A revision of Bremia graminicola

Mycological Research

Volumn 110, Issue 6, 2006, Pages 646-656

  Thines, Marco ^a   Göker, Markus ^b   Spring, Otmar ^a   Oberwinkler, Franz ^b  

^a UNIVERSITY OF HOHENHEIM   (Germany)

^b UNIVERSITY OF TÜBINGEN   (Germany)

Author keywords

Graminicolous downy mildews; Graminivora graminicola; LSU rDNA; Neighbour Net; Oomycetes; Phylogenetic analysis; Reduced consensus; Viennotia oplismeni

Indexed keywords

FUNGAL DNA; RIBOSOME DNA;

DNA; FUNGUS; GRASS; MOLECULAR ANALYSIS; PATHOGEN; PLANT; TAXONOMY;

ARTICLE; CLASSIFICATION; DNA SEQUENCE; GENETICS; ISOLATION AND PURIFICATION; MICROBIOLOGICAL EXAMINATION; MICROBIOLOGY; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; OOMYCETES; PHYLOGENY; PLANT DISEASE; POACEAE; SCANNING ELECTRON MICROSCOPY; ULTRASTRUCTURE;

DNA, FUNGAL; DNA, RIBOSOMAL; MICROSCOPY, ELECTRON, SCANNING; MOLECULAR SEQUENCE DATA; MYCOLOGICAL TYPING TECHNIQUES; OOMYCETES; PHYLOGENY; PLANT DISEASES; POACEAE; SEQUENCE ANALYSIS, DNA;

ASIA; CENTRAL ASIA; EURASIA; FAR EAST;

ARTHRAXON; BREMIA; BREMIA LACTUCAE; CHROMISTA; GRAMINICOLA; HYALOPERONOSPORA; PARAPERONOSPORA; PERONOSPORA FARINOSA; PERONOSPORALES; PLASMOPARA; POACEAE; SCLEROSPORA GRAMINICOLA; VIENNOTIA OPLISMENI;

EID: 33745953141     PISSN: 09537562     EISSN: 14698102     Source Type: Journal    
DOI: 10.1016/j.mycres.2006.04.001     Document Type: Article

References (61)

