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DOI: http://dx.doi.org/10.11646/phytotaxa.406.2.3

Multi-gene phylogeny and morphotaxonomy of Phaeosphaeria ampeli sp. nov. from Ficus ampelas and a new record of P. musae from Roystonea regia

DANUSHKA S. TENNAKOON, RAJESH JEEWON, ELENI GENTEKAKI, CHANG-HSIN KUO, KEVIN D. HYDE

Abstract


Phaeosphaeria ampeli is a new species collected from dead leaves of Ficus ampelas in Fanlu Township area, Dahu forest, Chiayi, Taiwan. Phaeosphaeria musae is a new record from dead leaves of Roystonea regia. Both species are described, illustrated and compared with similar species. Phaeosphaeria ampeli is distinguished from other Phaeosphaeria species based on distinct size differences of the ascomata, asci, ascospores and analyses of DNA sequence data. Maximum parsimony, maximum likelihood and Bayesian inference analyses of combined ITS, LSU, SSU and tef1-α sequence data are used to clarify the phylogenetic affinities of the species.


Keywords


1 new species, Dothideomycetes, Ficus, phylogeny, taxonomy, Fungi

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References


Ariyawansa, H.A., Hyde, K.D., Jayasiri, S.C., Buyck, B., Kandawatte, W.T.C., Cui, Y.Y., Dai, D.Q., Dai, Y.C., Daranagama, D.A., Jayawardena, R.S., Lucking, R., Ghobad-Nejhad, M., Niskanen, T., Thambugala, K.M., Voigt, K., Zhao, R.L., Boonmee, S., Bahkali, A.H., Chen, J., Cui, B.K., Dayarathne, M.C., Dissanayake, A.J., Ekanayaka, A.H., Hashimoto, A., Hongsanan, S., Jones, E.B.G., Larsson, E., Lewis, D., Li, W.J., Li, Q.R., Liu, J.K., Luo, Z.L., Maharachchikumbura, S.S.N., Mapook, A., McKenzie, E.H.C., Norphanphoun, C., Pang, K.L., Perera, R.H., Phookamsak, R., Phukhamsakda, C., Randrianjohany, E., Senanayake, I.C., Singtripop, C., Shang, Q., Tanaka K, Tian Q, Tian, C.M., Tibpromma, S., Verbeken, A., Abdel-Wahab, M.A., Wanasinghe, D.N., Wijayawardene, N.N., Zhang, J.F., Zhang, H., Abdel-Aziz, F.A., Adamck, S., Ammirati, J.F., Bulgakov, T., Cabral, A.L., Callaghan, T.M., Callac, P., Chang, C.H., Coca, L.F., Dal-Forno, M., Dollhofer, V., Fliegerova, K., Greiner, K., Griffith, G.W., Ho, H.M., Hofstetter, V., Jeewon, R., Kang, J.C., Kirk, P.M., Kytovuori, I., Lawrey, J.D., Li, J.X.H., Liu, Z.Y., Zhong, X.L., Liimatainen, K., Lumbsch, H.T., Matumura, M., Moncada, B., Nuankaew, S., Parnmen, S., Santiago, M.D.A., Sato, G., Sommai S, Song Y, De Souza CAF, De Souza-Motta CM, Su HY, Suetrong S, Wang Y, Wei SF, Wen, T.C., Shen, H., Yuan, H.S., Zhou, L.W., Reblova, M., Fournier, J. & Camporesi, E. (2015) Fungal Diversity Notes 111-252 Taxonomic and phylogenetic contributions to fungal taxa. Fungal Diversity 75: 27–274.

https://doi.org/10.1007/s13225-015-0346-5

Bakhshi, M., Arzanlou, M., Groenewald, J.Z., Quaedvlieg, W. & Crous, P.W. (2019) Parastagonosporella fallopiae gen. et sp. nov. (Phaeosphaeriaceae) on Fallopia convolvulus from Iran. Mycological Progress 18: 203–214.

https://doi.org/10.1007/s11557-018-1428-z

Barr, M.E. (1979) A classification of Loculoascomycetes. Mycologia 71: 935–957.

https://doi.org/10.1080/00275514.1979.12021099

Blackwell, M. (2011) The Fungi: 1, 2, 3… 5.1 million species?. American Journal of Botany 98: 426–438.

https://doi.org/10.3732/ajb.1000298

Blackwell, M. & Vega, F.E. (2018) Lives within lives: Hidden fungal biodiversity and the importance of conservation. Fungal Ecology 35: 127–134.

https://doi.org/10.1016/j.funeco.2018.05.011

Cai, L., Jeewon, R. & Hyde, K.D. (2005) Phylogenetic evaluation and taxonomic revision of Schizothecium based on ribosomal DNA and protein coding genes. Fungal Diversity 19: 1–17.

