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The phoma-like dilemma.

L W Hou1,2, J Z Groenewald3, L H Pfenning4

  • 1State Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100101, China.

Studies in Mycology
|September 9, 2020
PubMed
Summary
This summary is machine-generated.

This study redefines fungal taxonomy within the Didymellaceae family, introducing new genera and species. The research emphasizes the rpb2 gene as a key marker for identifying these widespread fungi.

Keywords:
Al. anatii L.W. Hou & O. YardenAllophomaalba L.W. Hou, Pfenning, L. Cai & CrousAmphisphaeria vincetoxici De Not.As. koolunga (J.A. Davidson et al.) L.W. Hou, L. Cai & CrousAscochyta ferulae Pat.Ascochyta nobilis Kabát & BubákAscochytaastragalina (Rehm ex Sacc.) L.W. Hou, L. Cai & CrousAscochytapilosella L.W. Hou, L. Cai & CrousCalophomaparvula L.W. Hou, L. Cai & CrousCalophomavincetoxici (De Not.) L.W. Hou, L. Cai & CrousChaetasbolisiaargentina L.W. Hou, L. Cai & CrousChaetasbolisiaeupatorii (Died.) L.W. Hou, L. Cai & CrousDid. guttulata L.W. Hou, L. Cai & CrousDid. indica L.W. Hou, L. Cai & CrousDid. mitis L.W. Hou, L. Cai & CrousDid. prolaticolla L.W. Hou, L. Cai & CrousDid. prosopidis (Crous & A.R. Wood) L.W. Hou, L. Cai & CrousDid. subglobispora L.W. Hou, L. Cai & CrousDid. subrosea L.W. Hou, L. Cai & CrousDid. variabilis L.W. Hou, L. Cai & CrousDidymellaaloeicola L.W. Hou, L. Cai & CrousDidymellacombreti (Crous) L.W. Hou, L. Cai & CrousDimorphoma L.W. Hou, L. Cai & CrousDimorphomasaxea (Aveskamp et al.) L.W. Hou, L. Cai & CrousEctodidymella L.W. Hou, L. Cai & CrousEctodidymellanigrificans (P. Karst.) L.W. Hou, L. Cai & CrousEctophomainsulana (Mont.) L.W. Hou, L. Cai & CrousEp. dickmanii L.W. Hou & O. YardenEp. longiostiolatum L.W. Hou, L. Cai & CrousEp. multiceps L.W. Hou, L. Cai & CrousEp. oryzae Ito & IwadareEp. polychromum L.W. Hou, L. Cai & CrousEp. purpurascens Ehrenb.Ep. variabile L.W. Hou, L. Cai & CrousEpicoccum mezzettii Goid.Epicoccum oryzae S. Ito & IwadareEpicoccumbrahmansense L.W. Hou, L. Cai & CrousEpicoccumtobaicum (Szilv.) L.W. Hou, L. Cai & CrousHeterophoma verbasci-densiflori L.W. Hou, L. Cai & CrousLe. sisyrinchiicola L.W. Hou, L. Cai & CrousLeptosphaerulinaobtusispora L.W. Hou, L. Cai & CrousLo. vitalbae (Briard & Har.) L.W. Hou, L. Cai & CrousLongididymella L.W. Hou, L. Cai & CrousLongididymellaclematidis (Woudenb. et al.) L.W. Hou, L. Cai & CrousMa. terrestris L.W. Hou, L. Cai & CrousMacroascochyta L.W. Hou, L. Cai & CrousMacroascochytagrandis L.W. Hou, L. Cai & CrousMacroventuriaangustispora L.W. Hou, L. Cai & CrousMi. taxicola L.W. Hou, L. Cai & CrousMi. viridis L.W. Hou, L. Cai & CrousMicrosphaeropsisfusca L.W. Hou, L. Cai & CrousMulti-locus phylogenyNeoa. humicola L.W. Hou, L. Cai & CrousNeoa. longispora L.W. Hou, L. Cai & CrousNeoa. mortariensis L.W. Hou, L. Cai & CrousNeoascochytafusiformis L.W. Hou, L. Cai & CrousNeodidymelliopsistiliae L.W. Hou, L. Cai & CrousNew taxaNo. eucalyptigena (Crous) L.W. Hou, L. Cai & CrousNo. prosopidis (Crous & A.R. Wood) L.W. Hou, L. Cai & CrousNothophoma nullicana L.W. Hou, L. Cai & CrousNothophomaacaciae (Crous) L.W. Hou, L. Cai & CrousNothophomainfuscata L.W. Hou, L. Cai & CrousParamicrosphaeropsis L.W. Hou, L. Cai & CrousParamicrosphaeropsisellipsoidea L.W. Hou, L. Cai & CrousPhomaPhoma eupatorii DiedPhoma eupatorii Died.Phoma laurina Thüm., Phoma nemophilae Neerg.Phomatodespilosa L.W. Hou, L. Cai & CrousPhyllosticta acetosellae A.L. Sm. & Ramsb.Phyllosticta arachidis-hypogaeae V.G. RaoPhyllosticta insulana MontPhyllosticta verbascicola Ellis & Kellerm.Pleosphaerulina briosiana PollacciPseudopeyronellaea L.W. Hou, L. Cai & CrousPseudopeyronellaeaeucalypti (Crous & M.J. Wingf.) L.W. Hou, L. Cai & CrousR. humicola L.W. Hou, L. Cai & CrousRemotididymellabrunnea L.W. Hou, L. Cai & CrousRemotididymellacapsici (Bond.-Mont.) L.W. Hou, L. Cai & CrousSclerotiophoma L.W. Hou, L. Cai & CrousSclerotiophomaversabilis (Boerema et al.) L.W. Hou, L. Cai & CrousSt. sambucella L.W. Hou, L. Cai & CrousStagonosporopsiscucumeris L.W. Hou, L. Cai & CrousStagonosporopsisnemophilae (Neerg). L.W. Hou, L. Cai & CrousTaxonomyToruloidea tobaica SzilvVa. laurina (Thüm.) L.W. Hou, L. Cai & CrousVacuiphomaferulae (Pat.) L.W. Hou, L. Cai & CrousXenodidymellaglycyrrhizicola L.W. Hou, L. Cai & Crousrpb2

