNIVERSITY OF ZARAGOZA   (Spain)

^b UNIVERSIDAD CENTRAL DE VENEZUELA   (Venezuela)

Author keywords

Ctenopsis; Cutandia; Festuca; FEVRE group; ITS; Micropyrum; Narduroides; Phylogeny; Psilurus; Relative rate test; trnL F; Vulpia; Wangenheimia

Indexed keywords

BRACHYPODIEAE; BRACHYPODIUM; BRACHYPODIUM DISTACHYON; CTENOPSIS; CUTANDIA; DACTYLIS; DRYMANTHELE; EMBRYOPHYTA; FESTUCA; FESTUCA OVINA; FESTUCA PLICATA; FESTUCA RUBRA; LOLIUM; MICROPYRUM; NARDUROIDES; POA; POACEAE; POEAE; PSILURUS; PUCCINELLIA; SCHEDONORUS; SECALE; SESLERIA; TRITICEAE; VULPIA; VULPIA UNILATERALIS; WANGENHEIMIA;

EID: 1842713401     PISSN: 00266493     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (93)

1. Ainscough, M. M., C. M. Barker & C. A. Stace. 1986. Natural hybrids between Festuca and species of Vulpia section Vulpia. Watsonia 16: 143-151.
2. Al-Bermani, A. K. K. A., P. Catalan & C. A. Stace. 1992. A new circumscription of Festuca trichophylla (Gaudin) K. Richter (Gramineae). Anales Jard. Bot. Madrid 50: 209-220.
3. Baldwin, B. G., M. J. Sanderson, J. M. Porter, M. F. Wojciechowski, C. S. Campbell & M. J. Donoghue. 1995. The ITS region of nuclear ribosomal DNA: A valuable source of evidence on angiosperm phylogeny. Ann. Missouri Bot. Gard. 82: 247-277.
4. Barker, C. M. & C. A. Stace. 1982. Hybridization in the genera Vulpia and Festuca: The production of artificial F1 plants. Nordic J. Bot. 2: 43, 5-444.
5. _ & _. 1984. Hybridization in the genera Vulpia and Festuca (Poaceae): The characteristics of artificial hybrids. Nordic J. Bot. 4: 289-302.
6. _ & _. 1986. Hybridization in the genera Vulpia and Festuca (Poaceae): Meiotic behaviour of artificial hybrids. Nordic J. Bot. 6: 1-10.
7. Barker, F. K. & F. M Lutzoni. 2002. The utility of the Incongruence Length Difference test. Syst. Biol. 51: 625-637.
8. Barraclough, T. G. & V. Savolainen. 2001. Evolutionary rates and species diversity in flowering plants. Evolution 55: 677-683.
9. _, P. H. Harvey & S. Nee. 1996. Rate of rbcL gene sequence evolution and species diversification in flowering plants. Proc. Roy. Soc. London B 263: 589-591.
10. Bousquet, J., S. H. Strauss, A. H. Doerksen & R. A. Price. 1992. Extensive variation in evolutionary rate of rbcL gene sequences among seed plants. Proc. Natl. Acad. Sci. U.S.A. 89: 7844-7848.
11. Brochmann, C., P. S. Soltis & D. E. Soltis. 1992. Recurrent formation and polyphyly of Nordic polyploids in Draba (Brassicaceae). Amer. J. Bot. 79: 673-688.
12. Brysting, A. K., A. Holst-Jensen & I. Leitch. 2000. Genomic origin and organization of the hybrid Poa jemtlandica (Poaceae) verified by genomic in situ hybridisation and chloroplast DNA sequences. Ann. Bot. (London) 85: 439-445.
13. Buckler, E. S., A. Ippolito & T. P. Holtsford. 1997. The evolution of ribosomal DNA: Divergent paralogues and phylogenetic implications. Genetics 145: 821-832.
14. Charmet, G., C. Ravel & F. Balfourier. 1997. Phylogenetic analysis in the Festuca-Lolium complex using molecular markers and ITS rDNA. Theor. Appl. Genet. 94: 1038-1046.
