Towards a natural classification and backbone tree for Pleosporaceae
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- 作者：Hiran A. Ariyawansa (1) (2) (3) (4) (5)
Kasun M. Thambugala (4) (5)
Dimuthu S. Manamgoda (4) (5)
Ruvishika Jayawardena (4) (5)
Erio Camporesi (4) (5) (6)
Saranyaphat Boonmee (4) (5)
Dhanushka N. Wanasinghe (4) (5)
R. Phookamsak (4) (5)
Singang Hongsanan (4) (5)
Chonticha Singtripop (4) (5)
Ekachai Chukeatirote (4) (5)
Ji-Chuan Kang (3)
E. B. Gareth Jones (7)
Kevin D. Hyde (1) (2) (4) (5)
1. Key Laboratory for Plant Diversity and Biogeography of East Asia ; Kunming Institute of Botany ; Chinese Academy of Sciences ; Kunming ; 650201 ; People鈥檚 Republic of China
2. World Agroforestry Centre ; East Asia and Central ; Heilongtan ; Kunming ; 650201 ; People鈥檚 Republic of China
3. The Engineering and Research Center for Southwest Bio-Pharmaceutical Resources of National Education Ministry of China ; Guizhou University ; Guiyang ; 550025 ; Guizhou Province ; China
4. School of Science ; Mae Fah Luang University ; Chiang Rai ; 57100 ; Thailand
5. Institute of Excellence in Fungal Research ; Mae Fah Luang University ; Chiang Rai ; 57100 ; Thailand
6. A.M.B. Gruppo Micologico Forlivese 鈥淎ntonio Cicognani鈥? Via Roma 18 ; Forl矛 ; Italy
7. Department of Botany and Microbiology ; King Saudi University ; Riyadh ; Saudi Arabia - 关键词：Backbone tree ; Dothideomycetes ; Pleosporales ; Plant pathogens ; Saprobes
- 刊名：Fungal Diversity
- 出版年：2015
- 出版时间：March 2015
- 年：2015
- 卷：71
- 期：1
- 页码：85-139
- 全文大小：26,709 KB
- 参考文献：1. Abler R (2003) Global change and local places: estimating, understanding, and reducing greenhouse gases
2. Agrios, GN (2005) Plant pathology. California Academic Press, Elsevier San Diego
3. Alves, A, Correia, A, Phillips, AJL (2006) Multi-gene genealogies and morphological data support Diplodia cupressi sp. nov., previously recognized as D. pinea f. sp. cupressi, as a distinct species. Fungal Divers 23: pp. 1-15
4. Amaradasa, BS, Madrid, H, Groenewald, JZ, Crous, PW, Amundsen, K (2014) Porocercospora seminalis gen. et comb. nov., the causal organism of buffalograss false smut. Mycologia 106: pp. 77-85
5. Ariyawansa, HA, Jones, EBG, Suetrong, S, Alias, SA, Kang, JC, Hyde, KD (2013) Halojulellaceae a new family of the order Pleosporales. Phytotaxa 130: pp. 14-24
6. Ariyawansa, HA, Kang, JC, Alias, SA, Chukeatirote, E, Hyde, KD (2013) Towards a natural classification of Dothideomycetes 1: the genera Dermatodothella, Dothideopsella, Grandigallia, Hysteropeltella and Gloeodiscus (Dothideomycetes incertae sedis). Phytotaxa 147: pp. 35-47
7. Ariyawansa, HA, Maharachchikumbura, SSN, Karunarathne, SC, Chukeatirote, E, Bahkali, AH, Kang, JC, Bhat, JD, Hyde, KD (2013) Deniquelata barringtoniae from Barringtonia asiatica, associated with leaf spots of Barringtonia asiatica. Phytotaxa 105: pp. 11-20
8. Ariyawansa, H, Phookamsak, R, Tibpromma, S, Kang, JC, Hyde, KD (2014) A molecular and morphological reassessment of Diademaceae. Sci World J 2014: pp. 1-11
9. Ariyawansa, HA, Camporesi, E, Thambugala, KM, Mapook, A, Kang, JC, Alias, SA, Chukeatirote, E, Thines, M, Mckenzie, EHC, Hyde, KD (2014) Confusion surrounding Didymosphaeria 鈥?phylogenetic and morphological evidence suggest Didymosphaeriaceae is not a distinct family. Phytotaxa 176: pp. 102-119
