Multi-gene phylogeny of the Halosphaeriaceae: Its ordinal status, relationships between genera and morphological character evolution

Fungal Diversity

Volumn 46, Issue , 2011, Pages 87-109

  Sakayaroj, Jariya ^a   Pang, Ka Lai ^b   Jones, E B Gareth ^a  

^a NATIONAL SCIENCE AND TECHNOLOGY DEVELOPMENT AGENCY   (Thailand)

^b NATIONAL TAIWAN OCEAN UNIVERSITY   (Taiwan)

Author keywords

Evolution; Halosphaeriaceae; Kochiella; Microascales; New genera; Toriella . Tubakiella

Indexed keywords

ASCOMYCOTA; CERIOSPOROPSIS; CERIOSPOROPSIS TUBULIFERA; FUNGI; GALERITA; HALOSPHAERIA; HALOSPHAERIACEAE; HALOSPHAERIALES; MICROASCACEAE; MICROASCALES; PERIDIUM;

EID: 79955865742     PISSN: 15602745     EISSN: 18789129     Source Type: Journal    
DOI: 10.1007/s13225-010-0072-y     Document Type: Article

References (126)

1. Abbott SP, Singler L, Currah RS (1998) Microascus brevicaulis sp. nov., the teleomorph of Scopulariopsis brevicaulis, supports placement of Scopulariopsis with the Microascaceae. Mycologia 90:297-302 (Pubitemid 28189713)
2. Abdel-Wahab MA, Jones EBG, Vrijmoed LLP (1999) Halosarpheia kandeliae sp. nov. on intertidal bark of the mangrove tree Kandelia candel in Hong Kong. Mycol Res 103:1500-1504 (Pubitemid 30319443)
3. Abdel-Wahab MA, El-Sharouney HM, Jones EBG (2001a) Two new intertidal lignicolous Swampomyces species from Red Sea Mangroves in Egypt. Fungal Divers 8:35-40 (Pubitemid 33734784)
4. Abdel-Wahab MA, Pang KL, El-Sharouney HM, Jones EBG (2001b) Halosarpheia unicellularis sp. nov. (Halosphaeriales, Ascomycota) based on morphological and molecular evidence. Mycoscience 42:255-260 (Pubitemid 32925790)
5. Abdel-Wahab MA, Nagahama T, Abdel-Aziz FA (2009) Two new Corollospora species and one new anamorph based on morphological and molecular data. Mycoscience 50:147-155
6. Alias SA, Jones EBG (2009) Marine fungi from mangroves of Malaysia. Monograph No. 8, Institute of Ocean and Earth Sciences, Malaysia
7. Alias SA, Moss ST, Jones EBG (2001) Cucullosporella mangrovei, ultrastructure of ascospores and their appendages. Mycoscience 42:405-411 (Pubitemid 34099291)
8. Anderson JL, Chen W, Shearer CA (2001) Phylogeny of Halosarpheia based on 18S rDNA. Mycologia 93:897-906
9. Baker TA, Jones EBG, Moss ST (2001) Ultrastructure of ascus and ascospore appendages of the mangrove fungus Halosarpheia ratnagiriensis (Halosphaeriales, Ascomycota). Can J Bot 79:1-11
10. Barghoorn ES, Linder DH (1944) Marine fungi: their taxonomy and biology. Farlowia 1:395-467
11. Barr ME (2001) Ascomycota. In: McLaughlin DJ, McLaughlin EG, Lemke PA (eds) The mycota VII part a systematics and evolution. Springer-Verlag, Berlin Heidelberg, pp 161-177
12. Binder M, Hibbett DS, Wang Z, Farnham WF (2006) Evolutionary relationships of Mycaureola dilseae (Agaricales), a basidiomycetes pathogen of a subtidal Rhodophyte. Am J Bot 93:547-556
13. Bunyard BA, Nicholson MS, Royse DJ (1994) A systematic assessment of Morchella using RFLP analysis of the 28S ribosomal RNA gene. Mycologia 86:762-772
14. Cai L, Ji KF, Hyde KD (2006) Variation between freshwater and terrestrial fungal communities on decaying bamboo culms. Anton Leeuw Int J G 89:293-301
15. Cain RF (1972) Evolution of the fungi. Mycologia 64:1-14