Cai, L., Jeewon, R. & Hyde, K.D. (2006) Molecular systematics of Zopfiella and allied genera: evidence from multigene sequence analyses. Fungal Biology 110: 359–368.

https://doi.org/10.1016/j.mycres.2006.01.007

Câmara, M.P.S., Palm, M.E., van Berkum, P. & O’Neill, N.R. (2002) Molecular phylogeny of Leptosphaeria and Phaeosphaeria. Mycologia 94: 630–640.

https://doi.org/10.1080/15572536.2003.11833191

Chaiwan, N., Wanasinghe, D.N., Camporesi, E., Tibpromma, S., Boonmee, S., Lumyong, S. & Hyde, K.D. (2019) Molecular taxonomy reveals the sexual morph of Nodulosphaeria digitalis in Phaeosphaeriaceae from Campanula trachelium in Italy. Phytotaxa 400: 1–13.

https://doi.org/10.11646/phytotaxa.400.1.1

Chomnunti, P., Hongsanan, S., Hudson, B.A., Tian, Q., Persoh, D., Dhami, M.K., Alias, A.S., Xu, J., Liu, X., Stadler, M. & Hyde, K.D. (2014) The Sooty Moulds. Fungal Diversity 66: 1–36.

https://doi.org/10.1007/s13225-014-0278-5

Crous, P.W., Shivas, R.G., Quaedvlieg, W., Van der Bank, M., Zhang, Y., Summerell, B.A., Guarro, J., Wingfield, M.J., Wood, A.R., Alfenas, A.C. & Braun, U. (2014) Fungal Planet description sheets: 214–280. Persoonia 32: 184–306.

https://doi.org/10.3767/003158514X682395

Crous, P.W., Wingfield, M.J., Richardson, D.M., Le Roux, J.J., Strasberg, D., Edwards, J., Roets, F., Hubka, V., Taylor, P.W., Heykoop, M., Martín, M.P., Moreno, G., Sutton, D.A., Wiederhold, N.P., Barnes, C.W., Carlavilla, J.R., Gené, J., Giraldo, A., Guarnaccia, V., Guarro, J., Hernández-Restrepo, M., Kolařík, M., Manjón, J.L., Pascoe, I.G., Popov, E.S., Sandoval-Denis, M., Woudenberg, J.H., Acharya, K., Alexandrova, A.V., Alvarado, P., Barbosa, R.N., Baseia, I.G., Blanchette, R.A., Boekhout, T., Burgess, T.I., Cano-Lira, J.F., Čmoková, A., Dimitrov, R.A., Dyakov, M.Y., Dueñas, M., Dutta, A.K., Esteve-Raventós, F., Fedosova, A.G., Fournier, J., Gamboa, P., Gouliamova, D.E., Grebenc, T., Groenewald, M., Hanse, B., Hardy, G.E., Held, B.W., Jurjević, Ž., Kaewgrajang, T., Latha, K.P., Lombard, L., Luangsa-Ard, J.J., Lysková, P., Mallátová, N., Manimohan, P., Miller, A.N., Mirabolfathy, M., Morozova, O.V., Obodai, M., Oliveira, N.T., Ordóñez, M.E., Otto, E.C., Paloi, S., Peterson, S.W., Phosri, C., Roux, J., Salazar, W.A., Sánchez, A., Sarria, G.A., Shin, H.D., Silva, B.D., Silva, G.A., Smith, M.T., Souza-Motta, C.M., Stchigel, A.M., Stoilova-Disheva, M.M., Sulzbacher, M.A., Telleria, M.T., Toapanta, C., Traba, J.M., Valenzuela-Lopez, N., Watling, R. & Groenewald, J.Z. (2016) Fungal Planet description sheets: 400-468. Persoonia 36: 316–458.

https://doi.org/10.3767/003158516X692185

De Oliveira, R.J.V., Bezerra, J.L., Lima, T.E.F., da Silva, G.A. & Cavalcanti, M.A.D.Q. (2016) Phaeosphaeria nodulispora, a new endophytic coelomycete isolated from tropical palm (Cocos nucifera) in Brazil. Nova Hedwigia 103: 185–192.

https://doi.org/10.1127/nova_hedwigia/2016/0343

De Silva, N., Lumyong, S., Hyde, K.D., Bulgakov, T., Phillips, A.J.L. & Yan, J.Y. (2016) Mycosphere essays 9: defining biotrophs and hemibiotrophs. Mycosphere 7: 545–559.

https://doi.org/10.5943/mycosphere/7/5/2

Eriksson, O.E. (1967) On graminicolous pyrenomycetes from Fennoscandia. I, II, III. Arkiv før Botanik 26: 339–466.

