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Narh Mensah DL, Wingfield BD, Coetzee MPA. Two distinct non-ribosomal peptide synthetase-independent siderophore synthetase gene clusters identified in Armillaria and other species in the Physalacriaceae. G3 (BETHESDA, MD.) 2023; 13:jkad205. [PMID: 37843963 PMCID: PMC10700112 DOI: 10.1093/g3journal/jkad205] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/26/2023] [Accepted: 08/28/2023] [Indexed: 10/18/2023]
Abstract
Siderophores are important for ferric iron solubilization, sequestration, transportation, and storage, especially under iron-limiting conditions such as aerobic conditions at high pH. Siderophores are mainly produced by non-ribosomal peptide synthetase-dependent siderophore pathway, non-ribosomal peptide synthetase-independent siderophore synthetase pathway, or the hybrid non-ribosomal peptide synthetases/non-ribosomal peptide synthetases-independent siderophore pathway. Outcompeting or inhibition of plant pathogens, alteration of host defense mechanisms, and alteration of plant-fungal interactions have been associated with fungal siderophores. To understand these mechanisms in fungi, studies have been conducted on siderophore biosynthesis by ascomycetes with limited focus on the basidiomycetes. Armillaria includes several species that are pathogens of woody plants and trees important to agriculture, horticulture, and forestry. The aim of this study was to investigate the presence of non-ribosomal peptide synthetases-independent siderophore synthetase gene cluster(s) in genomes of Armillaria species using a comparative genomics approach. Iron-dependent growth and siderophore biosynthesis in strains of selected Armillaria spp. were also evaluated in vitro. Two distinct non-ribosomal peptide synthetases-independent siderophore synthetase gene clusters were identified in all the genomes. All non-ribosomal peptide synthetases-independent siderophore synthetase genes identified putatively encode Type A' non-ribosomal peptide synthetases-independent siderophore synthetases, most of which have IucA_IucC and FhuF-like transporter domains at their N- and C-terminals, respectively. The effect of iron on culture growth varied among the strains studied. Bioassays using the CAS assay on selected Armillaria spp. revealed in vitro siderophore biosynthesis by all strains irrespective of added FeCl3 concentration. This study highlights some of the tools that Armillaria species allocate to iron homeostasis. The information generated from this study may in future aid in developing molecular based methods to control these phytopathogens.
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Affiliation(s)
- Deborah L Narh Mensah
- Departments of Biochemistry, Genetics and Microbiology, Forestry and Agricultural Biotechnology Institute (FABI), Faculty of Natural and Agricultural Sciences, University of Pretoria, Pretoria 0002, South Africa
- CSIR—Food Research Institute, Microbiology and Mushroom Research Division, P. O. Box, M20, Accra, Ghana
| | - Brenda D Wingfield
- Departments of Biochemistry, Genetics and Microbiology, Forestry and Agricultural Biotechnology Institute (FABI), Faculty of Natural and Agricultural Sciences, University of Pretoria, Pretoria 0002, South Africa
| | - Martin P A Coetzee
- Departments of Biochemistry, Genetics and Microbiology, Forestry and Agricultural Biotechnology Institute (FABI), Faculty of Natural and Agricultural Sciences, University of Pretoria, Pretoria 0002, South Africa
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Pereira DS, Hilário S, Gonçalves MFM, Phillips AJL. Diaporthe Species on Palms: Molecular Re-Assessment and Species Boundaries Delimitation in the D. arecae Species Complex. Microorganisms 2023; 11:2717. [PMID: 38004729 PMCID: PMC10673533 DOI: 10.3390/microorganisms11112717] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2023] [Revised: 10/25/2023] [Accepted: 11/03/2023] [Indexed: 11/26/2023] Open
Abstract
Due to cryptic diversification, phenotypic plasticity and host associations, multilocus phylogenetic analyses have become the most important tool in accurately identifying and circumscribing species in the Diaporthe genus. However, the application of the genealogical concordance criterion has often been overlooked, ultimately leading to an exponential increase in novel Diaporthe spp. Due to the large number of species, many lineages remain poorly understood under the so-called species complexes. For this reason, a robust delimitation of the species boundaries in Diaporthe is still an ongoing challenge. Therefore, the present study aimed to resolve the species boundaries of the Diaporthe arecae species complex (DASC) by implementing an integrative taxonomic approach. The Genealogical Phylogenetic Species Recognition (GCPSR) principle revealed incongruences between the individual gene genealogies. Moreover, the Poisson Tree Processes' (PTPs) coalescent-based species delimitation models identified three well-delimited subclades represented by the species D. arecae, D. chiangmaiensis and D. smilacicola. These results evidence that all species previously described in the D. arecae subclade are conspecific, which is coherent with the morphological indistinctiveness observed and the absence of reproductive isolation and barriers to gene flow. Thus, 52 Diaporthe spp. are reduced to synonymy under D. arecae. Recent population expansion and the possibility of incomplete lineage sorting suggested that the D. arecae subclade may be considered as ongoing evolving lineages under active divergence and speciation. Hence, the genetic diversity and intraspecific variability of D. arecae in the context of current global climate change and the role of D. arecae as a pathogen on palm trees and other hosts are also discussed. This study illustrates that species in Diaporthe are highly overestimated, and highlights the relevance of applying an integrative taxonomic approach to accurately circumscribe the species boundaries in the genus Diaporthe.