15. Clayton, W. D. & S. A. Renvoize. 1986. Genera Graminum: Grasses of the World. Kew Bull., Addit. Ser. XIII. Royal Botanic Gardens, Kew.
16. Cook, L. M., P. S. Soltis, S. J. Brunsfeld & D. E. Soltis. 1998. Multiple independent formations of Tragopogon tetraploids (Asteraceae): Evidence from RAPD markers. Molec. Ecol. 7: 1293-1302.
17. Cotton, R. & C. A. Stace. 1976. Taxonomy of the genus Vulpia (Gramineae). I. Chromosome numbers and geographical distribution of the world species. Genetica 46: 235-255.
18. _ & _. 1977. Morphological and anatomical variation of Vulpia (Gramineae). Bot. Not. 130: 173-187.
19. Cronn, R. C., R. L. Small, T. Haselkorn & J. F. Wendel. 2002. Rapid diversification of the cotton genus (Gossypium: Malvaceae) revealed by analysis of sixteen nuclear and chloroplast genes. Amer. J. Bot. 89: 707-725.
20. Darbyshire, S. J. & S. I. Warwick. 1992. Phylogeny of North American Festuca (Poaceae) and related genera using chloroplast DNA retriction site variation. Canad. J. Bot. 70: 2415-2429
21. Davis, J. I. & R. J. Soreng. 1993. Phylogenetic structure in the grass family (Poaceae) as inferred from chloroplast DNA restriction site variation. Amer. J. Bot. 80: 1444-1454.
22. _, M. P Simmons, D. W Stevenson & J. F. Wendel. 1998. Data decisiveness, data quality, and incongruence in phylogenetic analysis: An example from the monocotyledons using mitochondrial atpA sequences. Syst. Biol. 47: 282-310.
23. DeBry, R. W. & R. G. Olmstead. 2000. A simulation study of reduced tree-search effort in bootstrap resampling analysis. Syst. Biol. 49: 171-179.
24. Dubcovsky, J. & A. Martínez. 1992. Distribución geográfica de los niveles de ploidía en Festuca. Parodiana 7: 91-99.
25. Farris J. S., M. Källersjö, A. G. Kluge & C. Bult. 1994. Testing significance of incongruence. Cladistics 10: 315-319.
26. Felsenstein, J. 1985. Confidence limits on phylogenies: An approach using the bootstrap. Evolution 39: 783-791.
27. Ferrero, L. M. & V. Fuente. 1996. Aportaciones al estudio cariológico de algunas especies del género Festuca L. endémicas del Mediterráneo Occidental. Bol. Soc. Brot. Sér. 2, 67: 303-308.
28. Fuente, V. de & E. Ortúñez. 1998. Biosistemática de la sección Festuca del género Festuca L. (Poaceae) en la Península Ibérica. Colección de Estudios 59. UAM Ediciones, Madrid.
29. _, L. M. Ferrero & E. Ortúñez. 2001. Chromosome counts in the genus Festuca L. section Festuca (Poaceae) in the Iberian Peninsula. Bot. J. Linn. Soc. 137: 385-398.
30. Fuertes-Aguilar, J., J. A. Rosselló & G. Nieto-Feliner. 1999. Molecular evidence for the compilospecies model of reticulate evolution in Armeria (Plumbaginaceae). Syst. Biol. 48: 735-754.
31. Gaut, B. S. 1998. Molecular clocks and nucleotide substitution rates in higher plants. Pp. 93-120 in M. K. Hecht (editor), Evolutionary Biology, Vol. 30. Plenum Press, New York.
32. _, S. V. Muse, W. D. Clark & M. T. Clegg. 1992. Relative rates of nucleotide substitution at the rbcL locus of monocotyledoneous plants. J. Molec. Evol. 35: 292-303.
33. _, B. R. Morton, B. C. McCaig & M. T. Clegg. 1996. Substitution rate comparisons between grasses and palms: Synonymous rate differences at the nuclear gene Adh parallel rate differences at the plastid gene rbcL. Proc. Natl. Acad. Sci. U.S.A. 93: 10274-10279.