Eriksson, O.E. (1981) The families of bitunicate ascomycetes. Opera Botanica 60: 1–220.

https://doi.org/10.1111/j.1756-1051.1981.tb01167.x

Farr, D.F. & Rossman, A.Y. (2019) Fungal databases. Systematic mycology and microbiology laboratory, ARS, USDA. Available from: http://nt.ars-grin.gov/fungaldatabases (accessed 10 January 2019)

Hall, T.A. (1999) BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symposium Series 41: 95–98.

Hashimoto, A., Hirayama, K., Takahashi, H., Matsumura, M., Okada, G., Chen, C.Y., Huang, J.W., Kakishima, M., Ono, T. & Tanaka, K. (2018) Resolving the Lophiostoma bipolare complex: Generic delimitations within Lophiostomataceae. Studies in Mycology 90: 161–189.

https://doi.org/10.1016/j.simyco.2018.03.001

Hawksworth, D.L. (2001) The magnitude of fungal diversity: the 1· 5 million species estimate revisited. Mycological Research 105: 1422–1432.

https://doi.org/10.1017/S0953756201004725

Hawksworth, D.L. (2004) Fungal diversity and its implications for genetic resource collections. Studies in Mycology 50: 9–18.

Hernandez-Restrepo, M., Gené, J., Castañeda-Ruiz, R.F., Mena-Portales, J., Crous, P.W. & Guarro, J. (2017) Phylogeny of saprobic microfungi from Southern Europe. Studies in Mycology 86: 53–97.

https://doi.org/10.1016/j.simyco.2017.05.002

Hernández-Restrepo, M., Schumacher, R.K., Wingfield, M.J., Ahmad, I., Cai, L., Duong, T.A., Edwards, J., Gené, J., Johannes, Z., Groenewald, J.Z., Jabeen, S., Khalid, A.N., Lombard, L., Madrid, H., Marin-Felix, Y., Marincowitz, S., Miller, A.N., Rajeshkumar, K.C., Rashid, A., Sarwar, S., Stchigel, A.M., Taylor, P.W.J., Zhou, N. & Crous, P.W. (2016) Fungal Systematics and Evolution: FUSE 2. Sydowia 68: 193–230.

https://doi.org/10.12905/0380.sydowia68-2016-0193

Holm, L. (1957) Etudes taxonomiques sur les pléosporacées. Symbolae Botanicae Upsaliensis 14: 1–188.

Huson, D.H. & Bryant, D. (2006) Application of phylogenetic networks in evolutionary studies. Molecular Biology and Evolution 23: 254–267.

https://doi.org/10.1093/molbev/msj030

Huelsenbeck, J.P. & Ronquist, F. (2001) MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17: 754–755.

https://doi.org/10.1093/bioinformatics/17.8.754

Hyde, K.D., Jones, E.G., Liu, J.K., Ariyawansa, H., Boehm, E., Boonmee, S., Braun, U., Chomnunti, P., Crous, P.W., Dai, D.Q., Diederich, P., Dissanayake, A., Doilom, M., Doveri, F., Hongsanan, S., Jayawardena, R., Lawrey, J.D., Li, Y.M., Liu, Y.X., Lücking, R., Monkai, J., Muggia, L., Nelsen, M.P., Pang, K.L., Phookamsak, R., Senanayake, I.C., Shearer, C.A., Suetrong, S., Tanaka, K., Thambugala, K.M., Wijayawardene, N.N., Wikee, S., Wu, H.X., Zhang, Y., Aguirre-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., Hoog, S.D., Kang, J.C., Knudsen, K., Li, W.J., Li, X.H., Liu, Z.Y., Mapook, A., McKenzie, E.H.C., Miller, A.N., Mortimer, P.E., Phillips, A.J.L., Raja, H.A., Scheuer, C., Schumm, F., Taylor, J.E., Tian, Q., Tibpromma, S., Wanasinghe, D.N., Wang, Y., Xu, J.C., Yacharoen, S., Yan, J.Y. & Zhang, M. (2013) Families of Dothideomycetes. Fungal Diversity 63: 1–313.

