Schoch, C.L.Crous, Pedro W.Groenewald, Johannes ZachariasBoehm, E.W.A.Burgess, Treena I.De Gruyter, J.De Hoog, G. SybrenDixon, L.J.Grube, M.Gueidan, C.Harada, Y.Hatakeyama, S.Hirayama, K.Hosoya, T.Huhndorf, S.M.Hyde, Kevin D.Jones, E.B.G.Kohlmeyer, J.Kruys, A.Li, Y.M.Lucking, R.Lumbsch, H. ThorstenMarvanova, L.Mbatchou, J.S.McVay, A.H.Miller, A.N.Mugambi, G.K.Muggia, L.Nelsen, M.P.Nelson, P.Owensby, C.A.Phillips, A.J.L.Phongpaichit, S.Pointing, Stephen B.Pujade-Renaud, V.Raja, H.A.Rivas Plata, E.Robbertse, BarbaraRuibal, C.Sakayaroj, J.Sano, T.Selbmann, L.Shearer, C.A.Shirouzu, T.Slippers, BernardSuetrong, S.Tanaka, K.Volkmannkohlmeyer, B.Wingfield, Michael J.Wood, A.R.Woudenberg, J.H.C.Yonezawa, H.Zhang, YongSpatafora, J.W.2010-04-062010-04-062009Schoch, CL, Crous, PW, Groenewald, JZ, Boehm, EWA, Burgess, TI, De Gruyter, J, De 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, A, Li, YM, Lucking, R, Lumbsch, HT, Marvanova, 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, Volkmannkohlmeyer, B, Wingfield, MJ, Wood, AR, Woudenberg, JHC, Yonezawa, H, Zhang, Y & Spatafora, JW 2009, 'A class-wide phylogenetic assessment of Dothideomycetes', Studies in Mycology, vol. 64, pp. 1-15. [http://www.studiesinmycology.org]0166-061610.3114/sim.2009.64.01http://hdl.handle.net/2263/13787We present a comprehensive phylogeny derived from 5 genes, nucSSU, nucLSU rDNA, TEF1, RPB1 and RPB2, for 356 isolates and 41 families (six newly described in this volume) in Dothideomycetes. All currently accepted orders in the class are represented for the first time in addition to numerous previously unplaced lineages. Subclass Pleosporomycetidae is expanded to include the aquatic order Jahnulales. An ancestral reconstruction of basic nutritional modes supports numerous transitions from saprobic life histories to plant associated and lichenised modes and a transition from terrestrial to aquatic habitats are confirmed. Finally, a genomic comparison of 6 dothideomycete genomes with other fungi finds a high level of unique protein associated with the class, supporting its delineation as a separate taxon.enCopyright 2009 CBS-KNAW Fungal Biodiversity Centre, P.O. Box 85167, 3508 AD Utrecht, The Netherlands. You are free to share - to copy, distribute and transmit the work, under the following conditions: Attribution: You must attribute the work in the manner specified by the author or licensor (but not in any way that suggests that they endorse you or your use of the work). Non-commercial: You may not use this work for commercial purposes. No derivative works: You may not alter, transform, or build upon this work. For any reuse or distribution, you must make clear to others the license terms of this work, which can be found at http://creativecommons.org/licenses/by-nc-nd/3.0/legalcode. Any of the above conditions can be waived if you get permission from the copyright holder. Nothing in this license impairs or restricts the author’s moral rights.DothideomycetaPlant pathogensFungi -- PhylogenyAscomycetes -- PhylogenyLichensArticle