16. Campbell J (1999) Molecular phylogeny of the Halosphaeriaceae, Ascomycota. University of Portsmouth, UK, Ph.D. Dissertation
17. Campbell J, Anderson JL, Shearer CA (2003) Systematics of Halosarpheia based on morphological and molecular data. Mycologia 95:530-552 (Pubitemid 36914694)
18. Campbell J, Volkmann-Kohlmeyer B, Gräfenhan T, Spatafora JW, Kohlmeyer J (2005) A reevaluation of Lulworthiales: relationships based on 18S and 28S rDNA. Mycol Res 109:556-568 (Pubitemid 40850005)
19. Cavaliere AR, Johnson TW (1966) Marine ascomycetes: ascocarp morphology and its application to taxonomy and evaluation. Nova Hedw 10:453-461
20. Chen W, Shearer CA, Crane JL (1999) Phylogeny of Ophioceras spp. based on morphological and molecular data. Mycologia 91:84-94 (Pubitemid 29068564)
21. Choi YW, Hyde KD, Ho WH (1999) Single spore isolation of fungi. Fungal Divers 3:29-38
22. de Bary A (1887) Comparative morphology and biology of the fungi, mycetozoa and bacteria. Clarendon, Oxford, pp 1-525
23. Demoulin V (1974) The origin of ascomycetes and basidiomycetes. The case for a red algal ancestry. Bot Rev 40:315-345
24. Demoulin V (1985) The red algal-higher fungi phylogenetic link: the last ten years. BioSystems 18:347-356 (Pubitemid 16182557)
25. Edgar RC (2004) MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32:1792-1797 (Pubitemid 38832724)
26. Eriksson OE (1984) Outline of the ascomycetes. Systema Ascomycetum3:1-72
27. Farris JS, Källersjö M, Kluge AG, Bult C (1995) Testing significance of incongruence. Cladistics 10:315-319
28. Farrant CA, Jones EBG (1986) Haligena salina: a new marine pyrenomycete. Bot J Linn Soc 93:405-411
29. Fazzani K, Jones EBG (1977) Spore release and dispersal in marine and brackish water fungi. Material Org 12:235-248
30. Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783-791
31. Hall T (2007) BioEdit 7.0.9.0. Department of Microbiology, North Carolina State University. (http://www.mbio.ncsu.edu/BioEdit/ bioedit.html)
32. Hibbett DS, Binder M, Bischoff JF et al (2007) A higher-level phylogenetic classification of the fungi. Mycol Res 111:509-547 (Pubitemid 46915419)
33. Höhnk W (1955) Studien zur Brack-und Seewassermykologie. V. Höhere Pilze des sub-mersen Holzes. Veroeff Inst Meeresforsch Bremerhaven 3:199-227
34. Hsieh S-Y, Chang HS, Jones EBG, Read SJ, Moss ST (1995) Halosarpheia aquadulcis sp. nov., a new lignicolous, freshwater ascomycete from Taiwan. Mycol Res 99:49-53
35. Huelsenbeck JP, Ronquist F (2001) MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17:754-755 (http://morphbank. ebc.uu.se/mrbayes/download.php) (Pubitemid 32851390)
36. Hyde KD (1990) A new marine ascomycete from Brunei Aniptodera longispora sp. nov. from intertidal mangrove wood. Bot Mar 33:335-338
37. Hyde KD (1992) Tropical Australian freshwater fungi IV. Halosarpheia aquatica sp. nov., Garethjonesia lacunosispora gen. et sp. nov. and Ophioceras dolichostomum (Ascomycetes). Aust Syst Bot 5:407-414
38. Hyde KD, Jones EBG (1989) Observations on ascospore morphology in marine fungi and their attachment to surface. Bot Mar 32:205-218
39. Hyde KD, Goh TK (2003) Adaptations for dispersal in filamentous freshwater fungi. Fungal Divers Res Ser 10:231-258