1. Bryant D., and Moulton V. Neighbor-net: an agglomerative method for the construction of phylogenetic networks. Molecular Biology and Evolution 21 (2004) 255-265
2. Constantinescu O. Peronospora complex on Compositae. Sydowia 41 (1989) 79-107
3. Constantinescu O. A revision of Basidiophora (Chromista, Peronosporales). Nova Hedwigia 66 (1998) 251-265
4. Constantinescu O., and Fatehi J. Peronospora-like fungi (Chromista, Peronosporales) parasitic on Brassicaceae and related hosts. Nova Hedwiga 74 (2002) 291-338
5. Constantinescu O., Voglmayr H., Fatehi J., and Thines M. Plasmoverna gen. nov., and the taxonomy and nomenclature of Plasmopara (Chromista, Peronosporales). Taxon 54 (2005) 813-821
6. De Bary A. Researches into the nature of the potato fungus, Phytophthora infestans. Journal of the Royal Agricultural Society 12 (1876) 239-269
7. Dick M.W. Straminipilous Fungi: Systematics of the Peronosporomycetes, Including Accounts of the Marine Straminipilous Protists, the Plasmodiophorids and Similar Organisms (2001), Kluwer, Dordrecht
8. Dick M.W. Towards an understanding of the evolution of the downy mildews. In: Spencer-Phillips P.T.N., Gisi U., and Lebeda A. (Eds). Advances in Downy Mildew Research vol. 2 (2002), Kluwer, Dordrecht 1-57
9. Dick M.W., Wong P.T.W., and Clark G. The identity of the oomycete causing 'Kikuyu Yellows', with a reclassification of the downy mildews. Botanical Journal of the Linnaean Society 89 (1984) 171-197
10. Farris J.S. The retention index and the rescaled consistency index. Cladistics 5 (1989) 417-419
11. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. Journal of Molecular Evolution 17 (1981) 368-376
12. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39 (1985) 783-791
13. Felsenstein J. Inferring Phylogenies (2004), Sinauer Associates, Sunderland, Massachusetts
14. Fitch W.M. Towards defining the course of evolution: minimal change for a specified tree topology. Systematic Zoology 20 (1971) 406-416
15. Fraymouth J. Haustoria of the Peronosporales. Transactions of the British Mycological Society 39 (1956) 79-107
16. Gascuel O. BIONJ, an improved version of the NJ algorithm based on a simple model of sequence data. Molecular Biology and Evolution 14 (1997) 685-695
17. Göker M., Voglmayr H., Riethmüller A., Weiß M., and Oberwinkler F. Taxonomic aspects of Peronosporaceae inferred from Bayesian molecular phylogenetics. Canadian Journal of Botany 81 (2003) 672-683
18. Guindon S., and Gascuel O. A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Systematic Biology 52 (2003) 696-704
19. Hall G. Modern approaches to species concepts in downy mildews. Plant Pathology 45 (1996) 1009-1026
20. Hillis D.M., and Bull J.J. An empirical test of bootstrapping as a method for assessing confidence in phylogenetic analysis. Systematic Biology 42 (1993) 182-192
21. Hudspeth D.S., Stenger D.C., and Hudspeth M.E. A cox2 phylogenetic hypothesis for the downy mildews and white rusts. Fungal Diversity 13 (2003) 47-57
22. Huelsenbeck J.P., and Rannala B. Frequentist properties of Bayesian posterior probabilities of phylogenetic trees under simple and complex substitution models. Systematic Biology 53 (2004) 904-913
23. Huelsenbeck J.P., Ronquist F., Nielsen R., and Bollback J.P. Bayesian inference of phylogeny and its impact on evolutionary biology. Science 294 (2001) 2310-2314
24. Huson D.H., and Bryant D. Application of phylogenetic networks in evolutionary studies. Molecular Biology and Evolution 23 (2006) 254-267
25. Ito S. Mycological Flora in Japan. Phycomycetes vol. 1 (1936), Japan, Tokyo
26. Katoh K., Misawa K., Kuma K., and Miyata T. MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform. Nucleic Acids Research 30 (2002) 3059-3066
27. Kenneth R.G. Downy mildews of graminaceous crops. In: Spencer D.M. (Ed). The Downy Mildews (1981), Academic Press, London, UK 367-394
28. Kenneth R., and Kranz J. Plasmopara penniseti sp. nov., a downy mildew of pearl millet in ethiopia. Transactions of the British Mycological Society 60 (1973) 590-593
29. Lapointe F.-J. How to account for reticulation in events in phylogenetic analysis: a comparison of distance-based methods. Journal of classification 17 (2000) 175-184
30. Legendre P. Reticulate evolution: from bacteria to philosopher. Journal of classification 17 (2000) 153-157
31. McNicol R.J., and Williamson B. Systemic infection of black currant flowers by Botrytis cinerea and its possible involvement in premature abscission of fruits. Annals of Applied Biology 114 (1989) 243-254
32. Naumov N. Matériaux pour la Flore mycologique de la Russie. Bulletin del la Société Mycologique de France 29 (1913) 273-278
