A class-wide phylogenetic assessment of Dothideomycetes

Schoch, Conrad L.; Crous, Pedro W.; Groenewald, Johannes Z.; Boehm, E. W. A.; Burgess, Treena I.; Gruyter, J. de; Hoog, G. S. de; Dixon, L. J.; Grube, Martín; Gueidan, Cécile; Harada, Yukio; Hatakeyama, Satoshi; Hirayama, Kazuyuki; Hosoya, Tsuyoshi; Huhndorf, Sabine M.; Hyde, Kevin D.; Jones, E. B. Gareth; Kohlmeyer, Jan; Kruys, Åsa; Li, Y. M.; Lücking, Robert; Lumbsch, H. Thorsten; Marvanová, Ludmila; Mbatchou, Joelle; McVay, AnalysisDavid; Miller, Andrew N.; Mugambi, George K.; Muggia, Lucía; Nelsen, Matthew P.; Nelson, Peggy B.; Owensby, C. Alisha; Phillips, Alan J. L.; Phongpaichit, Souwalak; Pointing, Stephen B.; Pujade-Renaud, Valérie; Raja, Huzefa A.; Plata, Eimy Rivas; Robbertse, Barbara; Ruibal, Constantino; Sakayaroj, Jariya; Shimmen, Teruo; Selbmann, Laura; Shearer, Carol A.; Shirouzu, Takashi; Slippers, Bernard; Suetrong, Satinee; Tanaka, Kazuaki; Volkmann‐Kohlmeyer, Brigitte; Wingfield, Michael J.; Wood, Alan R.; Woudenberg, J.H.C.; Yonezawa, Hiroaki; Zhang, Y.; Spatafora, Joseph W.

doi:10.3114/sim.2009.64.01

Cited by 501 publications

(428 citation statements)

References 85 publications

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“…A recent class-level multigene phylogenetic analysis of the Dothideomycetes (Schoch et al 2009) reaffirmed placement of Alternaria in the Pleosporales, a group heavily represented by phytopathogens. Disease reports and isolation records indicate discontinuous distribution of some phytopathogenic species of Alternaria (Farr and Rossman 2010;Simmons 2007) and in such cases these species may be considered exotic by an importing country and therefore subject to official regulation by that country (Anonymous 1995).…”

Section: Introductionmentioning

confidence: 99%

Differential gene expression in Alternaria gaisen exposed to dark and light

2011

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Character states during sporulation have been used to segregate and describe many small-spored species of Alternaria, but some are not supported by published phylogenetic analyses. The conidiation response of Alternaria gaisen was characterized by selective subtractive hybridization of cDNA produced from cultures of A. gaisen grown either in total darkness or in total darkness followed by scarification and 24 h exposure to light. Transcripts or their translation products were identified using BLAST. Multiple transcripts with similarity to ORF-1 of the AM-toxin gene were obtained from the light library. L152 is a full reading frame EST in the light library whose ORF translation has similarity to the conserved domain aegerolysin (pfam06355). A set of 11 ex-type or representative isolates including A. alternata, A. gaisen, A. yaliinficiens, A. arborescens, A. tenuissima and A. brassicicola were resolved by UPGMA analysis of a partial genomic sequence (415-425 base pairs) of L152, but were not resolved by a similar analysis of ITS sequences. Furthermore, the resolved lineages of the L152 dataset were reflective of the diversity previously hypothesized by morphological evaluations of sporulation patterns. Although the ITS rDNA sequence region is generally accepted as the most likely candidate for fungal barcoding, the analysis of L152 sequences presented here resolved closely related species or species groups where other loci, including ITS, have not. Based on these results, the sequences of putative aegerolysin homologs were variable, parsimonyinformative and warrant additional analyses with a broader isolate set including related genera and species.