40. Hyde KD, Jones EBG, Moss ST (1986) How do fungal spores attach to surfaces? In: Barry S, Houghton DR, Llewellyn GC, O'Rear CE (eds) Biodeterioration 6. CAB International Mycological Institute and the Biodeterioration Society, London, pp 584-589
41. Hyde KD, Greenwood R, Jones EBG (1993) Spore attachment in marine fungi. Mycol Res 97:7-14
42. Hyde KD, Wong SW, Jones EBG (1998) Diluviocola capensis gen. and sp. nov., a freshwater ascomycete with unique polar caps onthe ascospores. Fungal Divers 1:133-146 (Pubitemid 128628474)
43. Hyde KD, Fröhlich J, Taylor JE (2000) Genera of ascomycetes from palms. Fungal Divers Res Ser 2:1-247
44. Ingold CT (1975) An illustrated guide to aquatic and water-borne Hyphomycetes (Fungi Imperfecti) with notes on their biology. Scientific, England
45. Johnson RG, Jones EBG, Moss ST (1984) Taxonomic studies of the Halosphaeriaceae: Remispora Linder, Marinospora Cavaliere and Carbosphaerella Schmidt. Bot Mar 27:557-566
46. Johnson RG, Jones EBG, Moss ST (1987) Taxonomic studies of the Halosphaeriaceae: Ceriosporopsis, Haligena and Appendichordella gen. nov. Can J Bot 65:931-942
47. Jones EBG (1962) Haligena spartinae sp. nov. A pyrenomycete on Spartina townsendii. Trans Br Mycol Soc 45:246-248
48. Jones EBG (1964) Nautosphaeria cristaminuta gen. et sp. nov., a marine pyrenomycete on submerged wood. Trans Br Mycol Soc 47:97-101
49. Jones EBG (1994) Fungal adhesion. Mycol Res 98:961-981 (Pubitemid 2127148)
50. Jones EBG (1995) Ultrastructure and taxonomy of the aquatic ascomycetous order Halosphaeriales. Can J Bot 73(Suppl 1): S790-S801
51. Jones EBG (2006) Form and function of fungal spore appendages. Mycoscience 47:167-183 (Pubitemid 44259068)
52. Jones EBG, Choeyklin R (2008) Ecology of marine and freshwater basidiomycetes. In: Boddy L, Frankland JC, van West P (eds) Ecology of Saprotrophic Basidiomycetes, British Mycological Society Symposia Series. Elsevier, London, pp 301-324
53. Jones EBG, Hyde KD (1992) Taxonomic studies on Savoryella Jones et Eaton (Ascomycotina). Bot Mar 35:83-91
54. Jones EBG, Moss ST (1978) Ascospore appendages of marine ascomycetes: an evaluation of appendages as taxonomic criteria. Mar Biol 49:11-26
55. Jones EBG, Moss ST (1980) Further observations on the taxonomy of Halosphaeriaceae. Bot Mar 23:483-500
56. Jones EBG, Moss ST (1987) Key and notes on genera of the Halosphaeriaceae examined at the ultrastructural level. Systema Ascomycetum 6:179-200
57. Jones EBG, Johnson RG, Moss ST (1983a) Ocostaspora apilongissima gen. et sp. nov. A new marine pyrenomycete from wood. Bot Mar 26:353-360
58. Jones EBG, Johnson RG, Moss ST (1983b) Taxonomic studies of the Halosphaeriaceae: Corollospora Werdermann. Bot J Linn Soc 87:193-212
59. Jones EBG, Johnson RG, Moss ST (1984) Taxonomic studies of the Halosphaeriaceae: Halosphaeria Linder. Bot Mar 27:129-143
60. Jones EBG, Johnson RG, Moss ST (1986) Taxonomic studies of the Halosphaeriaceae philosophy and rationale for the selection of characters in the delineation of genera. In: Moss ST (ed) The biology of marine fungi. Cambridge University Press, UK, pp 211-230
61. Jones EBG, Chatmala I, Pang KL (2006) Two new genera isolated from marine habitats in Thailand: Pseudolignincola and Thalespora (Halosphaeriales, Ascomycota). Nova Hedw 83:219-232 (Pubitemid 44049574)
