Phylogenetic relationships of Chalara and allied species inferred from ribosomal DNA sequences

Mycological Progress

Volumn 8, Issue 2, 2009, Pages 133-143

  Cai, Lei ^a,d   Wu, Wen Ping ^b   Hyde, Kevin D ^c  

^a UNIVERSITY OF HONG KONG   (Hong Kong)

^b NOVOZYMES A S   (Denmark)

^c MAE FAH LUANG UNIVERSITY   (Thailand)

^d Novozymes (China) Investment Co Ltd   (China)

Author keywords

Anamorphic fungi; Chaetochalara; Fungal morphology; Phylogeny

Indexed keywords

CHALARA; FUNGI; FUNGI IMPERFECTI; HELOTIALES; XYLARIALES;

EID: 67349182480     PISSN: 1617416X     EISSN: 18618952     Source Type: Journal    
DOI: 10.1007/s11557-009-0585-5     Document Type: Article

References (60)

1. ML Berbee A Yoshimura J Sugiyama JW Taylor 1995 Is Penicillium monophyletic? An evaluation of phylogeny in the family Trichocomaceae from 18S, 5.8S and ITS ribosomal DNA sequence data Mycologia 87 210 222
2. J Buschbom G Mueller 2004 Resolving evolutionary relationships in the lichen-forming genus Porpidia and related allies (Porpidiaceae, Ascomycota) Mol Phylogenet Evol 32 66 82
3. L Cai R Jeewon KD Hyde 2006 Phylogenetic investigations of Sordariaceae based on multiple gene sequences and morphology Mycol Res 110 137 150
4. J Campbell B Volkmann-Kohlmeyer T Grafenhan JW Spatafora J Kohlmeyer 2005 A re-evaluation of Lulworthiales: relationships based on 18S and 28S rDNA Mycol Res 109 556 568
5. C Coetsee MJ Wingfield PW Crous BD Wingfield 2000 Xenochalara, a new genus of dematiaceous hyphomycetes for Chalara-like fungi with apical wall building conidial development S Afr J Bot 66 99 103
6. C Decock G Delgado K Seifert 2005 Taxonomy and phylogeny of Synchaetomella lunatospora, a new genus and species of synnematous fungus from Southeast Asia Antonie Van Leeuwenhoek 88 231 240
7. JJ Doyle JL Doyle 1987 A rapid DNA isolation procedure for small quantities of fresh leaf tissue Phytochem Bull 19 11 15
8. LM Duong EHC McKenzie S Lumyong KD Hyde 2008 Fungal succession on senescent leaves of Castanopsis diversifolia in Doi Suthep-Pui National Park, Thailand Fungal Divers 30 23 36
9. MB Ellis 1961 Dematiaceous Hyphomycetes. II Mycol Pap 79 1 23
10. CE Fulton AE Brown 1997 Use of SSU rDNA group-I intron to distinguish Monilinia fructicola from M. laxa and M. fructigena FEMS Microbiol Lett 157 307 312
11. Gams W (2000) Phialophora and some similar morphologically little-differentiated anamorphs of divergent ascomycetes. In: Seifert KA, Gams W, Crous PW, Samuels GJ (eds) Molecules, morphology and classification: towards monophyletic genera in Ascomycetes. Stud Mycol 45:187-199
12. W Gams V Holubová-Jechová 1976 Chloridium and some other dematiaceous hyphomycetes growing on decaying wood Stud Mycol 13 1 99
13. W Gams S Philippi 1992 A study of Cyathicula strobilina and its Chalara anamorph in vitro Persoonia 14 547 552
14. H Gebhardt M Weiss F Oberwinkler 2005 Dryadomyces amasae: a nutritional fungus associated with ambrosia beetles of the genus Amasa (Coleoptera: Curculionidae, Scolytinae) Mycol Res 109 687 696
15. DS Gernandt JK Stone 1999 Phylogenetic analysis of nuclear ribosomal DNA places the nematode parasite, Drechmeria coniospora in Clavicipitaceae Mycologia 91 993 1000
16. DS Gernandt JL Platt JK Stone JW Spatafora A Holst-Jensen RC Hamelin LM Kohn 2001 Phylogenetics of Helotiales and Rhytismatales based on partial small subunit nuclear ribosomal DNA sequences Mycologia 93 915 933