34. _, L. G. Clark, J. F. Wendel & S. V. Muse. 1997. Comparisons of molecular evolutionary process at rbcL and ndhF in the grass family (Poaceae). Molec. Biol. Evol. 14: 769-777.
35. _, L. P. Tredway, C. Kubik, R. L. Gaut & W. Meyer. 2000. Phylogenetic relationships and genetic diversity among members of the Festuca-Lolium complex (Poaceae) based on ITS sequence data. Pl. Syst. Evol. 224: 33-53.
36. Gmelin, C. C. 1805. Flora badensis alsatica, Vol. 1. Müller, Karlsruhe.
37. Hackel, E. 1882. Monographia Festucarum Europearum. Theodor Fischer, Kassel und Berlin.
38. _. 1887. Gramineae. Pp. 1-97 in H. G. A. Engler & K. A. E. Prantl, Die Natürlichen Pflanzenfamilien, Teil 2, Abteilung 2. Engelmann, Leipzig.
39. Hillis, D. M. 1998. Taxonomic sampling, phylogenetic accuracy, and investigator bias. Syst. Biol. 47: 3-8.
40. Hiratsuka, J., H. Shimada, R. Whittier, T. Ishibashi, M. Sakamoto, M. Mori, C. Kondo, Y. Honji, C. R. Sun, B. Y. Meng, Y. Q. Li, A. Kanno, Y. Nishizawa, A. Hirai, K. Shinozaki & M. Sugiura. 1989. The complete sequence of the rice (Oryza sativa) chloroplast genome: Intermolecular recombinations between distinct trnA genes accounts for a major plastid DNA inversion during the evolution of the cereals. Molec. Gen. Genet. 217: 185-194.
41. Hsiao, C., N. J. Chatterton, K. H. Asay & K. B. Jensen. 1995. Molecular phylogeny of the Pooideae (Poaceae) based on nuclear rDNA (ITS) sequences. Theor. Appl. Genet. 90: 389-398.
42. Huelsenbeck, J. P. & F. Ronquist. 2002. MRBAYES. Bayesian inference of phylogeny. V. 3.0. Bioinformatics 17: 754-755.
43. Jobson, R. W. & V. A. Albert. 2002. Molecular-rates parallel diversification contrast betweeen carnivorous plant sister lineages. Cladistics 18: 127-136.
44. Johnson, L. A. & D. E. Soltis. 1998. Assessing congruence: Empirical examples from molecular data. Pp. 297-348 in D. E. Soltis, P. S. Soltis & J. J. Doyle (editors), Molecular Systematics of Plants II. Kluwer Academic Publishers, Boston.
45. Kellogg, E. A., R. Appels & R. J. Mason-Gamer. 1996. When gene trees tell different stories, incongruent gene trees for diploid genera of the Triticeae (Gramineae). Syst. Bot. 21: 321-347.
46. Kerguélen, M. 1999. Index Synonymique de la Flore de France. INRA-MNHN (http://www.inra.fr/flore-france).
47. _ & F. Plonka. 1989. Les Festuca de la Flore de France (Corse comprise). Bull. Soc. Bot. Centre-Ouest 10: 1-368.
48. Krivotulenko, U. 1960. Generis Festuca L. sectiones novae. Bot. Mat. (Leningrad) 20: 48-67.
49. Leaché, A. D. & T. N. Reeder. 2002. Molecular systematics of the eastern fence lizard (Sceloporus undulatus): A comparison of parsimony, likelihood, and bayesian approaches. Syst. Biol. 51: 44-68.
50. Linnaeus, C. 1753. Species Plantarum, exhibentes plantas rite cognitas, ad genera relatas, cum differentiis specifis, nominibus trivialibus, synonymis selectis, locis natalibus, secundum systema sexuales digestas. Holmiae. 2 Vols.
51. Maire, R. 1955. Flore de l'Afrique du Nord. III. Paul Lechevalier, Paris.
52. Markgraf-Dannenberg, I. von. 1980. Festuca L. Pp. 125-153 in T. G. Tutin et al. (editors), Flora Europaea, Vol. 5. Cambridge Univ. Press, Cambridge, U.K.