https://doi.org/10.1007/s13225-013-0263-4

Hyde, K.D., Norphanphoun, C., Abreu, V.P., Bazzicalupo, A., Chethana, K.W.T., Clericuzio, M., Dayarathne, M.C., Dissanayake, A.J., Ekanayaka, A.H., He, M.Q., Hongsanan, S., Huang, S.K., Jayasiri, S.C., Jayawardena, R.S., Karunarathna, A., Konta, S., Kušan, I., Lee, H., Li, J.F., Lin, C.G., Liu, N.G., Lu, Y.Z., Luo, Z.L., Manawasinghe, I.S., Mapook, A., Perera, R.H., Phookamsak, R., Phukhamsakda, C., Siedlecki, I., Soares, A.M., Tennakoon, D.S., Tian, Q., Tibpromma, S., Wanasinghe, D.N., Xiao, Y.P., Yang, J., Zeng, X.Y., Abdel-Aziz, F.A., Li, W.J., Senanayake, I.C., Shang, Q.J., Daranagama, D.A., de Silva, N.I., Thambugala, K.M., Abdel-Wahab, M.A., Bahkali, A.H., Berbee, M.L., Boonmee, S., Bhat, D.J., Bulgakov, T.S., Buyck, B., Camporesi, E., Castañeda-Ruiz, R.F., Chomnunti, P., Doilom, M., Dovana, F., Gibertoni, T.B., Jadan, M., Jeewon, R., Jones, E.B.G., Kang, J.C., Karunarathna, S.C., Lim, Y.W., Liu, J.K., Liu, Z.Y., Plautz, H.L., Lumyong, S., Maharachchikumbura, S.S.N., Matočec, N., McKenzie, E.H.C., Mešić, A., Miller, D., Pawłowska, J., Pereira, O.L., Promputtha, I., Romero, A.I., Ryvarden, L., Su, H.Y., Suetrong, S., Tkalčec, Z., Vizzini, A., Wen, T.C., Wisitrassameewong, K., Wrzosek, M., Xu, J.C., Zhao, Q., Zhao, R.L. & Mortimer, P.E. (2017) Fungal diversity notes 603–708: taxonomic and phylogenetic notes on genera and species. Fungal Diversity 87: 1–235.

https://doi.org/10.1007/s13225-017-0391-3

Hyde, K.D., Chaiwan, N., Norphanphoun, C., Boonmee, S., Camporesi, E., Chethana, K.W.T., Dayarathne, M.C., de Silva, N.I., Dissanayake, A.J., Ekanayaka, A.H., Hongsanan, S., Huang, S.K., Jayasiri, S.C., Jayawardena, R., Jiang, H.B., Karunarathna, A., Lin, C.G., Liu, J.K., Liu, N.G., Lu, Y.Z., Luo, Z.L., Maharachchimbura, S.S.N., Manawasinghe, I.S., Pem, D., Perera, R.H., Phukhamsakda, C., Samarakoon, M.C., Senwanna, C., Shang, Q.J., Tennakoon, D.S., Thambugala, K.M., Tibpromma, S., Wanasinghe, D.N., Xiao, Y.P., Yang, J., Zeng, X.Y., Zhang, J.F., Zhang, S.N., Bulgakov, T.S., Bhat, D.J., Cheewangkoon, R., Goh, T.K., Jones, E.B.G., Kang, J.C., Jeewon, R., Liu, Z.Y., Lumyong, S., Kuo, C.H., McKenzie, E.H.C., Wen, T.C., Yan, J.Y. & Zhao, Q. (2018) Mycosphere notes 169–224. Mycosphere 9: 271–430.

https://doi.org/10.5943/mycosphere/9/2/8

Hyde, K.D., Tennakoon, D.S., Jeewon, R., Bhat, D.J., Maharachchikumburan, S.S.N., Rossi, W., Leonardi, M., Lee, H.B., Nguyen, T.T.T., Mun, H.Y., Houbraken, J., Jeon, S.J., Frisvad, J.C., Wanasinghe, D.N., Lücking, R., Aptroot, A., Cáceres, M.E.S., Karunarathna, S.C., Hongsanan, S., Phookamsak, R., de Silva, N.I., Thambugala, K.M., Jayawardena, R.S., Senanayake, I.C., Boonmee, S., Chen, J., Luo, Z.L., Phukhamsakda, C., Pereira, O.L., Abreu, V.P., Rosado, A.W.C., Bart, B., Randrianjohany, E., Hofstetter, V., Gibertoni, T.B., Soares, A.M., Plautz, Jr H.L., Sotão, H.M.P., Xavier, W.K.S., Bezerra, J.D.P., de Oliveira, T.G.L., de Souza-Motta, C.M., Magalhães, O.M.C., Bundhun, D., Harishchandra, D., Manawasinghe, I.S., Dong, W., Zhang, H., Zhang, S.N., Bao, D.F., Samarakoon, M.C., Pem, D., Karunarathna, A., Lin, C.G., Yang, J., Perera, R.H., Kumar, V., Huang, S.K., Dayarathne, M.C., Ekanayaka, A.H., Jayasiri, S.C., Xiao, Y., Konta, S., Niskanen, T., Liimatainen, K., Dai, Y.C., Ji, X.H., Tian, X.M., Mešić, A., Singh, S.K., Phutthacharoen, K., Cai, L., Sorvongxay, T., Thiyagaraja, V., Norphanphoun, C., Chaiwan, N., Lu, Y.Z., Jiang, H.B., Abeywickrama, P.D., Aluthmuhandiram, J.V.S., Brahmanage, R.S., Zeng, M., Chethana, T., Wei, D., Réblová, M., Fournier, F., Nekvindová, J., Barbosa, R.D.N., dos Santos, J.E.F., de Oliveira, N.T., Li, G.J., Ertz, D., Shang, Q.J., Phillips, A.J.L., Kuo, C.H., Camporesi, E., Bulgakov, T.S., Lumyong, S., Jones, E.B.G., Chomnunti, P., Gentekaki, E., Bungartz, F., Zeng, X.Y., Fryar, S., Tkalčec, Z., Liang, J., Li, G., Wen, T.C., Singh, P.N., Gafforov, Y., Promputtha, I., Yasanthika, E., Goonasekara, I.D., Zhao, R.L., Zhao, Q., Kirk, P.M., Liu, J.K., Liu, N.G., Liu, Z.Y., Su, H.Y., A. Akulov., Yan, J., Mortimer, P.M., Xu, J. & Doilom, M. (2019) Fungal diversity notes 1036-1152: taxonomic and phylogenetic contributions on genera and species of fungal taxa. Fungal diversity. [in press]