17. TA Hall 1999 BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT Nucleic Acids Symp Ser 41 95 98
18. JP Huelsenbeck FR Ronquist 2001 MRBAYES: Bayesian inference of phylogenetic trees Biometrics 17 754 755
19. J Issakainen J Jalava E Eerola CK Campbell 1997 Relatedness of Pseudallescheria, Scedosporium and Graphium pro parte based on SSU rDNA sequences J Med Vet Mycol 35 389 398
20. A Jacobs MPA Cortzee BD Wingfield K Jacobs MJ Wingfield 2003 Phylogenetic relationships among Phialocephala species and other ascomycetes Mycologia 95 637 645
21. NG Kamgan K Jacobs ZW de Beer MJ Wingfield J Roux 2008 Ceratocystis and Ophiostoma species including three new taxa, associated with wounds on native South African trees Fungal Divers 29 37 59
22. B Kendrick 1980 The generic concept in hyphomycetes - A reappraisal Mycotaxon 11 339 364
23. PM Kirk BM Spooner 1984 An account of the fungi of Arran, Gigha and Kintyre Kew Bull 38 503 597
24. Kirk PM, Cannon PF, David WM, Stalpers JA (2008) Dictionary of the Fungi, 10th edn. CABI Publishing, Wallingford, UK
25. H Kishino M Hasegawa 1989 Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order of Hominoidea J Mol Evol 29 170 179
26. R Kodsueb EHC McKenzie S Lumyong KD Hyde 2008 Diversity of saprobic fungi on Magnoliaceae Fungal Divers 30 37 53
27. R Kodsueb EHC McKenzie S Lumyong KD Hyde 2008 Fungal succession on woody litter of Magnolia liliifera (Magnoliaceae) Fungal Divers 30 55 72
28. EHC McKenzie A Pinnoi MKM Wong KD Hyde EBG Jones 2002 Two new hyaline Chalara species, and a key to species described since 1975 Fungal Divers 11 129 139
29. E Müller GJ Samuels 1982 Anamorphs of pyrenomycetous Ascomycetes. III. The Sporoschisma and Chalara anamorphs of Melanochaeta aotearoae Sydowia 35 155 161
30. E Müller J Harr P Sulmont 1969 Deux ascomycètes dont le stade conidien présente des conidies phaeophragmiées endogènes Rev Mycol 33 369 378
31. Nag Raj TR, Kendrick B (1975) A monograph of Chalara and allied genera. Wilfrid Laurier University Press, Waterloo, Ontario, Canada
32. RDM Page 1996 TREEVIEW: An application to display phylogenetic trees on personal computers Comput Appl Biosci 12 357 358
33. AE Paulin TC Harrington 2000 Phylogenetic placement of anamorphic species of Chalara among Ceratocystis species and other ascomycetes Stud Mycol 45 209 222
34. AE Paulin-Mahady TC Harrington D NcNew 2002 Phylogenetic and taxonomic evaluation of Chalara, Chalaropsis, and Thielaviopsis anamorphs associated with Ceratocystis Mycologia 94 62 72
35. A Pinnoi S Lumyong KD Hyde EBG Jones 2006 Biodiversity of fungi on the palm Eleiodoxa conferta in Sirindhorn peat swamp forest, Narathiwat, Thailand Fungal Divers 22 205 218
36. U Pinruan KD Hyde S Lumyong EHC McKenzie EBG Jones 2007 Occurrence of fungi on tissues of the peat swamp palm Licuala longicalycata Fungal Divers 25 157 173
37. JL Platt JW Spatafora 2000 Evolutionary relationships of nonsexual lichenized fungi: molecular phylogenetic hypotheses for the genera Siphula and Thamnolia from SSU and LSU rDNA Mycologia 92 475 487
38. D Posada KA Crandall 1998 Modeltest: testing the model of DNA substitution Bioinformatics 49 817 818