10. Ariyawansa, HA, Hawksworth, DL, Hyde, KD, Jones, EBG, Maharachchikumbura, SSN, Manamgoda, DS, Thambugala, KM, Udayanga, D, Camporesi, E, Daranagama, A, Jayawardena, R, Liu, JK, McKenzie, EHC, Phookamsak, R, Senanayake, IC, Shivas, RG, Tian, Q, Xu, JC (2014) Epitypification and neotypification: guidelines with appropriate and inappropriate examples. Fungal Divers 69: pp. 57-91
11. Ariyawansa, HA, Kang, JC, Alias, SA, Chukeatirote, E, Hyde, KD (2014) Pyrenophora. Mycosphere 5: pp. 351-362
12. Ariyawansa, HA, Tanaka, K, Thambugala, KM, Phookamsak, R, Tian, Q, Camporesi, E, Hongsanan, S, Monkai, J, Wanasinghe, DN, Chukeatirote, E, Kang, JC, Xu, JC, McKenzie, EHC, Jones, EBG, Hyde, KD (2014) A molecular phylogenetic reappraisal of the Didymosphaeriaceae (= Montagnulaceae). Fungal Divers 68: pp. 69-104
13. Ariyawansa, HA, Thambugala, KM, Kang, JC, Alias, SA, Chukeatirote, E, Hyde, KD (2014) Towards a natural classification of Dothideomycetes 2: The genera Cucurbidothis, Heterosphaeriopsis, Hyalosphaera, Navicella and Pleiostomellina (Dothideomycetes incertae sedis). Phytotaxa 176: pp. 7-17
14. Barr, ME (1972) Preliminary studies on the Dothideales in temperate North America. Contrib Univ Mich Herb 9: pp. 523-638
15. Barr, ME (1975) A note on Extrawettsteinina. Mycotaxon 2: pp. 104-106
16. Barr, ME (1981) The genus Curreya: an example of taxonomic confusion in the Ascomycetes. Mycologia 73: pp. 599-609
17. Barr, ME (1987) New taxa and combinations in the Loculoascomycetes. Mycotaxon 29: pp. 501-505
18. Barr, ME (1987) Prodromus to class loculoascomycetes. Amherst. University of Massachusetts, Massachusetts
19. Barr, ME (1990) Some dictyosporous genera and species of Pleosporales in North America. Mem N Y Bot Gard 62: pp. 1-92
20. Batista, AC, Costa, CA, Peres, GEP, Leal, FB (1959) Novos e antigos fungos Microthyriaceae. Anais Soc Biol Pernambuco 16: pp. 129-140
21. Berbee, ML (1996) Loculoascomycete origins and evolution of filamentous ascomycete morphology based on 18S rRNA gene sequence data. Mol Biol Evol 13: pp. 462-470
22. Berbee, ML, Pirseyedi, M, Hubbard, S (1999) Cochliobolus phylogenetics and the origin of known, highly virulent pathogens, inferred from ITS and glyceraldehyde-3-phosphate dehydrogenase gene sequences. Mycologia 91: pp. 964-977
23. Boedijn, KB (1933) Uebr Einige Phragmosporen Dematiazeen. Bull Jard Bot Buitenz 13: pp. 123
24. Boonmee, S, Rossman, AY, Lui, JK, LiWJ, DDQ, Bhat, JD, Jones, EBG, McKenzie, EHC, Xu, JC, Hyde, KD (2014) Tubeufiales, ord. nov. integrating sexual and asexual generic names. Fungal Divers 68: pp. 239-298
25. Cai, L, Wu, WP, Hyde, KD (2009) Phylogenetic relationships of Chalara and allied species inferred from ribosomal DNA sequences. Mycol Prog 8: pp. 133-143
26. Carbone, I, Kohn, LM (1999) A method for designing primer sets for speciation studies in filamentous ascomycetes. Mycologia 91: pp. 553-556
27. Carter, E, Boudreaux, C (2004) Fatal cerebral phaeohyphomycosis due to Curvularia lunata in an immunocompetent patient. J Clin Microbiol 42: pp. 5419-5423