Index Fungorum (2019) Available from: http://www.indexfungorum.org/names/Names.asp (accessed 6 January 2019)

Jayasiri, S.C., Hyde, K.D., Ariyawansa, H.A., Bhat, J., Buyck, B., Cai, L., Dai, Y.C., Abd-Elsalam, K.A., Ertz, D., Hidayat, I., Jeewon, R., Jones, E.B.G., Bahkali, A.5H., Karunarathna, S.C., Liu, J.K., Luangsa-ard, J.J., Lumbsch, H.T., Maharachchikumbura, S.S.N., McKenzie, E.H.C., Moncalvo, J.M., Ghobad-Nejhad, M., Nilsson, H., Pang, K.A., Pereira, O.L., Phillips, A.J.L., Raspé, O., Rollins, A.W., Romero, A.I., Etayo, J., Selçuk, F., Stephenson, S.L., Suetrong, S., Taylor, J.E., Tsui, C.K.M., Vizzini, A., Abdel-Wahab, M.A., Wen, T.C., Boonmee, S., Dai, D.Q., Daranagama, D.A., Dissanayake, A.J., Ekanayaka, A.H., Fryar, S.C., Hongsanan, S., Jayawardena, R.S., Li, W.J., Perera, R.H., Phookamsak, R., de Silva, N.I., Thambugala, K.M., Tian, Q., Wijayawardene, N.N., Zhao, R.L., Zhao, Q., Kang, J.C. & Promputtha, I. (2015) The Faces of Fungi database: fungal names linked with morphology, phylogeny and human impacts. Fungal Diversity 74: 3–18.

https://doi.org/10.1007/s13225-015-0351-8

Jayasiri, S.C., Hyde, K.D., Jones, E.B.G., McKenzie, E.H.C., Jeewon, R., Phillips, A.J.L., Bhat, D.J., Wanasinghe, D.N., Liu, J.K., Lu, Y.Z., Kang, J.C., Xu, J & Karunarathna, S.C. (2019) Diversity, morphology and molecular phylogeny of Dothideomycetes on decaying wild seed pods and fruits. Mycosphere 10: 1–186.

http://dx.doi.10.5943/mycosphere/10/1/1

Jeewon, R. & Hyde, K.D. (2016) Establishing species boundaries and new taxa among fungi: recommendations to resolve taxonomic ambiguities. Mycosphere 7: 1669–1677.

https://doi.org/10.5943/mycosphere/7/11/4

Katoh, K. & Standley, K. (2013) MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability. Molecular Biology. Evolution 30: 772–780.

https://doi.org/10.1093/molbev/mst010

Kohlmeyer, J., Volkmann-Kohlmeyer, B. & Tsui, C.K. (2005). Fungi on Juncus roemerianus. 17 New ascomycetes and the hyphomycete genus Kolletes gen. nov. Botanica Marina 48: 306–317.

https://doi.org/10.1515/BOT.2005.040

Liu, J.K., Hyde, K.D., E.B.G. Jones, Ariyawansa, H.A., Bhat, J.D., Boonmee, S., Maharachchikumbura, S., McKenzie, E.H.C., Phookamsak, R., Phukhamsakda, C., Shenoy, B.D., Abdel-Wahab, M.A., Buyck, B., Chen, J., Chethana, K.W.T., Singtripop, C., Dai, D., Dai, Y., Daranagama, D.A., Dissanayake, A., Doilom, M., D’souza, M.J., Fan, X.L., Goonasekara, I.D., Hirayama, K., Hongsanan, S., Jayasiri, S.C., Jayawardena, R., Karunarathna, S.C., Li, W.J., Mapook, A., Norphanphoun, C., Pang, K.L., Perera, R.H., Peršoh, D., Pinruan, U., Senanayake, I., Somrithipol, S., Suetrong, S., Tanaka, K., Thambugala, K.M., Tian, Q., Tibpromma, S., Udayanga, D., Wijayawardene, N., Wanasinghe, D., Wisitrassameewong, K., Abdel-Aziz, F.A., Adamčík, S., Bahkali, A.H., Boonyuen, N., Bulgakov, T., Callac, P., Chomnunti, P., Greiner, K., Hashimoto, A., Hofstetter, V., Kang, J.C., Lewis, D., Li, X.H., Liu, X.X., Liu, Z.Y., Matumura, M., Mortimer, P.E., Rambold, G., Randrianjohany, E., Sato, G., Indrasutdhi, V.S., Tian, C.M., Verbeken, A., von Brackel, W., Wang, Y., Wen, T.C., Xu, J.C., Yan, J.Y., Zhao, R.L. & Camporesi, E. (2015) Fungal Diversity Notes 1–110: Taxonomic and phylogenetic contributions to fungal species. Fungal Diversity 72: 1–197.