39. B Rannala Z Yang 1996 Probability distribution of molecular evolutionary trees: a new method of phylogenetic inference J Mol Evol 43 304 311
40. M Réblová 1999 Teleomorph-anamorph connections in Ascomycetes 2. Ascochalara gabretae gen. et sp. nov. and its Chalara-like anamorph Sydowia 51 210 222
41. M Réblová KA Seifert 2004 Cryptadelphia (Trichosphaeriales), a new genus for holomorphs with Brachysporium anamorphs and clarification of the taxonomic status of Wallrothiella Mycologia 96 343 367
42. GJ Samuels JD Rogers 1990 Some ascomycetes (Fungi) occurring on tropical ferns Brittonia 42 105 115
43. Seifert KA, Wingfield MJ, Kendrick B (1993) A nomenclator for described species of Ceratocystis, Ophiostoma, Ceratocystiopsis, Ceratostomella and Sphaeronaemella. In: Wingfield MJ, Seifert KA, Webber JF (eds) Ceratocystis and Ophiostoma: their taxonomy, ecology and pathogenicity. APS Press, St. Paul, Mn, pp 253-271
44. BD Shenoy R Jeewon WP Wu DJ Bhat KD Hyde 2006 Ribosomal and RPB2 DNA sequence analyses suggest that Sporidesmium and morphologically similar genera are polyphyletic Mycol Res 110 916 928
45. BD Shenoy R Jeewon KD Hyde 2007 Impact of DNA sequence-data on the taxonomy of anamorphic fungi Fungal Divers 26 1 54
46. GJD Smith ECY Liew KD Hyde 2003 The Xylariales: a monophyletic order containing 7 families Fungal Divers 13 175 208
47. JW Spatafora M Blackwell 1994 The polyphyletic origins of ophiostomatoid fungi Mycol Res 98 1 9
48. BC Sutton KA Pirozynski 1965 Notes on microfungi. II Trans Br Mycol Soc 48 349 366
49. Swofford DL (2002) PAUP: phylogenetic analysis using parsimony (and other methods). Version 4b10. Sinauer Associates, Sunderland, Massachusetts, USA
50. JD Thomson TJ Gibson F Plewniak F Jeanmougin DG Higgins 1997 The Clustal-X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools Nucleic Acids Res 25 4876 4882
51. CKM Tsui ML Berbee R Jeewon KD Hyde 2006 Molecular phylogeny of Dictyosporium and allied genera inferred from ribosomal DNA Fungal Divers 21 157 166
52. R Vilgalys M Hester 1990 Rapid genetic identification and mapping of enzymatically amplified ribosomal DNA from several Cryptococcus species J Bacteriol 172 4238 4246
53. Z Wang M Binder DS Hibbett 2005 Life history and systematics of the aquatic discomycete Mitrula (Helotiales, Ascomycota) based on cultural, morphological, and molecular studies Am J Bot 92 1565 1574
54. E Weber C Görke D Begerow 2002 The Lecythophora-Coniochaeta complex II. Molecular studies based on sequences of the large subunit of ribosomal DNA Nova Hedwigia 74 187 200
55. Webster J, Weber R (2007) Introduction to fungi, 3rd edn. University Press, Cambridge, UK
56. 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. Academic Press, San Diego, pp 315-322
57. K Winka OE Eriksson 2000 Papulosa amerospora accommodated in a new family (Papulosaceae, Sordariomycetes, Ascomycota) inferred from morphological and molecular data Mycoscience 41 97 103
58. WP Wu 2004 Chalara and allied genera from China: new species and new records of Chalara from China Mycosystema 23 313 323
59. ZH Yu WY Zhuang 2003 Phylogenetic relationships of Lachnum and related genera inferred from partial sequences of 18S rDNA Mycosystema 22 37 45
60. O Zhaxybayeva JP Gogarten 2002 Bootstrap, Bayesian probability and maximum likelihood mapping: exploring new tools for comparative genome analyses Genomics 3 1 15