28. Chomnunti, P, Hongsanan, S, Aguirre-Hudson, B, Tian, Q, Per拧oh, D, Dhami, MK, Alis, AS, Xu, J, Liu, X, Stadler, M, Hyde, KD (2014) The sooty moulds. Fungal Divers 66: pp. 1-36
29. Clements FE (1909) The genera of fungi. The HW Wilson Company
30. Crous, PW, Slippers, B, Wingfield, MJ, Rheeder, J, Marasas, WFO (2006) Phylogenetic lineages in the Botryosphaeriaceae. Stud Mycol 55: pp. 235-253
31. Crous, PW, Shivas, RG, Quaedvlieg, W, Bank, M, Zhang, Y, Summerell, BA, Tan, YP (2014) Fungal Planet description sheets: 214鈥?80. Persoonia 32: pp. 184
32. Gruyter, J, Woudenberg, JHC, Aveskamp, MM, Verkley, GJM, Groenewald, JZ, Crous, PW (2013) Redisposition of phoma-like anamorphs in pleosporales. Stud Mycol 75: pp. 1-36
33. Desmazi猫res, JBHJ (1851) Dix-neuvi猫me notice sur les plantes cryptogames r茅cemment d茅couvertes en France. Ann Sci Nat Botanique 16: pp. 296-330
34. Dettman, JR, Jacobson, DJ, Turner, E, Pringle, A, Taylor, JW (2003) Reproductive isolation and phylogenetic divergence in Neurospora: comparing methods of species recognition in a model eukaryote. Evolution 57: pp. 2721-2741
35. Dong, JW, Chen, WD, Crane, JL (1998) Phylogenetic studies of the Leptosphaeriaceae, Pleosporaceae and some other Loculoascomycetes based on nuclear ribosomal DNA sequences. Mycol Res 102: pp. 151-156
36. Drechsler, C (1934) Phytopathological and taxonomical aspects of Ophilobolus, Pyrenophora, Helminthosporium and a new genus Cochliobolus. Phytopathology 24: pp. 953-981
37. Ellis, MB (1971) Dematiaceous hyphomycetes. CMI, Kew
38. Eriksson, OE (1981) The families of bitunicate ascomycetes. Opera Bot 60: pp. 1-220
39. Eriksson, OE (2006) Outline of ascomycota 鈥?2006. Myconet 12: pp. 1-82
40. Eriksson, OE, Hawksworth, DL (1986) An alphabetical list of the generic names of ascomycetes 鈥?1986. Syst Ascomyc 5: pp. 3-111
41. Eriksson OE, Hawksworth DL (1991) Outline of the ascomycetes 鈥?1990. Syst Ascomyc Reprint of Volumes 1鈥? (1982鈥?985) 9: 39鈥?71
42. Eriksson, OE, Hawksworth, DL (1998) Outline of the ascomycetes 鈭?998. Syst Ascomyc 16: pp. 83-296
43. Farr, DF, Bills, GF, Chamuris, GP, Rossman, AY (1989) Fungi on plants and plant products in the United States. APS Press, St. Paul
44. Goh, KT, Hyde, KD, Lee, KLD (1998) Generic distinction in Helminthosporium complex based on restriction analysis of the nuclear ribosomal RNA gene. Fungal Divers 1: pp. 85-107
45. Hibbett, DS, Binder, M, Bischoff, JF, Blackwell, M, Cannon, PF, Eriksson, OE, Huhndorf, S, James, T, Kirk, PM, Lucking, R, Lumbsch, HT, Lutzoni, F, Matheny, PB, Mclaughlin, DJ, Powell, MJ, Redhead, S, Schoch, CL, Spatafora, JW, Stalpers, JA, Vilgalys, R, Aime, MC, Aptroot, A, Bauer, R, Begerow, D, Benny, GL, Castlebury, LA, Crous, PW, Dai, YC, Gams, W, Geiser, DM, Griffith, GW, Gueidan, C, Hawksworth, DL, Hestmark, G, Hosaka, K, Humber, RA, Hyde, KD, Ironside, JE, Koljalg, U, Kurtzman, CP, Larsson, KH, Lichtwardt, R, Longcore, J, Miadlikowska, J, Miller, A, Moncalvo, JM, Mozley- Standridge, S, Oberwinkler, F, Parmasto, E, Reeb, V, Rogers, JD, Roux, C, Ryvarden, L, Sampaio, JP, Schussler, A, Sugiyama, J, Thorn, RG, Tibell, L, Untereiner, WA, Walker, C, Wang, Z, Weir, A, Weiss, M, White, MM, Winka, K, Yao, YJ, Zhang, N (2007) A higher-level phylogenetic classification of the fungi. Mycol Res 111: pp. 509-547