53. _. 1985. Festuca L. Pp. 400-442 in P. H. Davis (editor), Flora of Turkey and the East Aegean Islands, Vol. 9. Univ. Press, Edinburgh.
54. Mason-Gamer, R. J. & E. A. Kellogg. 1997. Testing for phylogenetic conflict among molecular data sets in the tribe Triticeae (Gramineae). Syst. Biol. 45: 524-545.
55. Mathews, D. H., J. Sabina, M. Zuker & D. H. Turner. 1999. Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure. J. Molec. Biol. 288: 911-940.
56. Mayol, M. & J. A. Rosselló. 2001. Why ribosomal DNA spacers (ITS) tell different stories in Quercus. Molec. Phylogenet. Evol. 19: 167-176.
57. Melderis, A. & C. A. Stace. 1968. A new species of Vulpia in Spain. Collect. Bot. 7: 781-786.
58. Paunero, E. 1963. El género Ctenopsis De Not. en la flora espanola. Anales Inst. Bot. Cavanilles 21: 359-372.
59. _. 1964. Notas sobre gramíneas. II. Consideraciones acerca del género Vulpia Gmel. Anales Inst. Bot. Cavanilles 22: 83-114.
60. Posada, D. & K. A. Crandall. 1998. Modeltest: Testing the model of DNA substitution. Bioinformatics 14: 817-818.
61. Rambaut, A. 1996. Sequence Alignment Editor (Se-Al), Ver. 1.0 alpha 1. Oxford University, Oxford.
62. Robinson, M. & D. Huchon. 2000. RRTree: Relative-Rate Test between groups of sequences on a phylogenetic tree. Bioinformatics 16: 296-297.
63. _, M. Gouy, C. Gautier & D. Mouchiroud. 1998. Sensitivity of the relative-rate test to taxonomic sampling. Molec. Biol. Evol. 15: 1091-1098.
64. Saint-Yves, A. 1913. Les Festuca de la section Eu-Festuca et leurs variations dans les Alpes maritimes. Annuaire Conserv. Jard. Bot. Genève 17: 1-218.
65. _. 1922. Les Festuca (subgen. Eu-Festuca) de l'Afrique du Nord et de les Isles Atlantiques. Candollea 1: 1-63.
66. _. 1925. Le Festuca ovina L. subsp. indigesta Hack. Bull. Soc. Bot. France 72: 995-1012.
67. Soltis, D. E. & P. S. Soltis. 1993. Molecular data and the dynamic nature of polyploidy. C. R. C. Crit. Rev. Pl. Sci. 12: 243-273.
68. _ & _. 1999. Polyploidy: Recurrent formation and genome evolution. TREE 14: 348-352.
69. Soltis, P. S., G. M. Plunkett, S. J. Novak & D. E. Soltis. 1995. Genetic variation in Tragopogon species: Additional origins of the allotetraploids T. mirus and T. miscellus (Compositae). Amer. J. Bot. 82: 1329-1341.
70. Soreng, R. J. & J. I. Davis. 2000. Phylogenetic structure in Poaceae subfamily Pooideae as inferred from molecular and morphological characters: Misclassification versus reticulation. Pp. 61-74 in S. W. L. Jacobs & J. Everett (editors), Grasses: Systematics and Evolution. CSIRO, Melbourne.
71. Stace, C. A. 1978a. Changing concepts of the genus Nardurus Reichenb. (Gramineae). Bot. J. Linn. Soc. 76: 344-350.
72. _. 1978b. Notes on Cutandia and related genera. Bot. J. Linn. Soc. 76: 350-352.
73. _. 1980. Wangenheimia Moench. P. 157 in T. G. Tutin et al. (editors), Flora Europaea, Vol. 5. Cambridge Univ. Press, Cambridge, U.K.
74. _. 1981. Generic and infrageneric nomenclature of annual Poaceae: Poeae related to Vulpia and Desmazeria. Nordic J. Bot. 1: 17-26.
