Systematic reappraisal of species in Phoma section Paraphoma, Pyrenochaeta and Pleurophoma

LITERATURE CITED

• Aveskamp MM, de Gruyter J, Crous PW. 2008. Biology and recent developments in the systematics of Phoma, a complex genus of major quarantine significance. Fungal Divers 31:1–18.
   Google Scholar
• ———, Verkley GJM, de Gruyter J, Murace MA, Perelló A, Woudenberg JHC, Groenewald JZ, Crous PW. 2009. DNA phylogeny reveals polyphyly of Phoma section Peyronellaea and multiple taxonomic novelties. Mycologia 101:363–382.
   Google Scholar
• Barr ME. 1987. Prodomus to class Loculoascomycetes. Amherst, Massachussetts: Hamilton I. Newell Inc.
   Google Scholar
• Berbee ML. 1996. Loculoascomycete origins and evolution of filamentous ascomycete morphology based on 18s rRNA gene sequence data. Mol Biol Evol 13:462–470.
   Google Scholar
• Boerema GH. 1993. Contributions toward a monograph of Phoma (coelomycetes) II. Section Peyronellaea. Persoonia 15:197–221.
   Google Scholar
• ——— 1997. Contributions toward a monograph of Phoma (coelomycetes) V. Subdivision of the genus in sections. Mycotaxon 64:321–333.
   Google Scholar
• ———, de Gruyter J, Noordeloos ME, Hamers MEC. 2004. Phoma identification manual. Differentiation of specific and infra-specific taxa in culture. Wallingford, UK: CABI Publishing. 470 p.
   Google Scholar
• ———, Dorenbosch MMJ. 1973. The Phoma and Ascochyta species described by Wollenweber and Hochapfel in their study on fruit-rotting. Stud Mycol 3:1–55.
   Google Scholar
• ———, Loerakker WM, Hamers MEC. 1996. Contributions toward a monograph of Phoma (Coelomycetes) III2. Misapplications of the type species-name and the generic synonyms of section Plenodomus (Excluded species). Persoonia 16:141–190.
   Google Scholar
• Borelli D. 1959. Pyrenochaeta romeroi n.sp. Dermatologia-Venezolana 1:325–327.
   Google Scholar
• ——— 1976. Pyrenochaeta mackinnonii nova species agente de micetoma. Castellania 4:227–234.
   Google Scholar
• Câmara MPS, Palm ME, van Berkum P, O’Neill NR. 2002. Molecular phylogeny of Leptosphaeria and Phaeosphaeria. Mycologia 94:630–640.
   Google Scholar
• ———, Ramaley AW, Castlebury LA, Palm ME. 2003. Neophaeosphaeria and Phaeosphaeriopsis, segregates of Paraphaeosphaeria. Mycol Res 107:516–522.
   Google Scholar
• Crous PW, Verkley GJM, Groenewald JZ, Samson RA. 2009. Fungal biodiversity. CBS Laboratory Manual Series. Utrecht, the Netherlands: Centraalbureau voor Schimmelcultures.
   Google Scholar
• de Gruyter J, Aveskamp MM, Woudenberg JHC, Verkley GJM, Groenewald JZ, Crous PW. 2009. Molecular phylogeny of Phoma and allied anamorph genera: toward a reclassification of the Phoma complex. Mycol Res 113:508–519.
   Google Scholar
• ———, Boerema GH. 2002. Contributions toward a monograph of Phoma (coelomycetes) VII. Section Paraphoma: taxa with setose pycnidia. Persoonia 17: 541–561.
   Google Scholar
• Dorenbosch MMJ. 1970. Key to nine ubiquitous soilborne Phoma-like fungi. Persoonia 6:1–14.
   Google Scholar
• Grondona I, Monte E, Garcia-Acha I, Sutton B. 1997. Pyrenochaeta dolichi: an example of a confusing species. Mycol Res 101:1404–1408.