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Affiliation(s)
- Diana S. Pereira
- Faculdade de Ciências, Biosystems and Integrative Sciences Institute (BioISI), Universidade de Lisboa, Campo Grande, 1749-016 Lisboa, Portugal;
| | - Sandra Hilário
- Interdisciplinary Centre of Marine and Environmental Research (CIIMAR), Terminal de Cruzeiros do Porto de Leixões, Av. General Norton de Matos s/n, 4450-208 Porto, Portugal;
- Faculty of Sciences, Biology Department, University of Porto, Rua do Campo Alegre, Edifício FC4, 4169-007 Porto, Portugal
| | - Micael F. M. Gonçalves
- Faculty of Sciences, Biology Department, University of Porto, Rua do Campo Alegre, Edifício FC4, 4169-007 Porto, Portugal
- Centre for Environmental and Marine Studies, Department of Biology, Campus Universitário de Santiago, University of Aveiro, 3810-193 Aveiro, Portugal
| | - Alan J. L. Phillips
- Faculdade de Ciências, Biosystems and Integrative Sciences Institute (BioISI), Universidade de Lisboa, Campo Grande, 1749-016 Lisboa, Portugal;
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Narh Mensah DL, Wingfield BD, Coetzee MPA. Nonribosomal peptide synthetase gene clusters and characteristics of predicted NRPS-dependent siderophore synthetases in Armillaria and other species in the Physalacriaceae. Curr Genet 2023; 69:7-24. [PMID: 36369495 DOI: 10.1007/s00294-022-01256-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2022] [Revised: 10/14/2022] [Accepted: 10/18/2022] [Indexed: 11/13/2022]
Abstract
Fungal secondary metabolites are often pathogenicity or virulence factors synthesized by genes contained in secondary metabolite gene clusters (SMGCs). Nonribosomal polypeptide synthetase (NRPS) clusters are SMGCs which produce peptides such as siderophores, the high affinity ferric iron chelating compounds required for iron uptake under aerobic conditions. Armillaria spp. are mostly facultative necrotrophs of woody plants. NRPS-dependent siderophore synthetase (NDSS) clusters of Armillaria spp. and selected Physalacriaceae were investigated using a comparative genomics approach. Siderophore biosynthesis by strains of selected Armillaria spp. was evaluated using CAS and split-CAS assays. At least one NRPS cluster and other clusters were detected in the genomes studied. No correlation was observed between the number and types of SMGCs and reported pathogenicity of the species studied. The genomes contained one NDSS cluster each. All NDSSs were multi-modular with the domain architecture (ATC)3(TC)2. NDSS clusters of the Armillaria spp. showed a high degree of microsynteny. In the genomes of Desarmillaria spp. and Guyanagaster necrorhizus, NDSS clusters were more syntenic with NDSS clusters of Armillaria spp. than to those of the other Physalacriaceae species studied. Three A-domain orthologous groups were identified in the NDSSs, and atypical Stachelhaus codes were predicted for the A3 orthologous group. In vitro biosynthesis of mainly hydroxamate and some catecholate siderophores was observed. Hence, Armillaria spp. generally contain one highly conserved, NDSS cluster although some interspecific variations in the products of these clusters is expected. Results from this study lays the groundwork for future studies to elucidate the molecular biology of fungal phyto-pathogenicity.
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Affiliation(s)
- Deborah L Narh Mensah
- Departments of Biochemistry, Genetics and Microbiology, Forestry and Agricultural Biotechnology Institute (FABI), Faculty of Natural and Agricultural Sciences, University of Pretoria, Pretoria, South Africa.,Council for Scientific and Industrial Research-Food Research Institute (CSIR-FRI), P. O. Box M20, Accra, Ghana
| | - Brenda D Wingfield
- Departments of Biochemistry, Genetics and Microbiology, Forestry and Agricultural Biotechnology Institute (FABI), Faculty of Natural and Agricultural Sciences, University of Pretoria, Pretoria, South Africa
| | - Martin P A Coetzee
- Departments of Biochemistry, Genetics and Microbiology, Forestry and Agricultural Biotechnology Institute (FABI), Faculty of Natural and Agricultural Sciences, University of Pretoria, Pretoria, South Africa.
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Wingfield BD, Berger DK, Coetzee MPA, Duong TA, Martin A, Pham NQ, van den Berg N, Wilken PM, Arun-Chinnappa KS, Barnes I, Buthelezi S, Dahanayaka BA, Durán A, Engelbrecht J, Feurtey A, Fourie A, Fourie G, Hartley J, Kabwe ENK, Maphosa M, Narh Mensah DL, Nsibo DL, Potgieter L, Poudel B, Stukenbrock EH, Thomas C, Vaghefi N, Welgemoed T, Wingfield MJ. IMA genome‑F17 : Draft genome sequences of an Armillaria species from Zimbabwe, Ceratocystis colombiana, Elsinoë necatrix, Rosellinia necatrix, two genomes of Sclerotinia minor, short‑read genome assemblies and annotations of four Pyrenophora teres isolates from barley grass, and a long-read genome assembly of Cercospora zeina. IMA Fungus 2022; 13:19. [PMID: 36411457 PMCID: PMC9677705 DOI: 10.1186/s43008-022-00104-3] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 09/30/2022] [Indexed: 11/22/2022] Open
Affiliation(s)
- Brenda D. Wingfield
- grid.49697.350000 0001 2107 2298Department of Biochemistry, Genetics and Microbiology, Faculty of Natural and Agricultural Sciences, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, South Africa
| | - Dave K. Berger
- grid.49697.350000 0001 2107 2298Department of Plant and Soil Sciences, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, 0028 South Africa
| | - Martin P. A. Coetzee
- grid.49697.350000 0001 2107 2298Department of Biochemistry, Genetics and Microbiology, Faculty of Natural and Agricultural Sciences, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, South Africa
| | - Tuan A. Duong
- grid.49697.350000 0001 2107 2298Department of Biochemistry, Genetics and Microbiology, Faculty of Natural and Agricultural Sciences, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, South Africa
| | - Anke Martin
- grid.1048.d0000 0004 0473 0844Centre for Crop Health, University of Southern Queensland, Toowoomba, QLD 4350 Australia
| | - Nam Q. Pham
- grid.49697.350000 0001 2107 2298Department of Plant and Soil Sciences, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, 0028 South Africa
| | - Noelani van den Berg
- grid.49697.350000 0001 2107 2298Department of Biochemistry, Genetics and Microbiology, Faculty of Natural and Agricultural Sciences, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, South Africa
| | - P. Markus Wilken
- grid.49697.350000 0001 2107 2298Department of Biochemistry, Genetics and Microbiology, Faculty of Natural and Agricultural Sciences, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, South Africa
| | - Kiruba Shankari Arun-Chinnappa
- grid.1048.d0000 0004 0473 0844Centre for Crop Health, University of Southern Queensland, Toowoomba, QLD 4350 Australia ,PerkinElmer Pty Ltd., Level 2, Building 5, Brandon Business Park, 530‑540, Springvale Road, Glen Waverley, VIC 3150 Australia
| | - Irene Barnes
- grid.49697.350000 0001 2107 2298Department of Biochemistry, Genetics and Microbiology, Faculty of Natural and Agricultural Sciences, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, South Africa