https://doi.org/10.1007/s13225-015-0324-y

Maharachchikumbura, S.S.N., Ariyawansa, H.A., Wanasinghe, D.N., Dayarathne, M.C., Al-Saady, N.A. & Al-Sadi, A.M. (2019) Phylogenetic classification and generic delineation of Hydeomyces desertipleosporoides gen. et sp. nov., (Phaeosphaeriaceae) from Jebel Akhdar Mountain in Oman. Phytotaxa 391: 28–38.

https://doi.org/10.11646/phytotaxa.391.1.2

Miller, M.A., Pfeiffer, W. & Schwartz, T. (2010) Creating the CIPRES Science Gateway for Inference of Large Phylogenetic Trees. In: SC10 Workshop on Gateway Computing Environments (GCE10).

https://doi.org/10.1109/GCE.2010.5676129

Miyake, I. (1909) Studies on the parasitic fungi of rice in Japan. Botanical Magazine Tokyo 23: 85–97.

https://doi.org/10.15281/jplantres1887.23.266_85

Phookamsak, R., Liu, J.K., McKenzie, E.H.C., Manamgoda, D.S., Ariyawansa, H.A., Thambugala, K.M., Dai, D.Q., Camporesi, E., Chukeatirote, E., Wijayawardene, N.N., Bahkali, A.H., Mortimer, P.E., Xu, J.C. & Hyde, K.D. (2014) Revision of Phaeosphaeriaceae. Fungal Diversity 68:159–238.

https://doi.org/10.1007/s13225-014-0308-3

Phookamsak, R., Wanasinghe, D.N., Hongsanan, S., Phukhamsakda, C., Huang, S.K., Tennakoon, D.S., Norphanphoun, C., Camporesi, E., Bulgakov, T.S., Promputtha, I., Mortimer, P.E., Xu, J.C. & Hyde, K.D. (2017) Towards a natural classification of Ophiobolus and ophiobolus-like taxa; introducing three novel genera Ophiobolopsis, Paraophiobolus and Pseudoophiobolus in Phaeoshaeriaceae (Pleosporales). Fungal Diversity 87: 299–339.

https://doi.org/10.1007/s13225-017-0393-1

Phookamsak, R., Hyde, K.D., Jeewon, R., Bhat, D.J., Jones, E.B.J., Maharachchikumbura, S.S.N., Raspé, O., Karunarathna, S.C., Wanasinghe, D.N., Hongsanan, S., Doilom, M., Tennakoon, D.S., Machado, A.R., Firmino, A.L.,Ghosh, A., Karunarathna, A., Mešić, A., Dutta, A.K., Thongbai, B., Devadatha, B., Norphanphoun, C., Senwanna, C., Wei, D., Pem, D., Ackah, F.K., Wang, G.N., Jiang, H.B., Madrid, H., Lee, H.B., Goonasekara, I.D., Manawasinghe, I.S., Kušan, Cano, J., Gené, J., Li, J., Das, K., Acharya, K., Raj, K.N.A., Latha, K.P.D., Chethana, K.W.T., He, M.Q., Dueñas, M., Jadan, M., Martín, M.P., Samarakoon, M.C., Dayarathne, M.C., Raza, M., Park, M.S., Telleria, M.T., Chaiwan, N., Matočec, N., de Silva, N.I., Pereira, O.L., Singh, P.N., Manimohan, P., Uniyal, P., Shang, Q.J., Bhatt, R.P., Perera, R.H., Alvarenga, R.L.M., Nogal-Prata, S., Singh, S.K.,Vadthanarat, S., Oh, S.Y., Huang, S.K., Rana, S., Konta, S., Paloi, S., Jayasiri, S.C., Jeon, S.J., Mehmood, T., Gibertoni, T.B., Nguyen, T.T.T., Singh, U., Thiyagaraja, V., Sarma, V.V., Dong, W., Yu, X.D., Lu, Y.Z., Lim, Y.W., Chen, Y., Tkalčec, Z., Zhang, Z.F., Luo, Z.L., Daranagama, D.A., Thambugala, K.M., Tibpromma, S., Camporesi, E., Bulgakov, T., Dissanayake, A.J., Senanayake, I.C., Dai, D.Q., Tang, L.Z., Khan, S., Zhang, H., Promputtha, I., Cai, L., Chomnunti, P., Zhao, R.L., Lumyong, S., Boonmee, S., Wen, T.C., Mortimer, P.E. & Xu, J. (2019) Fungal diversity notes 929-1036: taxonomic and phylogenetic contributions on genera and species of fungal taxa. Fungal Diversity 95: 1–273.