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Section: Introductionmentioning

confidence: 99%

Differential gene expression in Alternaria gaisen exposed to dark and light

2011

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“…Meanwhile, Dothideomycetes comprised only 15.87% and 6.77% of the classes detected in the Seodo and Ulleungdo samples, respectively. Most members of Dothideomycetes have endophytic and/or saprophytic characteristics; however, some have been characterized as plant pathogens (Hane et al, 2007;Schoch et al, 2009). Two additional classes of Ascomycota, Eurotiomycetes and Sordariomycetes, which include pathogenic fungal species (Hedeler et al, 2007), were more abundant in the Dongdo (Eurotiomycetes, 7.91%; Sordariomycetes, 15.55%) and Seodo (Eurotiomycetes, 5.23%; Sordariomycetes, 17.35%) samples than in the Ulleungdo sample (Eurotiomycetes, 1.23%; Sordariomycetes,6.19%).…”

Section: Archaeorhizomycetesmentioning

confidence: 99%

Metagenomic analysis of soil fungal communities on Ulleungdo and Dokdo Islands

Nam

Kim

Lee

et al. 2015

J. Gen. Appl. Microbiol.

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Ulleungdo and Dokdo are volcanic islands that experience a characteristic marine climate, influenced by warm currents. The richness and diversity of the plant species, particularly vascular plants, are higher on Ulleungdo than on Dokdo. In contrast to the native plant life, little is known about the diversity of soil fungi living in the rhizosphere of these two islands. In this study, we utilized the barcoded pyrosequencing method to analyze rhizosphere soil fungi on Ulleungdo and Dokdo. In total, 768 operational taxonomic units (OTUs) were analyzed from the Ulleungdo samples, while 640 OTUs and 382 OTUs were analyzed from the Dongdo and Seodo (islets of Dokdo) samples, respectively. Species richness was considerably higher in the Ulleungdo samples than in the Dongdo and Seodo samples, while there was little difference in species diversity between the samples. The taxonomic composition analyses demonstrated that members of the phylum Basidiomycota dominated the Ulleungdo samples, whereas members of the phylum Ascomycota were predominant in the Dokdo samples. Ectomycorrhizal fungi belonging to the phylum Basidiomycota, in particular, were more abundant in the Ulleungdo samples. This finding suggests that the difference in the abundance of the ectomycorrhizal fungi in the rhizospheres of Ulleungdo and Dokdo may have been affected by species richness and diversity of the vascular plants. Our study is the first detailed report of the composition of soil fungal communities on the Ulleungdo and Dokdo islands. In addition, our findings provide a basis for understanding the ecological interactions between plants and fungi.

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“…Schoch et al (2009) provided a single strain of Microthyrium microscopicum (type species of Microthyriaceae) which represented the order Microthyriales as a long branch sister to Stomiopeltis betulae (considered as Micropeltidaceae) in phylogenetic trees (Wu et al 2011, Hyde et al 2013. Micropeltis zingiberacicola, Neomicrothyrium siamense, Paramicrothyrium chinensis and Stomiopeltis versicolor were introduced to accommodate as Microthyriaceae-like taxa, but they did not cluster with Microthyrium microscopicum in the phylogenetic tree (Wu et al 2011).…”

Section: Introductionmentioning

confidence: 99%

Phylogenetic placement of Micropeltidaceae

Hongsanan¹

2017

Mycosphere

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Abstract"Microthyriaceae-like" taxa are fungal epiphytes which appear as black dots on the host surface. The families Micropeltidaceae and Microthyriaceae have been poorly studied, particularly with molecular data, due to the difficulty in obtaining pure cultures. The two families were placed in Microthyriales in many studies based on thyriothecial characters. Two species of Micropeltidaceae (Micropeltis dendrophthoes and M. zingiberacicola ) clustered at the base of Dothideomycetes and were unrelated to Microthyriaceae in previous phylogenetic trees. Their placements were treated as unresolved. We restudied sequence data of Micropeltidaceae and its related strains to clarify the current placement using authentic strains available in GenBank. Phylogenetic analyses generated from maximum likelihood and Bayesian analyses (used ITS, LSU, RPB2, SSU and TEF1 sequence data) including Blast results, indicate that the current placement of Micropeltidaceae is in Ostropales (Lecanoromycetes), although it is not strongly supported. A revised phylogenetic tree for Micropeltidaceae and selected families from Dothideomycetes, Eurotiomycetes, Lecanoromycetes, Leotiomycetes and Sordariomycetes is provided with discussions in this paper.

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A class-wide phylogenetic assessment of Dothideomycetes

Cited by 501 publications

References 85 publications

Differential gene expression in Alternaria gaisen exposed to dark and light

Differential gene expression in Alternaria gaisen exposed to dark and light

Metagenomic analysis of soil fungal communities on Ulleungdo and Dokdo Islands

Phylogenetic placement of Micropeltidaceae

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