   Google Scholar
• Hansen HN. 1929. Etiology of the pink-root disease of onions. Phytopathology 19:691–704.
   Google Scholar
• Hatakeyama S, Tanaka K, Harada Y. 2008. Bambusicolous fungi in Japan 7: a new coelomycetous genus, Versicolorisporium. Mycoscience 49:211–214.
   Google Scholar
• Huelsenbeck JP, Ronqvist F. 2001. MrBayes: Bayesian inference of Phylogeny. Bioinformatics 17:754–755.
   Google Scholar
• Kinsey GC. 2002. Phoma septicidalis. IMI descriptions of plant pathogenic fungi and bacteria No. 1508.
   Google Scholar
• Leuchtmann A. 1984. Über Phaeosphaeria Miyake und andere bitunicate Ascomyceten mit mehrfach querseptierten Ascosporen. Sydowia 37:75–194.
   Google Scholar
• Linder DH. 1944. I. Classification of the marine fungi. Farlowia 1:401–467.
   Google Scholar
• Morgan-Jones G, White JF. 1983. Studies in the genus Phoma III. Paraphoma, a new genus to accommodate Phoma radicina. Mycotaxon 18:57–65.
   Google Scholar
• Punithalingam E, English MP. 1975. Pyrenochaeta unguis-hominis sp. nov. on human toenails. Trans Br Mycol Soc 64:539–541.
   Google Scholar
• Rehner SA, Samuels GJ. 1994. Taxonomy and phylogeny of Gliocladium analyzed from nuclear large subunit ribosomal DNA sequences. Mycol Res 98:625–634.
   Google Scholar
• Rossman AY, Far DF, Castlebury LA, Shoemaker R, Mengistu A. 2002. Setomelanomma holmii (Pleosporales, Phaeosphaeriaceae) on living spruce twigs in Europe and North America. Can J Bot 80:1209–1215.
   Google Scholar
• Schneider R. 1979. Die Gattung Pyrenochaeta De Notaris. Mitt Biol Bundesanst Land- Forstw 189:1–73.
   Google Scholar
• Silva-Hanlin DMW, Hanlin RT. 1999. Small subunit ribosomal RNA gene phylogeny of several Loculoascomycetes and its taxonomic implications. Mycol Res 103:153–160.
   Google Scholar
• Sivanesan A. 1984. The bitunicate Ascomycetes and their anamorphs. Liechtenstein: J. Cramer, Vaduz. 701 p.
   Google Scholar
• Sutton BC. 1980. The coelomycetes. Fungi imperfecti with pycnidia, acervuli and stromata. Kew, UK: CMI. 696 p.
   Google Scholar
• Swofford DL. 2003. PAUP*: phylogenetic analysis using parsimony (*and other methods). Version 4.0b 10. Sunderland, Massachusetts: Sinauer Associates.
   Google Scholar
• van der Aa HA, Noordeloos ME, de Gruyter J. 1990. Species concepts in some larger genera of the coelomycetes. Stud Mycol 32:3–19.
   Google Scholar
• ———, Vanev S. 2002. A revision of the species described in Phyllosticta. Utrecht, the Netherlands: CBS. 510 p.
   Google Scholar
• Vilgalys R, Hester M. 1990. Rapid genetic identification and mapping of enzymatically amplified ribosomal DNA from several Cryptococcus species. J Bacteriol 172:4238–4246.
   Google Scholar
• von Freyer K, van der Aa HA. 1975. Über Pyrenochaeta parasitica spec. nov., die Nebenfruchtform von Herpotrichia parasitica (Hartig) E. Rostrup (= Trichosphaeria parasitica). Eur J For Path 5:177–182.
   Google Scholar
• 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. San Diego: Academic press. p 315–322.
   Google Scholar
• Woudenberg JHC, Aveskamp MM, de Gruyter J, Spiers AG, Crous PW. 2009. Multiple Didymella teleomorphs are linked to the Phoma clematidina morphotype. Persoonia 22:56–62.
   Google Scholar