Skip to main content Skip to main navigation menu Skip to site footer
Responsive image
Issue: Vol. 663 No. 4: 27 Aug. 2024
Type: Article
Published: 2024-08-27
DOI: 10.11646/phytotaxa.663.4.2
Page range: 184-204
Abstract views: 125
PDF downloaded: 4

Phylogenetic and morphological revision sexual stages of the genus Paraphoma (Phaeosphaeriaceae) and next related species from clade of Ophiobolus-like (Phaeosphaeriaceae)

Department of Botany, Faculty of Science, Palacky University Olomouc, Šlechtitelů 27, CZ-783 71 Olomouc, Czech Republic
Department of Botany, Faculty of Science, Palacky University Olomouc, Šlechtitelů 27, CZ-783 71 Olomouc, Czech Republic. Agrotest Fyto, Ltd, Havlíčkova 2787, CZ-76701 Kroměříž, Czech Republic.
Chaetosphaeronema Leptosphaeria Ophiobolus phylogeny Pleosporales taxonomy Fungi

Abstract

This study brings new knowledge about the taxonomy of some fungal species that originally belong to the polyphyletic genus Leptosphaeria. Molecular-phylogeny and morphology methods were carried out for taxonomic revision of some taxa in the genus Leptosphaeria (L. clavispora, L. barriae, L. rubicunda and its similar species) and defined new taxonomic combinations of these species, namely Ophiobolus clavisporus (J. H.Mill. & Burton) Mlčoch, Chaetosphaeronema barriae (Shoemaker) Mlčoch and Paraphoma rubicunda (Rehm ex G. Winter) Mlčoch. In the genus Chaetosphaeronema, Ch. misuriniensis sp. nov. was described, and in the genus Paraphoma, Paraphoma betonicicola sp. nov. and P. moravica sp. nov. were described. Furthermore, the synoptic keys of species from Paraphoma rubicunda (Rehm ex Winter) Mlčoch comb. nov. morphological species group, and dichotomous keys for phragmosporous species of the order Pleosporales, which are known from dead stems of Lamiaceae and phragmosporous taxa associated with Lupinus (Fabaceae), are provided.

References

  1. Carbone, I. & Kohn, L.M. (1999) A method for designing primer sets for speciation studies in filamentous ascomycetes. Mycologia 91: 553–556. https://doi.org/10.1080/00275514.1999.12061051
  2. Crous, P.W., Hernández-Restrepo, M., Schumacher, R.K., Cowan, D.A., Maggs-Kölling, G., Marais, E., Wingfield, M.J., Yilmaz, N., Adan, O.C.G., Akulov, A., Duarte, E. Álvarez, Berraf-Tebbal, A., Bulgakov, T.S., Carnegie, A.J., de Beer, Z.W., Decock, C., Dijksterhuis, J., Duong, T.A., Eichmeier, A., Hien, L.T., Houbraken, J.A.M.P., Khanh, T.N., Liem, N.V., Lombard, L., Lutzoni, F.M., Miadlikowska, J.M., Nel, W.J., Pascoe, I.G., Roets, F., Roux, J., Samson, R.A., Shen, M., Spetik, M., Thangavel, R., Thanh, H.M., Thao, L.D., van Nieuwenhuijzen, E.J., Zhang, J.Q., Zhang, Y., Zhao, L.L. & Groenewald, J.Z. (2021) New and Interesting Fungi. 4. Fungal Systematics and Evolution 7: 255–343. [Epub 2021 Apr 28. PMID: 34124627; PMCID: PMC8165967] https://doi.org/10.3114/fuse.2021.07.13
  3. De Gruyter, J., Woudenberg, J.H.C., Aveskamp, M.M., Verkley, G.J.M., Groenewald, J.Z. & Crous, P.W. (2013) Redisposition of Phoma-like anamorphs in Pleosporales. Studies in Mycology 75: 1–36. [ISSN 01660616. http://linkinghub.elsevier.com/retrieve/pii/S0166061614600014] https://doi.org/10.3114/sim0004
  4. Eckstein, R.L., Welk, E., Klinger, Y.P., Lennartsson, T., Wissman, J., Ludewig, K., Hansen, W. & Ramula, S. (2023) Biological flora of Central Europe—Lupinus polyphyllus Lindley. Perspectives in Plant Ecology, Evolution and Systematics 58: 125715. [ISSN 1433–8319] https://doi.org/10.1016/j.ppees.2022.125715
  5. Feltgen, J. (1903) Systematisches Verzeichniss der bis jetzs im Gebiete gefundenen Pilzarten, mit angaben der synonymie, det algemeinen Stand u. der Speziel-Fundorte resp. der Nährböden und mit Beschreibung abweichender, resp. neuer, sowie zweifelhafter und kritischer Formen. Vorstudien zu einer Pilzflora des Grosserzogthums Luxemburg Nachtr. III: 221.