46. Huelsenbeck, JP, Ronquist, F (2001) MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17: pp. 754-755
47. Hyde, KD, Jones, EBG, Liu, JK, Ariyawansa, H, Boehm, E, Boonmee, S, Braun, U, Chomnunti, P, Crous, PW, Dai, DQ, Diederich, P, Dissanayake, A, Doilom, M, Doveri, F, Hongsanan, S, Jayawardena, R, Lawrey, JD, Li, YM, Liu, YX, L眉cking, R, Monkai, J, Muggia, L, Nelsen, MP, Pang, KL, Phookamsak, R, Senanayake, IC, Shearer, CA, Suetrong, S, Tanaka, K, Thambugala, KM, Wijayawardene, NN, Wikee, S, Wu, HX, Zhang, Y, Aguirre-Hudson, B, Alias, SA, Aptroot, A, Bahkali, AH, Bezerra, JL, Bhat, DJ, Camporesi, E, Chukeatirote, E, Gueidan, C, Hawksworth, DL, Hirayama, K, Hoog, SD, Kang, JC, Knudsen, K, Li, WJ, Li, XH, Liu, ZY, Mapook, A, McKenzie, EHC, Miller, AN, Mortimer, PE, Phillips, AJL, Raja, HA, Scheuer, C, Schumm, F, Taylor, JE, Tian, Q, Tibpromma, S, Wanasinghe, DN, Wang, Y, Xu, JC, Yacharoen, S, Yan, JY, Zhang, M (2013) Families of dothideomycetes. Fungal Divers 63: pp. 1-313
48. Hyde, KD, Nilsson, RH, Alias, SA, Ariyawansa, HA, Blair, JE, Cai, L, Cock, AWAM, Dissanayake, AJ, Glockling, SL, Goonasekara, ID, Gorczak, M, Hahn, M, Jayawardena, RS, Kan, JAL, Laurence, MH, L茅vesque, CA, Li, X, Liu, JK, Maharachchikumbura, SSN, Manamgoda, DS, Martin, FN, McKenzie, EHC, McTaggart, AR, Mortimer, PE, Nair, PVR, Paw艂owska, J, Rintoul, TL, Shivas, RG, Spies, CFJ, Summerell, BA, Taylor, PWJ, Terhem, RB, Udayanga, D, Vaghefi, N, Walther, G, Wilk, M, Wrzosek, M, Xu, JC, Yan, JY, Zhou, N (2014) One stop shop: backbones trees for important phytopathogenic 5 genera: I (2014). Fungal Divers 67: pp. 21-125
49. Inderbitzin, P, Kohlmeyer, J, Volkmann-Kohlmeyer, B, Berbee, ML (2002) Decorospora, a new genus for the marine ascomycete Pleospora gaudefroyi. Mycologia 94: pp. 651-659
50. Inderbitzin, P, Shoemaker, RA, O鈥橬eill, NR, Turgeon, BG, Berbee, ML (2006) Systematics and mating systems of two fungal pathogens of opium poppy: the heterothallic Crivellia papaveracea and a homothallic species with a Brachycladium papaveris asexual state. Can J Bot 84: pp. 1304-1326
51. Index Fungorum (2015) http://www.indexfungorum.org
52. Jones, EB, Stanley, SJ, Pinruan, U (2008) Marine endophyte sources of new chemical natural products: a review. Bot Mar 51: pp. 163-170
53. Khan, JA, Hussain, ST, Hasan, S, McEvoy, P, Sarwari, A (2000) Disseminated bipolaris infection in an immunocompetent host: an atypical presentation. J Pak Med Assoc 50: pp. 68-71
54. Kirk, PM, Cannon, PF, David, JC, Stalpers, JA (2001) Dictionary of the fungi 9th edn. CABI, Wallingford
55. Kodsueb, R, Dhanasekaran, V, Aptroot, A, Lumyong, S, McKenzie, EHC, Hyde, KD, Jeewon, R (2006) The family Pleosporaceae: intergeneric relationships and phylogenetic perspectives based on sequence analyses of partial 28S rDNA. Mycologia 98: pp. 571-583
56. Lawrence, DP, Park, MS, Pryor, BM (2012) Nimbya and Embellisia revisited, with nov. comb for Alternaria celosiae and A. perpunctulata. Mycol Prog 11: pp. 799-815
57. Lawrence, DP, Gannibal, PB, Peever, TL, Pryor, BM (2013) The sections of Alternaria: formalizing species-groups concepts. Mycologia 105: pp. 530-546