75. _ & R. Cotton. 1973. Vulpia sicula and the genus Vulpia. Nature, New Biol. 224: 128.
76. _ & _. 1974. Hybrids between Festuca rubra L. sensu lato and Vulpia membranacea (L.) Dum. Watsonia 10: 119-138.
77. _ & _. 1980. Vulpia C. C. Gmel. Pp. 154-156 in T. G. Tutin et al. (editors), Flora Europaea, Vol. 5. Cambridge Univ. Press, Cambridge, U.K.
78. Stebbins, G. L. 1950. Variation and Evolution in Plants. Columbia Univ. Press, New York.
79. _. 1956. Cytogenetics and evolution of the grass family. Amer. J. Bot. 43: 890-905.
80. Swofford, D. L 2002. PAUP* 4.0 beta 10: Phylogenetic Analysis Using Parsimony and other methods, Ver. 4. beta test. Sinauer, Sunderland.
81. Taberlet, P., L. Gielly, G. Pautou & J. Bouvet. 1991. Universal primers for amplification of three non-coding regions of chloroplast DNA. Pl. Molec. Biol. 17: 1105-1109.
82. Thompson, J. D., D. G. Higgins & T. J. Gibson. 1994. Clustal W - Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucl. Acids Res. 22: 4673-4680.
83. Torrecilla, P. & P. Catalan. 2002. Phylogeny of broad-leaved and fine-leaved Festuca lineages (Poaceae) based on nuclear ITS sequences. Syst. Bot. 27: 241-251.
84. _, J. A. López-Rodríguez, D. Stancik & P. Catalán. 2003. Systematics of Festuca sects. Eskia Willk., Pseudatropis Kriv., Amphigenes (Janka) Tzvel., Pseudoscariosa Kriv., and Scariosae Hack. based on analysis of morphological characters and DNA sequences. Pl. Syst. Evol. 239: 113-139.
85. Tzvelev, N. N. 1982. Poryadok zlaki (Poales). Zhizn'Rastenii 6, 341-378.
86. Tutin, T. G. 1980. Psilurus Trin. P. 173 in T. G. Tutin et al. (editors), Flora Europaea, Vol. 5. Cambridge Univ. Press, Cambridge, U.K.
87. Vignal, C. 1979. Contribution à l'étude histologique de: Parapholis incurva (L.) C. E. Hubb., Parapholis filiformis (Roth) C. E. Hubb., Hainardia cylindrica (Willd.) W. Greuter et Psilurus incurvus (Gouan) Schinz & Thell. Rev. Biol.-Ecol. Médit. VI, 1: 3-18.
88. Wendel, J. A. & J. J. Doyle. 1998. Phylogenetic incongruence: Window into genome history and molecular evolution. Pp. 265-296 in P. S. Soltis, D. E. Soltis & J. J. Doyle, Molecular Systematics of Plants II: DNA Sequencing. Kluwer Academic Publishers, Dordrecht.
89. Whitall, J., A. Liston, S. Gisler & R. J. Meinke. 2000. Detecting nucleotide additivity from direct sequences is a SNAP: An example from Sidalcea (Malvaceae). Pl. Biol. 2: 1-7.
90. Yoder, A. D., J. A. Irwin & B. A. Payseur. 2001. Failure of the ILD to determine data combinability for Slow Loris phylogeny. Syst. Biol. 50: 408-424.
91. Zhong, Y., Q. Zhao, S. H. Shi, Y. L. Huang & M. Hasegawa. 2002. Detecting evolutionary rate heterogeneity among mangroves and their close terrestrial relatives. Ecol. Lett. 5: 427-432.
92. Zuker, M. 1989. On finding all suboptimal foldings of an RNA molecule. Science 244: 48-52.
93. _. D. H. Mathews & D. H. Turner. 1999. Algorithms and thermodynamics for RNA secondary structure prediction: A practical guide. Pp. 11-43 in J. Barciszewski & B. F. C. Clark (editors), RNA Biochemistry and Biotechnology. NATO ASI Series. Kluwer Academic Publishers.