  6. Greene, E.L. (1903) Plantae Bakerianae, vol. I, fasc. I. Fungi to Iridaceae. Price.
  7. Guarnaccia, V., Martino, I., Tabone, G., Crous, P.W. & Gullino, M.L. (2022) Paraphoma garibaldi sp. nov. causing leaf spot disease of Campanula rapunculoides in Italy. Fungal systematics and evolution 9: 19–26. https://doi.org/10.3114/fuse.2022.09.03
  8. Hadley, A. (2012) CombineZP. Software from: https://combinezp.software.informer.com/ (accessed 26 August 2024)
  9. Hazslinzski, F. (1893) Magyárország s társországainak Sphaeriái. Mathem. Természettud. Közlem. Magg. Tudom. Akad. 25 (2): 143.
  10. Henriot, A. (2020) Piximétre: La mesure de dimensions sur images. Available from: http://www.piximetre.fr/ (accessed August 2024)
  11. Hyde, K.D., Jones, E.B.G., Liu, J., Ariyawansa, H., Boehm, E., Boonmee, S., Braun, U., Chomnunti, P., Crous, P.W., Dai, D., Diederich, P., Dissanayake, A., Doilom, M., Doveri, F., Hongsanan, S., Jayawardena, R., Lawrey, J.D., Li, Y., Liu, Y., Lücking, R., Monkai, J., Muggia, L., Nelsen, M.P., Pang, K., Phookamsak, R., Senanayake, I.C., Shearer, C.A., Suetrong, S., Tanaka, K., Thambugala, K.M., Wijayawardene, N.N., Wikee, S., Wu, H., Zhang, Y., Anguirre-Hudson, B., Alias, S.A., Aptroot, A., Bahkali, A.H., Bezerra, J.L., Bhat, D.J., Camporesi, E., Chukeatirote, E., Gueidan, C., Hawksworth, D.L., Hirayama, K., De Hoog, S., Kang, J., Knudsen, K., Li, W., Li, X., Liu, Z., Mapook, A., McKenzie, E.H.C., Miller, A.N., Mortimer, P.E., Phillips, A.J.L., Raja, H.A., Scheuer, Ch., Schumm, F., Taylor, J.E., Tian, Q., Tibpromma, S., Wanasighe, N., Wang, Y., Xu, J., Yacharoen, S., Yan, J. & Zhang, M. (2013) Families of Dothideomycetes. Fungal diversity 63: 1–113. [ISSN 1560–2745] https://doi.org/10.1007/s13225-013-0263-4
  12. Katoh, K. & Standley, D.M. (2013) MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Molecular Biology and Evolution 30 (4): 772–780. [Epub 2013 Jan 16. PMID: 23329690; PMCID: PMC3603318] https://doi.org/10.1093/molbev/mst010
  13. Karunarathna, A., Papizadeh, M., Senanayake, I.C., Jeewon, R., Phookamsak, R., Goonasekara, I.D., Wanasinghe, D.N., Wijayawardene, N.N., Amoozegar, M.A., Shahzadeh Fazeli, S.A., Camporesi, E., Hyde, K.D., Weerahewa, H.L.D., Lumyong, S. & McKenzie, E.H.C. (2017) Novel fungal species of Phaeosphaeriaceae with an asexual/sexual morph connection. Mycosphere 8 (10): 1818–1834. https://doi.org/10.5943/mycosphere/8/10/8
  14. Kumar, S., Stecher, G., Li, M., Knyaz, Ch. & Tamura, K. (2018) MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platgorms. Molecular Biology and Evolution 35 (6): 1547–1549. https://doi.org/10.1093/molbev/msy096
  15. Li, W.J., Bhat, D.J., Camporesi, E., Tian, Q., Wijayawardene, N.N., Dai, D.Q., Phookamsak, R., Chomnunti, P., Bahkali, A.H. & Hyde, K.D. (2015) New asexual morph taxa in Phaeosphaeriaceae. Mycosphere 6 (6): 681–708. https://doi.org/10.5943/mycosphere/6/6/5