62. Jones EBG, Sakayaroj J, Suetrong S, Somrithipol S, Pang KL (2009) Classification of marine Ascomycota, anamorphic taxa and Basidiomycota. Fungal Divers 35:1-203
63. Kirk PW (1976) Cytochemistry of marine fungal spores. In: Jones EBG (ed) Recent advances in aquatic mycology. Elek Science, London, pp 177-193
64. Kirk PW (1986) Evolutionary trends within the Halosphaeriaceae. In: Moss ST (ed) The biology of marine fungi. Cambridge University Press, UK, pp 263-274
65. Kirk PM, Cannon PF, Minter DW, Stalpers JA (2008) Ainsworth and Bisby's dictionary of the fungi, 9th edn. CABI, London
66. Koch J (1989) Remispora spinibarbata sp. nov., a marine lignicolous ascomycete from Denmark. Nord J Bot 8:517-520
67. Koch J, Pang KL, Jones EBG (2007) Rostrupiella danica gen. et sp. nov., a Lulworthia-like marine lignicolous species from Denmark and the USA. Bot Mar 50:1-8
68. Kohlmeyer J (1960) Wood-inhabiting marine fungi from the Pacific Northwest and California. Nova Hedw 2:293-343
69. Kohlmeyer J (1962) Halophile Pilze von den Ufern Frankreichs. Nova Hedw 4:389-420
70. Kohlmeyer J (1972) A revision of Halosphaeriaceae. Can J Bot 50:1951-1963
71. Kohlmeyer J (1975) New clues to the possible origin of Ascomycetes. BioScience 25:86-93
72. Kohlmeyer J (1981) Marine fungi from Martinique. Can J Bot 59:1314-1321
73. Kohlmeyer J (1986) Taxonomic studies of the marine Ascomycotina. In: Moss ST (ed) The biology of marine fungi. Cambridge University Press, UK, pp 199-210
74. Kohlmeyer J, Kohlmeyer E (1977) Bermuda marine fungi. Trans Br Mycol Soc 68:207-219
75. Kohlmeyer J, Kohlmeyer E (1979) Marine mycology. The higher fungi. Academic, New York
76. Kohlmeyer J, Volkmann-Kohlmeyer B (1998) Naufragella a new genus in the Halosphaeriaceae. Systema Ascomycetum 16:9-16
77. Kohlmeyer J, Volkmann-Kohlmeyer B (2002) Fungi on Juncus and Spartina: New marine species of Anthostomella, with a list of marine fungi known from Spartina. Mycol Res 106:365-374 (Pubitemid 34616923)
78. Kohlmeyer J, Spatafora J,Volkmann-Kohlmeyer B (2000) Lulworthiales, a new order of marine Ascomycota. Mycologia 92:453-458
79. Kong RYC, Chan JYC, Mitchell JI, Vrijmoed LLP, Jones EBG (2000) Relationships of Halosarpheia, Lignincola and Nais inferred from partial 18S rDNA. Mycol Res 104:336-343
80. Landvik S (1996) Neolecta, a fruit-body-producing genus of the basal ascomycetes, as shown by SSU and LSU rDNA sequences. Mycol Res 100:199-202
81. Liu YJ, Whelen S, Hall BD (1999) Phylogenetic relationships among Ascomycetes: evidence from an RNA polymerase II subunit. Mol Biol Evol 16:1799-1808
82. Lutzoni F, Kauff F, Cox CJ et al (2004) Assembling the fungal tree of life: progress, classification, and evolution of subcellular traits. Am J Bot 91:1446-1480 (Pubitemid 43193713)
83. Manimohan P, Jones EBG, Moss ST (1993a) Ultrastructural studies of ascospores of some Remispora species. Can J Bot 71:385-392
84. Manimohan P, Moss ST, Jones EBG (1993b) Ultrastructure of the ascospore wall and appendages of Remispora galerita. Mycol Res 97:1190-1192
85. McKeown TA, Moss ST, Jones EBG (1996) Ultrastructure of ascospores of Tunicatispora australiensis. Mycol Res 100:1247-1255
86. Meyers SP (1957) Taxonomy of marine pyrenomycetes. Mycologia 49:475-528
87. Moss ST (1979) Commensalism in the Trichomycetes. In: Batra LP (ed) Insect-fungus symbiosis. Allanheld, Osmum & Co. Montclair, New Jersey, pp 175-222