https://doi.org/10.1007/s13225-019-00421-w

Posada, D. & Crandall, K.A. (1998) Modeltest: testing the model of DNA substitution. Bioinformatics 14: 817–818.

https://doi.org/10.1093/bioinformatics/14.9.817

Photita, W., Lumyong, S., Lumyong, P., Hyde, K.D. & McKenzie, E.H.C. (2002) Index of fungi described from the Musaceae. Mycotaxon 81: 491–503.

Quaedvlieg, W., Verkley, G.J.M., 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: 307–390.

https://doi.org/10.3114/sim0017

Rambaut, A. (2012) FigTree version 1.4.0. Available from: http://tree.bio.ed.ac.uk/software/figtree/ (accessed 10 January 2019).

Rannala, B. & Yang, Z. (1996) Probability distribution of molecular evolutionary trees: a new method of phylogenetic inference. Journal of Molecular Evolution 43: 304–311.

https://doi.org/10.1007/BF02338839

Rehner, S.A. & Samuels, G.J. (1994) Taxonomy and phylogeny of Gliocladium analysed from nuclear large subunit ribosomal DNA sequences. Mycological Research 98: 625–634.

https://doi.org/10.1016/S0953-7562(09)80409-7

Rehner, S. (2001) Primers for Elongation Factor 1-α (EF1-α).

Sawada, K. (1959) Descriptive catalogue of Taiwan (Formosan) fungi. PartXI. Special Publication of the College of Agriculture, National Taiwan University 8: 1–268.

Shoemaker, R.A. & Babcock, C.E. (1989) Phaeosphaeria. Canadian Journal of Botany 67: 1500–1599.

https://doi.org/10.1139/b89-199

Stamatakis, A., Hoover, P. & Rougemont, J. (2008) A rapid bootstrap algorithm for the RAxML web servers. Systematic Biology 57: 758–771.

https://doi.org/10.1080/10635150802429642

Stamatakis, A. (2014) RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics 30: 1312–1313.

https://doi.org/10.1093/bioinformatics/btu033

Swofford, D.L. (2002) PAUP: phylogenetic analysis using parsimony, version 4.0 b10. Sinauer Associates, Sunderland.

Tanaka, K., Hirayama, K., Yonezawa, H., Sato, G., Toriyabe, A., Kudo, H., Hashimoto, A., Matsumura, M., Harada, Y., Kurihara, Y. & Shirouzu, T. (2015) Revision of the Massarineae (Pleosporales, Dothideomycetes). Studies in Mycology 82: 75–136.

https://doi.org/10.1016/j.simyco.2015.10.002

Taylor, J.W., Jacobson, D.J., Kroken, S., Kasuga, T., Geiser, D.M., Hibbett, D.S. & Fisher, M.C. (2000) Phylogenetic species recognition and species concepts in fungi. Fungal Genetics and Biology 31: 21–32.

https://doi.org/10.1006/fgbi.2000.1228

Tennakoon, D.S., Jeewon, R., Kuo, C.H. & Hyde, K.D. (2018) Phylogenetic and morphological characterization of Byssosphaeria macarangae sp. nov., and B. taiwanense sp. nov. from Macaranga tanarius. Phytotaxa 364: 211–226.

https://doi.org/10.11646/phytotaxa.364.3.1

Thambugala, K.M., Camporesi, E., Ariyawansa, H.A., Phookamsak, R., Liu, Z.Y. & Hyde, K.D. (2014). Phylogeny and morphology of Phaeosphaeriopsis triseptata sp. nov., and Phaeosphaeriopsis glaucopunctata. Phytotaxa 176: 238–250.