58. Leakey, CLA (1964) Dactuliophora, a new genus of mycelia sterilia from tropical Africa. Trans Br Mycol Soc 47: pp. 341-IN10
59. Leonard KJ, Suggs EG (1974) / Setosphaeria prolata, the ascigerous state of / Exserohilum prolatum. Mycologia 281鈥?97
60. Leuchtmann, A (1984) 脺ber Phaeosphaeria Miyake und andere bitunicate Ascomyceten mit mehrfach querseptierten Ascosporen. Sydowia 37: pp. 75-194
61. Liu, YJ, Whelen, S, Hall, BD (1999) Phylogenetic relationships among ascomycetes: evidence from an RNA polymerse II subunit. Mol Biol Evol 16: pp. 1799-1808
62. Liu, JK, Phookamsak, R, Mingkhuan, M, Wikee, S, Li, YM (2012) Towards a natural classification of Botryosphaeriales. Fungal Divers 57: pp. 149-210
63. Lumbsch HT, Huhndorf SM (eds.) (2007) Outline of ascomycota 鈭?007. Myconet 13:1鈥?8
64. Lumbsch, HT, Huhndorf, SM (2010) Outline of ascomycota 鈥?2009. Fieldiana Life Earth Sci 1: pp. 1-60
65. Luttrell, ES (1951) Taxonomy of the pyrenomycetes. Univ Mo Stud 24: pp. 1-120
66. Luttrell, ES (1955) The ascostromatci ascomycetes. Mycologia 47: pp. 511-532
67. Luttrell, ES Loculoascomycetes. In: Ainsworth, GC, Sparrow, FK, Sussman, AS eds. (1973) The fungi, an advanced treatise, a taxonomic review with keys: ascomycetes and fungi imperfecti. Academic, New York
68. Malathrakis NE (1979) A study of an olive tree disease caused by the fungus Phoma incompta Sacc. et Mart. Dissertation, Agricultural College of Athens
69. Manamgoda, DS, Cai, L, Bahkali, AH, Chukeatirote, E, Hyde, KD (2011) Cochliobolus: an overview and current status of species. Fungal Divers 51: pp. 3-42
70. Manamgoda, DS, Cai, L, McKenzie, EHC, Crous, PW, Madrid, H, Chukeatirote, E (2012) A phylogenetic and taxonomic re-evaluation of the Bipolaris-Cochliobolus-Curvularia complex. Fungal Divers 56: pp. 131-144
71. Manamgoda, DS, Rossman, AY, Castlebury, LA, Crous, PW, Madrid, H, Chukeatirote, E, Hyde, KD (2014) The genus bipolaris. Stud in mycol.
72. Morin, L, Shivas, RG, Piper, MC, Tan, YP (2010) Austropleospora osteospermi gen. et sp. nov. and its host specificity and distribution on Chrysanthemoides monilifera ssp. rotundata in Australia. Fungal Divers 40: pp. 65-74
73. Nilsson, RH, Hyde, KD, Paw艂owska, J, Ryberg, M (2014) Improving ITS sequence data for identification of plant pathogenic fungi. Fungal Divers 67: pp. 11-19
74. Nitschke TRJ (1869) Grundlage eines Systems der Pyrenomyceten Verh Naturhist Vereines Preuss Rheinl 26:70鈥?7
75. Nylander JAA (2004) MrModeltest 2.0. Program distributed by the author. Evolutionary Biology Centre, Uppsala University
76. Page, RD (1996) TreeView: an application to display phylogenetic trees on personal computers. Comput Appl Biosci 12: pp. 357-358
77. Petrak, F (1952) Ergebnisse einer Revision der Grundtypen verschiedener Gattungen der Askomyzeten und Fungi Imperfecti. Sydowia 6: pp. 336-343
78. Phillips, AJL, Alves, A, Pennycook, SR, Johnston, PR, Ramaley, A (2008) Resolving the phylogenetic and taxonomic status of dark-spored teleomorph genera in the Botryosphaeriaceae. Persoonia 21: pp. 29-55
79. Phookamsak R, Liu JK, McKenzie EH, Manamgoda DS, Ariyawansa H, Thambugala KM et al (2014) Revision of / Phaeosphaeriaceae. Fungal Divers 68(1):159鈥?38.