88. Moss ST, Jones EBG (1977) Ascospore appendages of marine Ascomycetes: Halosphaeria mediosetigera. Trans Br Mycol Soc 69:313-315
89. Mouzouras R, Jones EBG (1985) Monodictys pelagica, the anamorph of Nereiospora cristata (Halosphaeriaceae). Can J Bot 63:2444-2447
90. Müller E, von Arx JA (1962) Die Gattungen der didymosporen Pyrenomyceten. Beiträge. Kryptogamenflora Schweiz 11:1-922
91. Nag Raj TR (1993) Coelomycetous anamorphs with appendagesbearing conidia. Mycologue Waterloo.
92. Mycologue, Waterloo Nylander JAA (2004) MrModeltest v2. Program distributed by the author. Evolutionary Biology Centre, Uppsala University
93. O'Donnell K, Cigelnik E, Weber NS, Trappe JM (1997) Phylogenetic relationships among ascomycetous truffles and the true and false morels inferred from 18S and 28S ribosomal DNA sequence analysis. Mycologia 89:48-65 (Pubitemid 27165014)
94. Pang KL (2001) Molecular systematics and phylogenetic biogeography of the Halosphaeriales (Ascomycota), City University of Hong Kong, Hong Kong SAR, Ph.D. Dissertation
95. Pang KL (2002) Systematics of the Halosphaeriales: which morphological characters are important? In: Hyde KD (ed) Fungi in marine environments. Fungal Diversity Press, Hong Kong, pp 35-57
96. Pang KL, Jones EBG (2004) Reclassifications in Halosarpheia and related genera with unfurling ascospore appendages. Nova Hedw 78:269-271 (Pubitemid 41301717)
97. Pang KL, Vrijmoed LLP, Kong RYC, Jones EBG (2003) Lignincola and Nais, polyphyletic genera of the Halosphaeriales (Ascomycota). Mycol Prog 2:29-39
98. Pang KL, Jones EBG, Vrijmoed LLP, Vikineswary S (2004a) Okeanomyces, a new genus to accommodate Halosphaeria cucullata (Halosphaeriales, Ascomycota). Bot J Linn Soc 146:223-229 (Pubitemid 39384773)
99. Pang KL, Jones EBG, Vrijmoed LLP (2004b) Two new marine fungi from China and Singapore, with the description of a new genus, Sablecola. Can J Bot 82:485-490 (Pubitemid 38865767)
100. Pang KL, Chiang MWL, Vrijmoed LLP (2008a) Havispora longyearbyenensis gen. et sp. nov., an arctic marine fungus from Svalbard, Norway. Mycologia 100:291-295
101. Pang KL, Jones EBG, Vrijmoed LLP (2008b) Autecology of Antennospora (Ascomycota, Fungi) and its phylogeny. Raffles Bull Zool 19:1-10
102. Pang KL, Chiang MWL, Vrijmoed LLP (2009) Remispora spitsbergenensis sp. nov., a marine lignicolous ascomycete from Svalbard, Norway. Mycologia 101:531-534
103. Porter D (1982) The appendaged ascospores of Trichomaris invadens (Halosphaeriaceae), a marine ascomycetous parasite of the tanner crab, Chinocetes bairdi. Mycologia 74:363-375
104. Sachs J (1874) Lehrbuch der Botanik, 4th edn. Engelmann, Leipzig
105. Sakayaroj J (2005) Phylogenetic relationships of marine Ascomycota. Prince of Songkla University, Thailand, Ph.D. Dissertation
106. Sakayaroj J, Jones EBG, Chatmala I, Phongpaichit S (2004) Thai marine fungi. In: Jones EBG, Tantichareon M, Hyde KD (eds) Thai fungal diversity. BIOTEC, Thailand, pp 107-117
107. Sakayaroj J, Pang KL, Phongpaichit S, Jones EBG (2005a) A phylogenetic study of the genus Haligena (Halosphaeriales, Ascomycota). Mycologia 97:804-811 (Pubitemid 43175659)