33. Novotel'nova N.S., and Pystina K.A. Ordo Peronosporales (Fam. Pythiaceae, Phytophthoraceae, Peronosporaceae, Cystopaceae). [In Russian]. In: Gorlenko M.V. (Ed). Cryptogamic Flora of USSR. Fungi (3) vol. 11 (1985), Nauka, Leningrad
34. Patel M.K. Bremia sp. on Arthraxon lancifolius Hoch in India. Indian Phytopathology 1 (1949) 104-106
35. Posada D., and Buckley T.R. Model selection and model averaging in phylogenetics: advantages of the AIC and Bayesian approaches over likelihood ratio tests. Systematic Biology 53 (2004) 793-808
36. Posada D., and Crandall K.A. Modeltest: testing the model of DNA substitution. Bioinformatics 14 (1998) 817-818
37. Regel E. Beiträge zur Kenntnis einiger Blattpilze. Botanische Zeitung 1 (1843) 665-667
38. Riethmüller A., Voglmayr H., Göker M., Weiß M., and Oberwinkler F. Phylogenetic relationships of the downy mildews (Peronosporales) and related groups based on nuclear large subunit ribosomal DNA sequences. Mycologia 94 (2002) 834-849
39. Riethmüller A., Weiß M., and Oberwinkler F. Phylogenetic studies of Saprolegniomycetidae and related groups based on nuclear large subunit DNA sequences. Canadian Journal of Botany 77 (1999) 1790-1800
40. Roze E., and Cornu M. Sur deux nouveaux types géneriques pour des familles Saprolegniées et des Péronosporées. Annales des Sciences Naturelles 5 (1869) 72-91
41. Sanderson M.J. Confidence limits in phylogeny: the bootstrap revisited. Cladistics 5 (1989) 113-129
42. Schröter J. Fam. Peronosporacei. In: Cohn F. (Ed). Kryptogamen-Flora von Schlesien (1886), J.U. Kern, Breslau 228-252
43. Spencer M.A., and Dick M.W. Aspects of graminicolous downy mildew biology: perspectives for tropical plant pathology and Peronosporomycetes phylogeny. In: Watling R., Frankland J.C., Ainsworth A.M., and Robinson C.H. (Eds). Tropical Mycology. Micromycetes vol. 2 (2002), CABI publishing, Wallingford, UK 63-81
44. Simmons M.P., Pickett K.M., and Miya M. How meaningful are Bayesian support values?. Molecular Biology and Evolution 21 (2004) 188-199
45. Spring O., and Thines M. On the necessity of new characters for classification and systematics of biotrophic Peronosporomycetes. Planta 219 (2004) 910-914
46. Suzuki Y., Glazko G.V., and Nei M. Overcredibility of molecular phylogenies obtained by Bayesian phylogenetics. Proceedings of the National Academy of Sciences of the United States of America 99 (2002) 16138-16143
47. Swofford D.L. PAUP*: Phylogenetic Analysis Using Parsimony (*and other methods). Version 4b10 (2002), Sinauer Associates, Sunderland, Massachusetts
48. Swofford D.L., Olsen G.J., Waddell P.J., and Hillis D.M. Phylogenetic inference. In: Hillis D.M., Moritz C., and Mable B.K. (Eds). Molecular Systematics (1996), Sinauer Associates, Mass., USA 407-514
49. Tao J. Bremia. [In Chinese]. In: Yu Y. (Ed). Flora Fungorum Sinicorum. Peronosporales vol. 6 (1998), Science Press, China 201-221
50. Taylor D.J., and Piel W.H. An assessment of accuracy, error, and conflict with support values from genome-scale phylogenetic data. Molecular Biology And Evolution 21 (2004) 1534-1537
51. Thines M., and Spring O. A revision of Albugo (Chromista, Peronosporomycetes). Mycotaxon 92 (2005) 413-428
52. Togashi K. Notes on some parasitic fungi of Japan. Bulletin of the Imperial College of Agriculture and Forestry 9 (1926) 17-29
53. Viennot-Bourgin G. Champignons nouveaux de la Guinée. Bulletin Trimestriel de la Société Mycologique de France 75 (1959) 33-37
54. Voglmayr H., Riethmüller A., Göker M., Weiß M., and Oberwinkler F. Phylogenetic relationships of Plasmopara, Bremia and other genera of downy mildews with pyriform haustoria based on Bayesian analysis of partial LSU rDNA sequence data. Mycological Research 108 (2004) 1011-1024
55. Wheeler W.C. Measuring topological congruence by extending character techniques. Cladistics 15 (1999) 131-135
56. Wilkinson M. Common cladistic information and its consensus representation: reduced Adams and reduced cladistic consensus trees and profiles. Systematic Biology 43 (1994) 343-368
57. Wilkinson M. More on reduced consensus methods. Systematic Biology 44 (1995) 435-439
58. Wilkinson M. Majority-rule reduced consensus trees and their use in bootstrapping. Molecular Biology and Evolution 13 (1996) 437-444
59. Wilkinson M. Split support and split conflict randomization tests in phylogenetic inference. Systematic Biology 47 (1998) 673-695
60. Wilkinson J.M., Lapointe F.-J., and Gower D.J. Branch lengths and support. Systematic Biology 52 (2003) 127-130
61. Wilson G.W. Studies in North American Peronosporales VI. Notes on Miscellaneous species. Mycologia 6 (1914) 192-210