  16. Losa, M. (1948) Micromycetos del pirineo Espanol. Anales del Jardin botanico de Madrid 8.
  17. Mapook, A., Boonmee, S., Ariyawansa, H.A., Tibpromma, S., Campesori, E., Jones, E.B.G., Bahkali, A.H. & Hyde, K.D. (2016) Taxonomic and phylogenetic placement of Nodulosphaeria. Mycological Progress 15: 34. https://doi.org/10.1007/s11557-016-1176-x
  18. Mlčoch, P. (2021) Mycofloristical survey of selected areas focused on the fungi of genus Leptosphaeria s. l.. Bachelor’s thesis, Department of Zoology and Ornithological Laboratory, Faculty of Science, Palacký University in Olomouc, 157 pp. [in Czech]
  19. Paradis, E. & Schliep, K. (2019) ape 5.0: an environment for modern phylogenetics and evolutionary analyses in R. Bioinformatics 35 (3): 526–528. https://doi.org/10.1093/bioinformatics/bty633
  20. Passerini, G. (1888) Memorie e note di soci o presentate da soci. Atti Reale Accad. Lincei, Rendic., Sér. 4 4 (2): 59.
  21. Petrak, F. (1927) Mykologische Notizen. Annales Mycologici 25 (3/4): 289.
  22. Petrak, F. (1953) Neue Beiträge zur Pilzflora der Türkei. Sydowia 7 (1–4): 20.
  23. Phookamsak, R., Liu, J., McKenzie, E.H.C., Manamgoda, D.S., Ariyawansa, H., Thambugala, K.M., Dai, D., Camporesi, E., Chukeatirote, E., Wijayawardene, N.N., Bahkali, A.H., Mortimer, P.E., Xu, J. & Hyde, K.D. (2014) Revision of Phaeosphaeriaceae. Fungal Diversity 68: 159–238. https://doi.org/10.1007/s13225-014-0308-3
  24. Phookamsak, R., Wanasinghe, D.N., Hongsaman, S., Phukhumsakda, Ch., Huang, S., Tennakoon, D.S., Norphanphoun, Ch., Camporesi, E., Bulgakov, T.S., Promputtha, I., Mortimer, P.E., Xu, J. & Hyde, K.D. (2017) Towards a natural classification of Ophiobolus and ophiobolus-like taxa; introducing three novel genera Ophiobolopsis, Paraophiobolus and Pseudoophiobolus in Phaeosphaeriaceae (Pleosporales). Fungal Diversity 87: 299–339. https://doi.org/10.1007/s13225-017-0393-1
  25. Phukhamsakda, Ch., Ariyawansa, H.A., Phookamsak, R., Chomnunti, P., Bulgakov, T.S., Yang, J., Bhat, D.J., Bahkali, A.H. & Hyde, K.D. (2015) Muriphaeosphaeria galatellae gen. et sp. nov. in Phaeosphaeriaceae (Pleosporales). Phytotaxa 227 (1): 55–65. https://doi.org/10.11646/phytotaxa.227.1.6
  26. Quaedvlieg, W., Verkley, G.J., Shin, H.D., Barreto, R.W., Alfenas, A.C., Swart, W.J., Groenewald, J.Z. & Crous, P.W. (2013) Sizing up Septoria. Studies in Mycology 75 (1): 307–390. [PMID: 24014902; PMCID: PMC3713890] https://doi.org/10.3114/sim0017
  27. RStudio Team (2020) RStudio: Integrated Development for R. RStudio, PBC, Boston, MA. Available from: http://www.rstudio.com/ (accessed 26 August 2024)
  28. Saccardo, P.A., Saccardo, D., Traverso, G.B. & Trotter, A. (1928) Sylloge Fungorum Omnium Hucusque Cognitorum. Vol. 2. Patavii, sumptibus auctoris. 635 pp.
  29. Saccardo, P.A. & Sydow, P. (1899) Sylloge Fungorum Omnium Hucusque Cognitorum. Vol. 14. Patavii, sumptibus auctoris. 566 pp.