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Area of Science:

  • Mycology
  • Fungal Taxonomy
  • Phylogenetics

Background:

  • The family Didymellaceae has a global distribution and includes plant pathogens, endophytes, and clinically relevant species.
  • Previous revisions of Didymellaceae relied on limited data, necessitating a broader phylogenetic and morphological re-evaluation.
  • Key genera like Ascochyta, Didymella, and Phoma required redefinition due to poly- and paraphyletic classifications.

Purpose of the Study:

  • To conduct the most extensive sampling of Didymellaceae to date, encompassing 1,124 strains from diverse global sources.
  • To refine the taxonomy of Didymellaceae through multi-locus phylogenetic analyses and detailed morphological comparisons.
  • To identify new genera, species, and establish epitypes/neotypes for taxonomic stability.

Main Methods:

  • Multi-locus phylogenetic analyses using LSU, ITS, rpb2, and tub2 gene data.
  • Detailed morphological comparisons of 1,124 Didymellaceae isolates from 92 countries and varied substrates.
  • DNA sequencing and phylogenetic tree construction for robust taxonomic placement.

Main Results:

  • Introduction of seven new genera, 40 new species, and 21 new combinations within Didymellaceae.
  • Designation of six epitypes and six neotypes to stabilize nomenclature.
  • Development of a comprehensive, multi-locus reference phylogenetic tree for the family.

Conclusions:

  • The study significantly expands the known diversity and taxonomic framework of Didymellaceae.
  • The rpb2 gene is identified as the most effective locus for species-level identification within Didymellaceae.
  • This research provides a stable taxonomic foundation and a valuable resource for future studies on this important fungal family.