https://doi.org/10.11646/phytotaxa.176.1.23

Tibpromma, S., Hyde, K.D., Jeewon, R., Maharachchikumbura, S.S.N., Liu, J.K., Bhat, D.J., McKenzie, E.H.C, Jones, E.B.G., Camporesi, E., Bulgakov, T.S., Doilom, M., de Azevedo Santiago, A.L.C.M., Das, K., Manimohan, P., Gibertoni, T.B., Lim, Y.W., Ekanayaka, A.H., Thongbai, B., Lee, H.B., Yang, J.B., Kirk, P.M., Sysouphanthong, P., Singh, S.K., Boonmee, S., Dong, W., Raj, K.N.A., Latha, K.P.D., Phookamsak, R., Phukhamsakda, C., Tennakoon, D.S., Li, J., Dayarathne, M.J., Perera, R.H., Xiao, Y., Wanasinghe, D.N., Senanayake, I.C., Goonasekara, I.D., de Silva, N.I., Mapook, A., Jayawardena, R.S., Dissanayake, A.J., Manawasinghe, I.S., Chethana, K.W.T., Luo, Z.L., Hapuarachchi, K.K., Baghela, A., Soares, A.M., Vizzini, A., Meiras-Ottoni, A., Mesic, A., Dutta, A.K., de Souza, C.A.F., Richter, C., Lin, C.G., Chakrabarty, D., Daranagama, D.A., Lima, D.X., Chakraborty, D., Ercole, E., Wu, F., Simonini, G., Vasquez, G., da Silva, G.A., Plautz, Jr. H.L.P., Ariyawansa, H.A., Lee, H., Kusan, I., Song, J., Sun, J., Karmakar, J., Hu, K., Semwal, K.C., Thambugala, K.M., Voigt, K., Acharya, K., Rajeshkumar, K.C., Ryvarden, L., Jadan, M., Hosen, M.I., Miksýk, M., Samarakoon, M.C., Wijayawardene, N.N., Kim, N.K., Matocec, N., Singh, P.N., Tian, Q., Bhatt, R.P., Jose, R., de Oliveira, V., Tulloss, R.E., Aamir, S., Kaewchai, S., Marathe, S.D., Khan, S., Hongsanan, S., Adhikari, S., Mehmood, T., Bandyopadhyay, T.K., Nguyen, T.T.T., Antonýn, V., Li, W.J., Wang, Y., Indoliya, Y., Tkalcec, Z., Elgorban, A.M., Bahkali, A.H., Tang, A.M.C., Su, H.Y., Zhang, H., Promputtha, I., Luangsaard, J., Xu, J., Yan, J., Ji-Chuan, K., Stadler, M., Mortimer, P.T., Chomnunti, P., Zhao, Q., Phillips, A.J.L., Nontachaiyapoom, S., Wen, T.C. & Karunarathna, S.C. (2017) Fungal diversity notes 491–602: taxonomic and phylogenetic contributions to fungal taxa. Fungal Diversity 43: 1–261.

https://doi.org/10.1007/s13225-017-0378-0

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

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., Savic, S.T. & Karunarathna, S.C. (2018) Fungal diversity notes 709–838: 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

Wang, H.K., Aptroot, A., Crous, P.W., Jeewon, R. & Hyde, K.D. (2007) The polyphyletic nature of Pleosporales: an example from Massariosphaeria based on rDNA and RBP2 gene phylogenies. Mycological Research 111: 1268–1276.

https://doi.org/10.1016/j.mycres.2007.08.014

White, T.J., Bruns, T., Lee, S.J.W.T. & Taylor, J.W. (1990) Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. PCR protocols: a guide to methods and applications 18: 315–322.

https://doi.org/10.1016/B978-0-12-372180-8.50042-1

Wijayawardene NN, Hyde KD, Lumbsch HT, Liu JK, Maharachchikumbura SSN, Ekanayaka AH, Tian, Q. & Phookamsak, R. (2018) Outline of Ascomycota. Fungal Diversity 88: 167–263.

https://doi.org/10.1007/s13225-018-0394-8

Yang, C.L., Xu, X.L., Wanasinghe, D.N., Jeewon, R., Phookamsak, R., Liu, Y.G., Liu, L.J. & Hyde, K.D. (2019) Neostagonosporellasichuanensis gen. et sp. nov. (Phaeosphaeriaceae, Pleosporales) on Phyllostachysheteroclada (Poaceae) from Sichuan Province, China. MycoKeys 46: 119–150.

https://doi.org/10.3897/mycokeys.46.32458

Zhang, Y., Crous, P.W., Schoch, C.L. & Hyde, K.D. (2012) Pleosporales. Fungal Diversity 52: 1–225.

https://doi.org/10.1007/s13225-011-0117-x

Zhang, Z.F., Liu, F., Zhou, X., Liu, X.Z., Liu, S.J. & Cai, L. (2017) Culturable mycobiota from Karst caves in China, with descriptions of 20 new species. Persoonia 39: 1–31.

https://doi.org/10.3767/persoonia.2017.39.01

Zhaxybayeva, O. & Gogarten, J.P. (2002) Bootstrap, Bayesian probability and maximum likelihood mapping: exploring new tools for comparative genome analyses. BMC Genomics 3, 4.

https://doi.org/10.1186/1471-2164-3-4


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