| | - Sikelela Buthelezi
- grid.49697.350000 0001 2107 2298Department of Biochemistry, Genetics and Microbiology, Faculty of Natural and Agricultural Sciences, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, South Africa
| | | | - Alvaro Durán
- Plant Health Program, Research and Development, Asia Pacific Resources International Holdings Ltd. (APRIL), Pangkalan Kerinci, Riau 28300 Indonesia
| | - Juanita Engelbrecht
- grid.49697.350000 0001 2107 2298Department of Biochemistry, Genetics and Microbiology, Faculty of Natural and Agricultural Sciences, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, South Africa
| | - Alice Feurtey
- grid.419520.b0000 0001 2222 4708Environmental Genomics, Max Planck Institute for Evolutionary Biology, 24306 Plön, Germany ,grid.9764.c0000 0001 2153 9986Environmental Genomics, Christian-Albrechts University of Kiel, 24118 Kiel, Germany
| | - Arista Fourie
- grid.49697.350000 0001 2107 2298Department of Biochemistry, Genetics and Microbiology, Faculty of Natural and Agricultural Sciences, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, South Africa
| | - Gerda Fourie
- grid.49697.350000 0001 2107 2298Department of Biochemistry, Genetics and Microbiology, Faculty of Natural and Agricultural Sciences, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, South Africa
| | - Jesse Hartley
- grid.49697.350000 0001 2107 2298Department of Biochemistry, Genetics and Microbiology, Faculty of Natural and Agricultural Sciences, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, South Africa
| | - Eugene N. K. Kabwe
- grid.49697.350000 0001 2107 2298Department of Biochemistry, Genetics and Microbiology, Centre for Bioinformatics and Computational Biology, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, South Africa
| | - Mkhululi Maphosa
- grid.49697.350000 0001 2107 2298Department of Biochemistry, Genetics and Microbiology, Faculty of Natural and Agricultural Sciences, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, South Africa
| | - Deborah L. Narh Mensah
- grid.49697.350000 0001 2107 2298Department of Biochemistry, Genetics and Microbiology, Faculty of Natural and Agricultural Sciences, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, South Africa ,grid.423756.10000 0004 1764 1672CSIR, Food Research Institute, Accra, Ghana
| | - David L. Nsibo
- grid.49697.350000 0001 2107 2298Department of Plant and Soil Sciences, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, 0028 South Africa
| | - Lizel Potgieter
- grid.419520.b0000 0001 2222 4708Environmental Genomics, Max Planck Institute for Evolutionary Biology, 24306 Plön, Germany ,grid.9764.c0000 0001 2153 9986Environmental Genomics, Christian-Albrechts University of Kiel, 24118 Kiel, Germany
| | - Barsha Poudel
- grid.1048.d0000 0004 0473 0844Centre for Crop Health, University of Southern Queensland, Toowoomba, QLD 4350 Australia
| | - Eva H. Stukenbrock
- grid.419520.b0000 0001 2222 4708Environmental Genomics, Max Planck Institute for Evolutionary Biology, 24306 Plön, Germany ,grid.9764.c0000 0001 2153 9986Environmental Genomics, Christian-Albrechts University of Kiel, 24118 Kiel, Germany
| | - Chanel Thomas
- grid.49697.350000 0001 2107 2298Department of Biochemistry, Genetics and Microbiology, Faculty of Natural and Agricultural Sciences, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, South Africa
| | - Niloofar Vaghefi
- grid.1048.d0000 0004 0473 0844Centre for Crop Health, University of Southern Queensland, Toowoomba, QLD 4350 Australia ,grid.1008.90000 0001 2179 088XSchool of Agriculture and Food, University of Melbourne, Parkville, VIC 3010 Australia
| | - Tanya Welgemoed
- grid.49697.350000 0001 2107 2298Department of Biochemistry, Genetics and Microbiology, Centre for Bioinformatics and Computational Biology, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, South Africa
| | - Michael J. Wingfield
- grid.49697.350000 0001 2107 2298Department of Plant and Soil Sciences, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, 0028 South Africa
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Transcriptomics Reveals the Putative Mycoparasitic Strategy of the Mushroom Entoloma abortivum on Species of the Mushroom Genus Armillaria. mSystems 2021; 6:e0054421. [PMID: 34636668 PMCID: PMC8510539 DOI: 10.1128/msystems.00544-21] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022] Open
Abstract
During mycoparasitism, a fungus—the host—is parasitized by another fungus—the mycoparasite. The genetic underpinnings of these relationships have been best characterized in ascomycete fungi. However, within basidiomycete fungi, there are rare instances of mushroom-forming species parasitizing the reproductive structures, or sporocarps, of other mushroom-forming species, which have been rarely investigated on a genetic level. One of the most enigmatic of these occurs between Entoloma abortivum and species of Armillaria, where hyphae of E. abortivum are hypothesized to disrupt the development of Armillaria sporocarps, resulting in the formation of carpophoroids. However, it remains unknown whether carpophoroids are the direct result of a mycoparasitic relationship. To address the nature of this unique interaction, we analyzed gene expression of field-collected Armillaria and E. abortivum sporocarps and carpophoroids. Transcripts in the carpophoroids are primarily from E. abortivum, supporting the hypothesis that this species is parasitizing Armillaria. Most notably, we identified differentially upregulated E. abortivum β-trefoil-type lectins in the carpophoroid, which we hypothesize bind to Armillaria cell wall galactomannoproteins, thereby mediating recognition between the mycoparasite and the host. The most differentially upregulated E. abortivum transcripts in the carpophoroid code for oxalate decarboxylases—enzymes that degrade oxalic acid. Oxalic acid is a virulence factor in many plant pathogens, including Armillaria species; however, E. abortivum has evolved a sophisticated strategy to overcome this defense mechanism. The number of gene models and genes that code for carbohydrate-active enzymes in the E. abortivum transcriptome was reduced compared to other closely related species, perhaps as a result of the specialized nature of this interaction. IMPORTANCE By studying fungi that parasitize other fungi, we can understand the basic biology of these unique interactions. Studies focused on the genetic mechanisms regulating mycoparasitism between host and parasite have thus far concentrated on a single fungal lineage within the Ascomycota. The work presented here expands our understanding of mycoparasitic relationships to the Basidiomycota and represents the first transcriptomic study to our knowledge that examines fungal-fungal relationships in their natural setting. The results presented here suggest that even distantly related mycoparasites utilize similar mechanisms to parasitize their host. Given that species of the mushroom-forming pathogen Armillaria cause plant root-rot diseases in many agroecosystems, an enhanced understanding of this interaction may contribute to better control of these diseases through biocontrol applications.