108. Sakayaroj J, Pang KL, Jones EBG, Vrijmoed LLP, Abdel-Wahab MA (2005b) A systematic reassessment of marine ascomycetes Swampomyces and Torpedospora. Bot Mar 48:395-406 (Pubitemid 41809705)
109. Samuels GL, Blackwell M (2001) Pyrenomycetes-fungi with perithecia. In: McLaughlin DJ, McLaughlin EG, Lemke PA (eds) The mycota VII part a systematics and evolution. Springer-Verlag, Berlin, pp 221-255
110. Schoch CL, Sung G-H, Volkmann-Kohlmeyer B, Kohlmeyer J, Spatafora JW (2007) Marine fungal lineages in the Hypocreomycetidae. Mycol Res 110:257-263
111. Shearer CA (1989) Aniptodera (Halosphaeriaceae) from wood in freshwater habitats. Mycologia 81:139-146
112. Shearer CA (1993) The freshwater Ascomycetes. Nova Hedw 56:1-33
113. Shearer CA, Crane JL (1977) Fungi of the Chesapeake Bay and its tributaries. VI. Trichocladium achrasporum, the imperfect state of Halosphaeriopsis mediosetigera. Mycologia 69:1218-1223
114. Spatafora JW, Volkmann-Kohlmeyer B, Kohlmeyer J (1998) Independent terrestrial origins of the Halosphaeriales (marine Ascomycota). Am J Bot 85:1569-1580
115. Suetrong S, Sakayaroj J, Phongpaichit S, Jones EBG (2009a) Morphological and molecular characteristics of a poorly known marine ascomycete Manglicola guatemalensis (Jahnulales, Pezizomycetideae, Dothideomycetes Incertae sedis) A new lineage of marine ascomycetes. Mycologia 102:83-92
116. Suetrong S, Schoch CL, Spatafora JW, Kohlmeyer J, Volkmann- Kohlmeyer B, Sakayaroj J, Phongpaichit S, Tanaka K, Hirayama K, Jones EBG (2009b) Molecular systematics of the marine Dothideomycetes. Stud Mycol 64:155-173
117. Swofford DL (2002) PAUP: Phylogenetic Analysis Using Parsimony, version 4.0b10. Sinauer Associates, Sunderland, Massachusetts
118. Tang AMC, Jeewon R, Hyde KD (2007) Phylogenetic utility of protein (RPB2, β-tubulin) and ribosomal (LSU, SSU) gene sequences in the systematics of Sordariomycetes (Ascomycota, Fungi). Anton Leeuw Int J G 91:327-349 (Pubitemid 46681586)
119. Taylor JW, Jacobson DJ, Kroken S, Kasuga T, Geiser DM, Hibbett DS, Fisher MC (2000) Phylogenetic species recognition and species concepts in fungi. Fungal Genet Biol 31:21-32 (Pubitemid 32066164)
120. Thompson JD, Higgins DG, Gibson TJ (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22:4673-4680 (Pubitemid 24354800)
121. 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 JS, White TJ (eds) PCR Protocol: A guide to methods and applications. Academic, San Diego, pp 315-322
122. Wong SW, Hyde KD, Jones EBG (1998a) Annulatascaceae, a new ascomycete family from the tropics. Systema Ascomycetum 16:17-25
123. Wong SW, Hyde KD, Jones EBG (1998b) Ascospore ultrastructure of Halosarpheia heteroguttulata sp. nov. from tropical streams. Can J Bot 76:1857-1862 (Pubitemid 29266801)
124. Yusoff M, Koch J, Jones EBG, Moss ST (1993) Ultrastructure observations in a marine lignicolous ascomycete Bovicornua intricata gen. et sp. nov. Can J Bot 71:346-352
125. Yusoff M, Jones EBG, Moss ST (1994) A taxonomic reappraisal of the genus Ceriosporopsis based on ultrastructure. Can J Bot 72:1550-1559
126. Zhang N, Castlebury LA, Miller AN, Huhndorf S, Schoch CL, Seifert K, Rossman AY, Rogers JD, Kohlmeyer J, Volkmann-Kohlmeyer B, Sung S-H (2006) Sordariomycetes systematics: an overview of the systematics of the Sordariomycetes based on a four-gene phylogeny. Mycologia 98:1076-1087 (Pubitemid 46683228)