  30. Saccardo, P.A., Traverso, G.B. & Trotter, A. (1883) Sylloge Fungorum Omnium Hucusque Cognitorum. Vol. 2. Patavii, sumptibus auctoris. 815 pp. https://doi.org/10.5962/bhl.title.5371
  31. Saccardo, P.A. (1891) Sylloge Fungorum Omnium Hucusque Cognitorum. Vol. 9. Patavii, sumptibus auctoris. 1141 pp. [https://www.biodiversitylibrary.org/item/25386 ]
  32. Shoemaker, R.A. (1984) Canadian and some extralimital Leptosphaeria species. Canadian Journal of Botany 62: 2688–2729. https://doi.org/10.1139/b84-366
  33. Shoemaker, R.A., Babcock, C.E. & Irwin, J.A.G. (1990) Massarina walker n. sp., the teleomorph of Acrocalymma medicaginis from Medicago sativa contrasted with Leptosphaeria pratensis, L. weimeri n. sp., and L. viridella. Canadian Journal of Botany 69: 569–573. https://doi.org/10.1139/b91-077
  34. Strasser, P.P. (1907) Vierter Nachtrag zur Pilzflora des Sonntagberges (N-O). Verh. Kaiserl.-Königl. zool.-bot. Ges. Wien 57 (1): 315.
  35. Trifinopoulos, J., Nguyen, L.T., von Haeseler, A. & Minh, B.Q. (2016) W-IQ-TREE: a fast online phylogenetic tool for maximum likelihood analysis. Nucleic Acids Research 44 (W1): W232–W235. https://doi.org/10.1093/nar/gkw256
  36. Urries, M.J. (1945) Estudio citológico y experimental de Leptosphaeria cavanillesii, nov. sp. Anales del Jardín Botánico de Madrid 6: 337.
  37. Vilgalys, R. & Hester, M. (1990) Rapid genetic identification and mapping of enzymatically amplified ribosomal DNA from several Cryptococcus species. Journal of Bacteriology 172: 4238–4246. https://doi.org/10.1128/jb.172.8.4238-4246.1990
  38. Vu, D., Groenewald, M., de Vries, M., Gehrmann, T., Stielow, B., Eberhardt, U., Al-Hatmi, A., Groenewald, J.Z., Cardinali, G., Houbraken, J., Boekhout, T., Crous, P.W., Robert, V. & Verkley, G.J.M. (2019) Large-scale generation and analysis of filamentous fungal DNA barcodes boosts coverage for kingdom fungi and reveals thresholds for fungal species and higher taxon delimitation. Studies in Mycology 92: 135–154. https://doi.org/10.1016/j.simyco.2018.05.001
  39. Wanasinghe, D.N., Phukhamsakda, C., Hyde, K.D., Jeewon, R., Lee, H.B., Jones, E.B.G., Tibpromma, S., Tennakoon, D.S., Dissanayake, A.J., Jayasiri, S.C., Gafforov, Y., Camporesi, E., Bulgakov, T.S., Ekanayake, A.H., Perera, R.H., Samarakoon, M.C., Goonasekara, I.D., Mapook, A., Li, W.-J., Senanayake, I.C., Li, J., Norphanphoun, C., Doilom, M., Bahkali, A.H., Xu, J., Mortimer, P.E., Tibell, L., Tibell, S. & Karunarathna, S.C. (2018) Fungal diversity notes 709–839: taxonomic and phylogenetic contributions to fungal taxa with an emphasis on fungi on Rosaceae. Fungal Diversity 89: 1–236. https://doi.org/10.1007/s13225-018-0395-7
  40. Wanasinghe, D.N. & Maharachchikumbura, S.S.N. (2023) Exploring the Diversity and Systematics of Phaeosphaeriaceae: Taxonomic Novelties from Ecologically Diverse Habitats and Their Phylogenetic Resolution. Journal of Fungi 9: 853. https://doi.org/10.3390/jof9080853
  41. White, T.J., Bruns, T., Lee, S. & Taylor, J. (1990) Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In: Innis, M.A., Gelfand, D.H., Sninsky, J.J. & White, T.J. (Eds.) PCR Protocols. Academic Press: San Diego, CA, USA, pp. 315–322. [ISBN 978-0-12-372180-8] https://doi.org/10.1016/B978-0-12-372180-8.50042-1