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Kedves O, Shahab D, Champramary S, Chen L, Indic B, Bóka B, Nagy VD, Vágvölgyi C, Kredics L, Sipos G. Epidemiology, Biotic Interactions and Biological Control of Armillarioids in the Northern Hemisphere. Pathogens 2021; 10:pathogens10010076. [PMID: 33467216 PMCID: PMC7830283 DOI: 10.3390/pathogens10010076] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2020] [Revised: 01/13/2021] [Accepted: 01/14/2021] [Indexed: 12/11/2022] Open
Abstract
Armillarioids, including the genera Armillaria, Desarmillaria and Guyanagaster, represent white-rot specific fungal saprotrophs with soilborne pathogenic potentials on woody hosts. They propagate in the soil by root-like rhizomorphs, connecting between susceptible root sections of their hosts, and often forming extended colonies in native forests. Pathogenic abilities of Armillaria and Desarmillaria genets can readily manifest in compromised hosts, or hosts with full vigour can be invaded by virulent mycelia when exposed to a larger number of newly formed genets. Armillaria root rot-related symptoms are indicators of ecological imbalances in native forests and plantations at the rhizosphere levels, often related to abiotic environmental threats, and most likely unfavourable changes in the microbiome compositions in the interactive zone of the roots. The less-studied biotic impacts that contribute to armillarioid host infection include fungi and insects, as well as forest conditions. On the other hand, negative biotic impactors, like bacterial communities, antagonistic fungi, nematodes and plant-derived substances may find applications in the environment-friendly, biological control of armillarioid root diseases, which can be used instead of, or in combination with the classical, but frequently problematic silvicultural and chemical control measures.
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Affiliation(s)
- Orsolya Kedves
- Department of Microbiology, Faculty of Science and Informatics, University of Szeged, Szeged, Közép fasor 52, H-6726 Szeged, Hungary; (O.K.); (D.S.); (S.C.); (L.C.); (B.B.); (V.D.N.); (C.V.)
| | - Danish Shahab
- Department of Microbiology, Faculty of Science and Informatics, University of Szeged, Szeged, Közép fasor 52, H-6726 Szeged, Hungary; (O.K.); (D.S.); (S.C.); (L.C.); (B.B.); (V.D.N.); (C.V.)
| | - Simang Champramary
- Department of Microbiology, Faculty of Science and Informatics, University of Szeged, Szeged, Közép fasor 52, H-6726 Szeged, Hungary; (O.K.); (D.S.); (S.C.); (L.C.); (B.B.); (V.D.N.); (C.V.)
- Functional Genomics and Bioinformatics Group, Research Center for Forestry and Wood Industry, University of Sopron, Bajcsy-Zsilinszky str. 4., H-9400 Sopron, Hungary;
| | - Liqiong Chen
- Department of Microbiology, Faculty of Science and Informatics, University of Szeged, Szeged, Közép fasor 52, H-6726 Szeged, Hungary; (O.K.); (D.S.); (S.C.); (L.C.); (B.B.); (V.D.N.); (C.V.)
| | - Boris Indic
- Functional Genomics and Bioinformatics Group, Research Center for Forestry and Wood Industry, University of Sopron, Bajcsy-Zsilinszky str. 4., H-9400 Sopron, Hungary;
| | - Bettina Bóka
- Department of Microbiology, Faculty of Science and Informatics, University of Szeged, Szeged, Közép fasor 52, H-6726 Szeged, Hungary; (O.K.); (D.S.); (S.C.); (L.C.); (B.B.); (V.D.N.); (C.V.)
| | - Viktor Dávid Nagy
- Department of Microbiology, Faculty of Science and Informatics, University of Szeged, Szeged, Közép fasor 52, H-6726 Szeged, Hungary; (O.K.); (D.S.); (S.C.); (L.C.); (B.B.); (V.D.N.); (C.V.)
| | - Csaba Vágvölgyi
- Department of Microbiology, Faculty of Science and Informatics, University of Szeged, Szeged, Közép fasor 52, H-6726 Szeged, Hungary; (O.K.); (D.S.); (S.C.); (L.C.); (B.B.); (V.D.N.); (C.V.)
| | - László Kredics
- Department of Microbiology, Faculty of Science and Informatics, University of Szeged, Szeged, Közép fasor 52, H-6726 Szeged, Hungary; (O.K.); (D.S.); (S.C.); (L.C.); (B.B.); (V.D.N.); (C.V.)