80. Pryor, BM, Bigelow, DM (2003) Molecular characterization of Embellisia and Nimbya species and their relationship to Alternaria, Ulocladium and Stemphylium. Mycologia 95: pp. 1141-1154
81. Pryor, BM, Creamer, R, Shoemaker, RA, McLain-Romero, J, Hambleton, S (2009) Undifilum, a new genus for endophytic Embellisia oxytropis and parasitic Helminthosporium bornmuelleri on legumes. Botany 87: pp. 178-194
82. Ramaley, AW, Barr, ME (1995) New dictyosporous species from leaves of Agavaceae. Mycotaxon 54: pp. 75-90
83. Rambaut A, Drummond A (2008) FigTree: Tree figure drawing tool, version 1.2. 2. Institute of Evolutionary Biology, University of Edinburgh
84. Rannala, B, Yang, Z (1996) Probability distribution of molecular evolutionary trees: a new method of phylogenetic inference. J Mol Evol 43: pp. 304-311
85. Runa, F, Park, M, Pryor, B (2009) Ulocladium systematics revisited: phylogeny and taxonomic status. Mycol Prog 8: pp. 35-47
86. Schoch, CL, Crous, PW, Groenewald, JZ, Boehm, EWA, Burgess, TI, Gruyter, J, Hoog, GS, Dixon, LJ, Grube, M, Gueidan, C, Harada, Y, Hatakeyama, S, Hirayama, K, Hosoya, T, Huhndorf, SM, Hyde, KD, Jones, EBG, Kohlmeyer, J, Kruys, 脜, Li, YM, L眉cking, R, Lumbsch, HT, Marvanov谩, L, Mbatchou, JS, McVay, AH, Miller, AN, Mugambi, GK, Muggia, L, Nelsen, MP, Nelson, P, Owensby, CA, Phillips, AJL, Phongpaichit, S, Pointing, SB, Pujade-Renaud, V, Raja, HA, Rivas Plata, E, Robbertse, B, Ruibal, C, Sakayaroj, J, Sano, T, Selbmann, L, Shearer, CA, Shirouzu, T, Slippers, B, Suetrong, S, Tanaka, K, Volkmann-Kohlmeyer, B, Wingfield, MJ, Wood, AR, Woudenberg, JHC, Yonezawa, H, Zhang, Y, Spatafora, JW (2009) A class鈥搘ide phylogenetic assessment of dothideomycetes. Stud Mycol 64: pp. 1-15
87. Schoch CL, Robbertse B, Robert V, Vu D, Cardinali G, Irinyi L, Meyer W, Nilsson RH, Hughes K, Miller AN, Kirk PM, Abarenkov K, Aime MC, Ariyawansa HA, Bidartondo M, Boekhout T, Buyck B, Cai Q, Chen J, Crespo A, Crous PW, Damm U, De Beer ZW, Dentinger BTM, Divakar PK, Due帽as M, Feau N, Fliegerova K, Garc铆a MA, Ge Z-W, Griffith GW, Groenewald JZ, Groenewald M, Grube M, Gryzenhout M, Gueidan C, Guo L, Hambleton S, Hamelin R, Hansen K, Hofstetter V, Hong S-B, Houbraken J, Hyde KD, Inderbitzin P, Johnston PR, Karunarathna SC, K玫ljalg U, Kov谩cs GM, Kraichak E, Krizsan K, Kurtzman CP, Larsson K-H, Leavitt S, Letcher PM, Liimatainen K, Liu J-K, Lodge DJ, Luangsa-ard JJ, Lumbsch HT, Maharachchikumbura SSN, Manamgoda D, Mart铆n MP, Minnis AM, Moncalvo J-M, Mul猫 G, Nakasone KK, Niskanen T, Olariaga I, Papp T, Petkovits T, Pino-Bodas R, Powell MJ, Raja HA, Redecker D, Sarmiento-Ramirez JM, Seifert KA, Shrestha B, Stenroos S, Stielow B, Suh S-O, Tanaka K, Tedersoo L, Telleria MT, Udayanga D, Untereiner WA, Uribeondo JD, Subbarao KV, V谩gv枚lgyi C, Visagie C, Voigt K, Walker DM, Weir BS, Wei脽 M, Wijayawardene NN, Wingfield MJ, Xu JP, Yang ZL, Zhang N, Zhuang W-Y, Federhen S (2014) Finding needles in haystacks: linking scientific names, reference specimens and molecular data for Fungi. Database 2014: bau061
88. Seifert KA, Morgan-Jones G, Gams W, Kendrick WB (2011) The genera of hyphomycetes. CBS Biodiversity Series no. 9. Utrecht, CBS-KNAW Fungal Biodiversity Centre
89. Shimizu, K, Tanaka, C, Peng, YL, Tsuda, M (1998) Phylogeny of Bipolaris inferred from nucleotide sequences of Brn1, a reductase gene involved in melanin biosynthesis. J Gen Appl Microbiol 44: pp. 251-25
90. Shoemaker, RA (1959) Nomenclature of Drechslera and Bipolaris, grass parasites segregated from Helminthosporium. Can J Bot 37: pp. 879-887
91. Shoemaker, RA (1998) Marielliottia, a new genus of cereal and grass parasites segregated from Drechslera. Can J Bot 76: pp. 1558-1569
92. Shoemaker, RA, Babcock, CE (1992) Applanodictyosporous Pleosporales: Clathrospora, Comoclathris, Graphyllium, Macrospora, and Platysporoides. Can J Bot 70: pp. 1617-1658