- Correspondence: (L.K.); (G.S.); Tel.: +36-62-544516 (L.K.); +36-99-518769 (G.S.)
| | - György Sipos
- Functional Genomics and Bioinformatics Group, Research Center for Forestry and Wood Industry, University of Sopron, Bajcsy-Zsilinszky str. 4., H-9400 Sopron, Hungary;
- Correspondence: (L.K.); (G.S.); Tel.: +36-62-544516 (L.K.); +36-99-518769 (G.S.)
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7
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Coetzee MPA, Wingfield BD, Wingfield MJ. Armillaria Root-Rot Pathogens: Species Boundaries and Global Distribution. Pathogens 2018; 7:E83. [PMID: 30356027 PMCID: PMC6313743 DOI: 10.3390/pathogens7040083] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2018] [Revised: 10/21/2018] [Accepted: 10/21/2018] [Indexed: 11/16/2022] Open
Abstract
This review considers current knowledge surrounding species boundaries of the Armillaria root-rot pathogens and their distribution. In addition, a phylogenetic tree using translation elongation factor subunit 1-alpha (tef-1α) from isolates across the globe are used to present a global phylogenetic framework for the genus. Defining species boundaries based on DNA sequence-inferred phylogenies has been a central focus of contemporary mycology. The results of such studies have in many cases resolved the biogeographic history of species, mechanisms involved in dispersal, the taxonomy of species and how certain phenotypic characteristics have evolved throughout lineage diversification. Such advances have also occurred in the case of Armillaria spp. that include important causal agents of tree root rots. This commenced with the first phylogeny for Armillaria that was based on IGS-1 (intergenic spacer region one) DNA sequence data, published in 1992. Since then phylogenies were produced using alternative loci, either as single gene phylogenies or based on concatenated data. Collectively these phylogenies revealed species clusters in Armillaria linked to their geographic distributions and importantly species complexes that warrant further research.
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Affiliation(s)
- Martin P A Coetzee
- Department of Biochemistry, Genetics and Microbiology (BGM), Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria 0002, South Africa.
| | - Brenda D Wingfield
- Department of Biochemistry, Genetics and Microbiology (BGM), Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria 0002, South Africa.
| | - Michael J Wingfield
- Department of Biochemistry, Genetics and Microbiology (BGM), Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria 0002, South Africa.
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Elías-Román RD, Medel-Ortiz R, Alvarado-Rosales D, Hanna JW, Ross-Davis AL, Kim MS, Klopfenstein NB. Armillaria mexicana, a newly described species from Mexico. Mycologia 2018; 110:347-360. [PMID: 29608410 DOI: 10.1080/00275514.2017.1419031] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
Abstract
Armillaria mexicana (Agaricales, Physalacriaceae) is described as a new species based on morphology, DNA sequence data, and phylogenetic analyses. It clearly differs from previously reported Armillaria species in North, Central, and South America. It is characterized by the absence of fibulae in the basidioma, abundant cheilocystidia, and ellipsoidal, hyaline basidiospores that are apparently smooth under light microscope, but slightly to moderately rugulose under scanning electron microscope. It is differentiated from other Armillaria species by macromorphological characters, including annulus structure, pileus and stipe coloration, and other structures. DNA sequence data (nuc rDNA internal transcribed spacers [ITS1-5.8S-ITS2 = ITS], 28S D-domain, 3' end of 28S intergenic spacer 1, and translation elongation factor 1-α [TEF1]) show that A. mexicana sequences are quite distinct from sequences of analogous Armillaria species in GenBank. In addition, sequences of ITS of the A. mexicana ex-type culture reveal an ITS1 of 1299 bp and an ITS2 of 582 bp, the longest ITS regions reported thus far in fungi. Phylogenetic analysis based on TEF1 sequences place A. mexicana in a well-separated, monophyletic clade basal to the polyphyletic A. mellea complex.
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Affiliation(s)
- Rubén Damián Elías-Román
- a Departamento de Agronomía, División de Ciencias de la Vida (DICIVA) , Campus Irapuato-Salamanca, Universidad de Guanajuato, C.P. 36824 , Irapuato , Guanajuato , México
| | - Rosario Medel-Ortiz
- b Instituto de Investigaciones Forestales, Universidad Veracruzana , Xalapa , Veracruz , México
| | | | - John W Hanna
- d US Department of Agriculture Forest Service , Rocky Mountain Research Station, 1221 S. Main Street, Moscow , Idaho 83843
| | - Amy L Ross-Davis
- d US Department of Agriculture Forest Service , Rocky Mountain Research Station, 1221 S. Main Street, Moscow , Idaho 83843
| | - Mee-Sook Kim
- e U.S. Department of Agriculture Forest Service, Pacific Northwest Research Station , 3200 SW Jefferson Way , Corvallis , Oregon 97331
| | - Ned B Klopfenstein
- d US Department of Agriculture Forest Service , Rocky Mountain Research Station, 1221 S. Main Street, Moscow , Idaho 83843
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9
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Klopfenstein NB, Stewart JE, Ota Y, Hanna JW, Richardson BA, Ross-Davis AL, Elías-Román RD, Korhonen K, Keča N, Iturritxa E, Alvarado-Rosales D, Solheim H, Brazee NJ, Łakomy P, Cleary MR, Hasegawa E, Kikuchi T, Garza-Ocañas F, Tsopelas P, Rigling D, Prospero S, Tsykun T, Bérubé JA, Stefani FOP, Jafarpour S, Antonín V, Tomšovský M, McDonald GI, Woodward S, Kim MS. Insights into the phylogeny of Northern Hemisphere Armillaria: Neighbor-net and Bayesian analyses of translation elongation factor 1-α gene sequences. Mycologia 2017; 109:75-91. [PMID: 28402796 DOI: 10.1080/00275514.2017.1286572] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Abstract
Armillaria possesses several intriguing characteristics that have inspired wide interest in understanding phylogenetic relationships within and among species of this genus. Nuclear ribosomal DNA sequence-based analyses of Armillaria provide only limited information for phylogenetic studies among widely divergent taxa. More recent studies have shown that translation elongation factor 1-α (tef1) sequences are highly informative for phylogenetic analysis of Armillaria species within diverse global regions. This study used Neighbor-net and coalescence-based Bayesian analyses to examine phylogenetic relationships of newly determined and existing tef1 sequences derived from diverse Armillaria species from across the Northern Hemisphere, with Southern Hemisphere Armillaria species included for reference. Based on the Bayesian analysis of tef1 sequences, Armillaria species from the Northern Hemisphere are generally contained within the following four superclades, which are named according to the specific epithet of the most frequently cited species within the superclade: (i) Socialis/Tabescens (exannulate) superclade including Eurasian A. ectypa, North American A. socialis (A. tabescens), and Eurasian A. socialis (A. tabescens) clades; (ii) Mellea superclade including undescribed annulate North American Armillaria sp. (Mexico) and four separate clades of A. mellea (Europe and Iran, eastern Asia, and two groups from North America); (iii) Gallica superclade including Armillaria Nag E (Japan), multiple clades of A. gallica (Asia and Europe), A. calvescens (eastern North America), A. cepistipes (North America), A. altimontana (western USA), A. nabsnona (North America and Japan), and at least two A. gallica clades (North America); and (iv) Solidipes/Ostoyae superclade including two A. solidipes/ostoyae clades (North America), A. gemina (eastern USA), A. solidipes/ostoyae (Eurasia), A. cepistipes (Europe and Japan), A. sinapina (North America and Japan), and A. borealis (Eurasia) clade 2. Of note is that A. borealis (Eurasia) clade 1 appears basal to the Solidipes/Ostoyae and Gallica superclades. The Neighbor-net analysis showed similar phylogenetic relationships. This study further demonstrates the utility of tef1 for global phylogenetic studies of Armillaria species and provides critical insights into multiple taxonomic issues that warrant further study.
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Affiliation(s)
- Ned B Klopfenstein
- a United States Department of Agriculture Forest Service , Rocky Mountain Research Station , 1221 South Main Street, Moscow , Idaho 83843
| | - Jane E Stewart
- b Department of Bioagricultural Sciences and Pest Management , Colorado State University , 307 University Avenue, Ft. Collins , Colorado 80523
| | - Yuko Ota
- c College of Bioresource Sciences , Nihon University , 1866 Kameino, Fujisawa, Kanagawa 252-0880 , Japan
| | - John W Hanna
- a United States Department of Agriculture Forest Service , Rocky Mountain Research Station , 1221 South Main Street, Moscow , Idaho 83843
| | - Bryce A Richardson
- d United States Department of Agriculture Forest Service , Rocky Mountain Research Station , 735 North 500 East, Provo , Utah 84606
| | - Amy L Ross-Davis
- a United States Department of Agriculture Forest Service , Rocky Mountain Research Station , 1221 South Main Street, Moscow , Idaho 83843
| | - Rubén D Elías-Román
- e Departamento de Agronomía, División de Ciencias de la Vida , Campus Irapuato-Salamanca, Universidad de Guanajuato , C.P. 36824 , Apdo. Postal 311, Irapuato , Guanajuato , México
| | | | - Nenad Keča
- g Faculty of Forestry , University of Belgrade , Kneza Viseslava 1, 11030 Belgrade , Serbia
| | - Eugenia Iturritxa
- h Neiker Tecnalia, Production and Plant Protection , Granja Modelo de Arkaute , 46 Post, Vitoria-Gasteiz , 01080 , Spain
| | - Dionicio Alvarado-Rosales
- i Colegio de Postgraduados, Campus Montecillo , Instituto de Fitosanidad-Fitopatología , Texcoco 56230 , México
| | - Halvor Solheim
- j Norwegian Institute of Bioeconomy Research , Pb 115, NO-1431 Ås, Norway
| | - Nicholas J Brazee
- k UMass Extension, Center for Agriculture, Food and the Environment , University of Massachusetts , Amherst , Massachusetts 01002
| | - Piotr Łakomy
- l Department of Forest Pathology , Poznan University of Life Sciences , Wojska Polskiego 71c, 60-625 Poznań , Poland
| | - Michelle R Cleary
- m Sveriges Lantbruksuniversitet , Swedish University of Agricultural Sciences, Southern Swedish Forest Research Centre , 230 53 Alnarp , Sweden
| | - Eri Hasegawa
- n Kansai Research Center , Forestry and Forest Products Research Institute , 68 Nagai-Kyutaro, Momoyama, Fushimi , Kyoto 612-0855 , Japan
| | - Taisei Kikuchi
- o Department of Infectious Diseases, Faculty of Medicine , University of Miyazaki, Miyazaki 889-1692, Japan and Forestry and Forest Products Research Institute , Matsunosato 1, Tsukuba , Ibaraki 305-8687 , Japan
| | - Fortunato Garza-Ocañas
- p Facultad de Ciencias Forestales , Universidad Autónoma de Nuevo León , Linares , Nuevo León , Mexico
| | - Panaghiotis Tsopelas
- q NAGREF-Institute of Mediterranean Forest Ecosystems , Terma Alkmanos , 11528 Athens, B.O. 14180 , Greece
| | - Daniel Rigling
- r Swiss Federal Research Institute WSL , Zuercherstrasse 111 , CH-8903 Birmensdorf , Switzerland
| | - Simone Prospero
- r Swiss Federal Research Institute WSL , Zuercherstrasse 111 , CH-8903 Birmensdorf , Switzerland
| | - Tetyana Tsykun
- r Swiss Federal Research Institute WSL , Zuercherstrasse 111 , CH-8903 Birmensdorf , Switzerland
| | - Jean A Bérubé
- s Canadian Forest Service , Natural Resources Canada , PO Box 10380 Stn Sainte-Foy, Quebec City , Quebec G1V 4C7 , Canada
| | - Franck O P Stefani
- t Agriculture and Agri-Food Canada , KW Neatby Bldg , Ottawa , Ontario K1A 0C6 Canada
| | - Saeideh Jafarpour
- u Department of Plant Protection, Faculty of Agricultural Science and Engineering, College of Agriculture and Natural Resources , University of Tehran , Karaj , 31587-77871 , Iran
| | - Vladimír Antonín
- v Moravian Museum , Department of Botany , Zelny trh 6, 659 37 Brno , Czech Republic