93. Siboe, GM, Kirk, PM, Cannon, PF (1999) New dematiaceous hyphomycetes from Kenyan rare plants. Mycotaxon 73: pp. 283-302
94. Simmons, EG (1986) Gibbago, a new phaeodictyoconidial genus of hyphomycetes. Mycotaxon 27: pp. 107-111
95. Sivanesan, A (1984) The bitunicate ascomycetes and their anamorphs. J. Cramer, Vaduz
96. Sivanesan, A (1987) Graminicolous species of Bipolaris, Curvularia, Drechslera, Exserohilum and their teleomorphs. Mycol Pap 158: pp. 1-261
97. Stamatakis, A (2006) RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22: pp. 2688-269
98. Stamatakis, A, Hoover, P, Rougemont, J (2008) A rapid bootstrap algorithm for the RAxML web servers. Syst Biol 57: pp. 758-777
99. Stielow, B, Bubner, B, Hensel, G, Munzenberger, B, Hoffmann, P (2010) The neglected hypogeous fungus Hydnotrya bailii Soehner (1959) is a widespread sister taxon of Hydnotrya tulasnei (Berk.) Berk. and Broome (1846). Mycol Prog 9: pp. 195-203
100. Suetrong, S, Schoch, CL, Spatafora, JW, Kohlmeyer, J, Volkmann- Kohlmeyer, B, Sakayaroj, J, Phongpaichit, S, Tanaka, K, Hirayama, K, Jones, EBG (2009) Molecular systematics of the marine dothideomycetes. Stud Mycol 64: pp. 155-173
101. Sung, G-H, Sung, J-M, Hywel-Jones, NL, Spatafora, JW (2007) A multi-gene phylogeny of Clavicipitaceae (Ascomycota, Fungi): identification of localized incongruence using a combinational bootstrap approach. Mol Phylogenet Evol 44: pp. 1204-1223
102. Tamura, K, Peterson, D, Peterson, N, Stecher, G, Nei, M, Kumar, S (2011) MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28: pp. 2731-2739
103. Tan YP, Madrid H, Crous PW, Shivas RG (2014) / Johnalcornia gen. et. comb. nov., and nine new combinations in / Curvularia based on molecular phylogenetic analysis. Australas Plant Path 1鈥?5
104. Taylor, JW, Jacobson, DJ, Kroken, S, Kasuga, T, Geiser, DM (2000) Phylogenetic species recognition and species concepts in fungi. Fungal Genet Biol 31: pp. 21-32
105. Telle, S, Thines, M (2008) Amplification of cox2 (620 bp) from 2 mg of up to 129 years old herbarium specimens, comparing 19 extraction methods and 15 polymerases. PLoS One 3: pp. e3584
106. Thambugala, KM, Ariyawansa, HA, Li, YM, Boonmee, S, Hongsanan, S, Tian, Q, Singtripop, C, Bhat, DJ, Camporesi, E, Jayawardena, R, Liu, ZY, Chukeatirote, E, Hyde, KD (2014) Dothideales. Fungal Divers 68: pp. 105-158
107. Thambugala, KM, Singtripop, C, Chunfang, Y, Mckenzie, EH, Liu, ZY, Chukeatirote, E, Hyde, KD (2014) Towards a natural classification of Dothideomycetes 7: the genera Allosoma, Austropleospora, Dangeardiella, Griggsia and Karschia (Dothideomycetes incertae sedis). Phytotaxa 181: pp. 34-46
108. Theissen, F, Sydow, H (1918) Vorentw?rfe zu den Pseudosphaeriales. Ann Mycol 16: pp. 1-34
109. Udayanga, D, Castlebury, LA, Rossman, AY, Chukeatirote, E, Hyde, KD (2014) Insights into the genus Diaporthe: phylogenetic species delimitation in the D. eres species complex. Fungal Divers 67: pp. 203-229
110. Uilenberg, G, Thiaucourt, F, Jongejan, F (2004) On molecular taxonomy: what is in a name?. Exp Appl Acarol 32: pp. 301-312
111. Vassiljeva, LN (1983) De Buergenerula thalictri (Wint.) E. M眉ller. Nov Sist Nizsh Rast 20: pp. 70-72
112. Verkley, GJM, Dukik, K, Renfurm, R, G枚ker, M, Stielow, JB (2014) Novel genera and species of coniothyrium-like fungi in Montagnulaceae (Ascomycota). Persoonia 32: pp. 25-51
113. Arx, JA, M眉ller, E (1975) A re-evaluation of the bitunicate ascomycetes with keys to families and genera. Stud Mycol 9: pp. 1-159
114. Arx, JA, Aa, HA (1983) Notes on Curreya (Ascomycetes, Dothideales). Sydowia 36: pp. 1-5
115. H枚hnel, F (1918) Dritte vorl盲ufige Mitteilung mycologischer Ergebnisse (nr. 201鈥?04). Ber Deut Bot Ges 36: pp. 309-317
116. Wang, Y, Geng, Y, Ma, J, Wang, Q, Zhang, X-G (2011) Sinomyces: a new genus of anamorphic Pleosporaceae. Fungal Biol 115: pp. 188-195