| | - Michal Tomšovský
- w Faculty of Forestry and Wood Technology , Mendel University in Brno , Zemědělská 3, CZ-613 00 Brno , Czech Republic
| | - Geral I McDonald
- a United States Department of Agriculture Forest Service , Rocky Mountain Research Station , 1221 South Main Street, Moscow , Idaho 83843
| | - Stephen Woodward
- x Department of Plant and Soil Sciences, Institute of Biological and Environmental Sciences , University of Aberdeen , Aberdeen AB24 2TZ , Scotland , UK
| | - Mee-Sook Kim
- y Department of Forestry, Environment and Systems , Kookmin University , Seoul 02707 , Republic of Korea
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Wingfield BD, Ambler JM, Coetzee MP, de Beer ZW, Duong TA, Joubert F, Hammerbacher A, McTaggart AR, Naidoo K, Nguyen HD, Ponomareva E, Santana QS, Seifert KA, Steenkamp ET, Trollip C, van der Nest MA, Visagie CM, Wilken PM, Wingfield MJ, Yilmaz N. IMA Genome-F 6: Draft genome sequences of Armillaria fuscipes, Ceratocystiopsis minuta, Ceratocystis adiposa, Endoconidiophora laricicola, E. polonica and Penicillium freii DAOMC 242723. IMA Fungus 2016; 7:217-27. [PMID: 27433447 PMCID: PMC4941685 DOI: 10.5598/imafungus.2016.07.01.11] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2016] [Accepted: 06/15/2016] [Indexed: 10/25/2022] Open
Abstract
The genomes of Armillaria fuscipes, Ceratocystiopsis minuta, Ceratocystis adiposa, Endoconidiophora laricicola, E. polonica, and Penicillium freii DAOMC 242723 are presented in this genome announcement. These six genomes are from plant pathogens and otherwise economically important fungal species. The genome sizes range from 21 Mb in the case of Ceratocystiopsis minuta to 58 Mb for the basidiomycete Armillaria fuscipes. These genomes include the first reports of genomes for the genus Endoconidiophora. The availability of these genome data will provide opportunities to resolve longstanding questions regarding the taxonomy of species in these genera. In addition these genome sequences through comparative studies with closely related organisms will increase our understanding of how these pathogens cause disease.
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Affiliation(s)
- Brenda D. Wingfield
- Department of Genetics, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Private Bag X20, Pretoria, 0028 South Africa
| | - Jon M. Ambler
- Department of Genetics, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Private Bag X20, Pretoria, 0028 South Africa
| | - Martin P.A. Coetzee
- Department of Genetics, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Private Bag X20, Pretoria, 0028 South Africa
| | - Z. Wilhelm de Beer
- Department of Microbiology and Plant Pathology, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Private Bag X20, Pretoria, 0028 South Africa
| | - Tuan A. Duong
- Department of Genetics, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Private Bag X20, Pretoria, 0028 South Africa
| | - Fourie Joubert
- Centre for Bioinformatics and Computational Biology, Department of Biochemistry and Genomics Research Institute, University of Pretoria, Private Bag X20, Pretoria 0028, South Africa
| | - Almuth Hammerbacher
- Department of Microbiology and Plant Pathology, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Private Bag X20, Pretoria, 0028 South Africa
| | - Alistair R. McTaggart
- Department of Microbiology and Plant Pathology, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Private Bag X20, Pretoria, 0028 South Africa
| | - Kershney Naidoo
- Department of Genetics, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Private Bag X20, Pretoria, 0028 South Africa
| | - Hai D.T. Nguyen
- Biodiversity (Mycology), Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, 960 Carling Ave., Ottawa, Ontario, K1A 0C6, Canada
- Department of Biology, University of Ottawa, 30 Marie-Curie, Ottawa, Ontario, K1N6N5, Canada
| | - Ekaterina Ponomareva
- Biodiversity (Mycology), Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, 960 Carling Ave., Ottawa, Ontario, K1A 0C6, Canada
| | - Quentin S. Santana
- Department of Genetics, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Private Bag X20, Pretoria, 0028 South Africa
| | - Keith A. Seifert
- Biodiversity (Mycology), Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, 960 Carling Ave., Ottawa, Ontario, K1A 0C6, Canada
| | - Emma T. Steenkamp
- Department of Microbiology and Plant Pathology, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Private Bag X20, Pretoria, 0028 South Africa
| | - Conrad Trollip
- Department of Genetics, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Private Bag X20, Pretoria, 0028 South Africa
| | - Magriet A. van der Nest
- Department of Genetics, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Private Bag X20, Pretoria, 0028 South Africa
| | - Cobus M. Visagie
- Biodiversity (Mycology), Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, 960 Carling Ave., Ottawa, Ontario, K1A 0C6, Canada
| | - P. Markus Wilken
- Department of Genetics, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Private Bag X20, Pretoria, 0028 South Africa
| | - Michael J. Wingfield
- Department of Genetics, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Private Bag X20, Pretoria, 0028 South Africa
| | - Neriman Yilmaz
- Biodiversity (Mycology), Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, 960 Carling Ave., Ottawa, Ontario, K1A 0C6, Canada
- Department of Chemistry, Carleton University, 1125 Colonel By Drive, Ottawa, Ontario, K1S 5B6, Canada
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11
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Coetzee MP, Wingfield BD, Zhao J, van Coller SJ, Wingfield MJ. Phylogenetic relationships among biological species of Armillaria from China. MYCOSCIENCE 2015. [DOI: 10.1016/j.myc.2015.05.001] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
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12