117. Wehmeyer, LE (1961) A world monograph of the genus pleospora and its segregates. University of Michigan Press, Michigan
118. Wehmeyer LE (1975) The pyrenomycetous fungi. Mycologia Memoir No. 6. The New York Botanical Garden. J. Cramer, Germany
119. White, TJ, Bruns, TD, Lee, S, Taylor, J (1990) Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. PCR Protocols: Guide Methods Appl 18: pp. 315-322
120. Wijayawardene, NN, Crous, PW, Kirk, PM, Hawksworth, DL, Boonmee, S, Braun, U, Chomnunti, P, Dai, DQ, D鈥檚ouza, MJ, Diederich, P, Dissanayake, A, Doilom, M, Hongsanan, S, Jones, EBG, Groenewald, JZ, Jayawardena, R, Lawrey, JD, Liu, JK, L眉cking, R, Madrid, H, Manamgoda, DS, Muggia, L, Nelsen, MP, Phookamsak, R, Suetrong, S, Tanaka, K, Thambugala, KM, Wikee, S, Zhang, Y, Aptroot, A, Ariyawansa, HA, Bahkali, AH, Bhat, JD, Gueidan, C, Hoog, GS, Knudsen, K, McKenzie, EHC, Miller, AN, Mortimer, PE, Wanasinghe, DN, Phillips, AJL, Raja, HA, Slippers, B, Shivas, RS, Taylor, JE, Wang, Y, Woudenberg, JHC, Pi膮tek, M, Cai, L, Jaklitsch, WM, Hyde, KD (2014) Naming and outline of dothideomycetes鈥?014 including proposals for the protection or suppression of generic names. Fungal Divers 69: pp. 1-55
121. Woudenberg, JHC, Groenewald, JZ, Binder, M, Crous, PW (2013) Alternaria redefined. Stud Mycol 75: pp. 171-212
122. Yusoff, M, Moss, ST, Jones, EBG (1994) Ascospore ultrastructure of Pleospora gaudefroyi (Pleosporaceae, Loculoascomycetes, Ascomycotina). Can J Bot 72: pp. 1-6
123. Zhang, Y, Schoch, CL, Fournier, J, Crous, PW, Gruyter, J, Woudenberg, JHC, Hirayama, K, Tanaka, K, Pointing, SB, Hyde, KD (2009) Multi-locus phylogeny of the Pleosporales: a taxonomic, ecological and evolutionary re-evaluation. Stud Mycol 64: pp. 85-102
124. Zhang, Y, Crous, PW, Schoch, CL, Hyde, KD (2012) Pleosporales. Fungal Divers 52: pp. 1-225
125. Zhaxybayeva, O, Gogarten, JP (2002) Bootstrap, Bayesian probability and maximum likelihood mapping: exploring new tools for comparative genome analyses. BMC Genomics 3: pp. 4 - 刊物主题：Biodiversity; Microbial Ecology; Fungus Genetics; Medical Microbiology; Microbiology;
- 出版者：Springer Netherlands
- ISSN：1878-9129
文摘
The family Pleosporaceae includes numerous saprobic, opportunistic human, and plant pathogenic taxa. The classification of genera and species Pleosporaceae has been a major challenge due to the lack of a clear understanding of the importance of the morphological characters used to distinguish taxa as well as the lack of reference strains. Recent treatments concluded that Pleospora and some other genera in Pleosporaceae are likely polyphyletic. In order to establish the evolutionary relationships and to resolve the polyphyletic nature of Pleospora and allied genera, we sequenced the 18S nrDNA, 28S nrDNA, ITS, GAPDH, RPB2 and TEF1-alpha gene regions of Pleosporaceae species and phylogenetically analysed this data. Multigene phylogenies strongly support the monophyletic nature of Pleosporaceae among the other families in Pleosporales, and the acceptance of the genera Alternaria, Bipolaris, Clathrospora, Comoclathris, Curvularia, Dactuliophora, Decorospora, Diademosa, Exserohilum, Extrawettsteinina, Gibbago, Neocamarosporium, Paradendryphiella, Platysporoides, Pleospora, Porocercospora, Pseudoyuconia and Pyrenophora. Austropleospora, Dendryphion, Edenia and Macrospora are excluded from the family based on morphology coupled with molecular data. Two novel species, Alternaria murispora in this paper and Comoclathris sedi are introduced. The sexual morph of Alternaria alternata is re-described and illustrated using modern concepts from fresh collections. The paraphyletic nature of Pleospora is resolved based on the available morpho-molecular data, but further sampling with fresh collections, reference or ex-type strains and molecular data are needed to obtain a natural classification of genera and the family.