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Udayanga D, Liu X, Crous PW, McKenzie EHC, Chukeatirote E, Hyde KD. A multi-locus phylogenetic evaluation of Diaporthe (Phomopsis). FUNGAL DIVERS 2012. [DOI: 10.1007/s13225-012-0190-9] [Citation(s) in RCA: 78] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
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13
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Baumgartner K, Baker BR, Korhonen K, Zhao J, Hughes KW, Bruhn J, Bowman TS, Bergemann SE. Evidence of natural hybridization among homothallic members of the basidiomycete Armillaria mellea sensu stricto. Fungal Biol 2012; 116:677-91. [DOI: 10.1016/j.funbio.2012.03.006] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2011] [Revised: 02/24/2012] [Accepted: 03/30/2012] [Indexed: 01/09/2023]
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14
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Coetzee MPA, Bloomer P, Wingfield MJ, Wingfield BD. Paleogene radiation of a plant pathogenic mushroom. PLoS One 2011; 6:e28545. [PMID: 22216099 PMCID: PMC3247210 DOI: 10.1371/journal.pone.0028545] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2011] [Accepted: 11/10/2011] [Indexed: 11/29/2022] Open
Abstract
BACKGROUND The global movement and speciation of fungal plant pathogens is important, especially because of the economic losses they cause and the ease with which they are able to spread across large areas. Understanding the biogeography and origin of these plant pathogens can provide insights regarding their dispersal and current day distribution. We tested the hypothesis of a Gondwanan origin of the plant pathogenic mushroom genus Armillaria and the currently accepted premise that vicariance accounts for the extant distribution of the species. METHODS The phylogeny of a selection of Armillaria species was reconstructed based on Maximum Parsimony (MP), Maximum Likelihood (ML) and Bayesian Inference (BI). A timeline was then placed on the divergence of lineages using a Bayesian relaxed molecular clock approach. RESULTS Phylogenetic analyses of sequenced data for three combined nuclear regions provided strong support for three major geographically defined clades: Holarctic, South American-Australasian and African. Molecular dating placed the initial radiation of the genus at 54 million years ago within the Early Paleogene, postdating the tectonic break-up of Gondwana. CONCLUSIONS The distribution of extant Armillaria species is the result of ancient long-distance dispersal rather than vicariance due to continental drift. As these finding are contrary to most prior vicariance hypotheses for fungi, our results highlight the important role of long-distance dispersal in the radiation of fungal pathogens from the Southern Hemisphere.
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Affiliation(s)
- Martin P A Coetzee
- Department of Genetics, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, South Africa.
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15
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Variability in the IGS1 region of Rhodocollybia laulaha: is it allelic, genomic, or artificial? Fungal Biol 2011; 115:310-6. [DOI: 10.1016/j.funbio.2011.01.002] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2010] [Revised: 12/08/2010] [Accepted: 01/04/2011] [Indexed: 11/23/2022]
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16
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Perazzolli M, Bampi F, Faccin S, Moser M, De Luca F, Ciccotti AM, Velasco R, Gessler C, Pertot I, Moser C. Armillaria mellea induces a set of defense genes in grapevine roots and one of them codifies a protein with antifungal activity. MOLECULAR PLANT-MICROBE INTERACTIONS : MPMI 2010; 23:485-96. [PMID: 20192835 DOI: 10.1094/mpmi-23-4-0485] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/21/2023]
Abstract
Grapevine root rot, caused by Armillaria mellea, is a serious disease in some grape-growing regions. Young grapevines start to show symptoms of Armillaria root rot from the second year after inoculation, suggesting a certain degree of resistance in young roots. We used a suppression subtractive hybridization approach to study grapevine's reactions to the first stages of A. mellea infection. We identified 24 genes that were upregulated in the roots of the rootstock Kober 5BB 24 h after A. mellea challenge. Real-time reverse-transcriptase polymerase chain reaction analysis confirmed the induction of genes encoding protease inhibitors, thaumatins, glutathione S-transferase, and aminocyclopropane carboxylate oxidase, as well as phase-change related, tumor-related, and proline-rich proteins, and gene markers of the ethylene and jasmonate signaling pathway. Gene modulation was generally stronger in Kober 5BB than in Pinot Noir plants, and in vitro inoculation induced higher modulation than in greenhouse Armillaria spp. treatments. The full-length coding sequences of seven of these genes were obtained and expressed as recombinant proteins. The grapevine homologue of the Quercus spp. phase-change-related protein inhibited the growth of A. mellea mycelia in vitro, suggesting that this protein may play an important role in the defense response against A. mellea.
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Affiliation(s)
- Michele Perazzolli
- IASMA Research and Innovation Centre, Fondazione Edmund Mach, Genomics and Crop Biology Area, S. Michele a/Adige, Italy
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Lima MLA, Asai T, Capelari M. Armillaria paulensis: a new South American species. ACTA ACUST UNITED AC 2008; 112:1122-8. [PMID: 18692378 DOI: 10.1016/j.mycres.2008.03.006] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2007] [Revised: 02/07/2008] [Accepted: 03/17/2008] [Indexed: 10/22/2022]
Abstract
Armillaria paulensis, morphologically distinct from other Armillaria species, is described from Brazil. It is characterized by the dimension of the basidiospores, the pinkish colour of the lamellae; stipe colour ranging from pinkish at the apex, dark greyish brown under the annulus and olivaceous at the base, where it is concolourous, with the pilear surface. Relationships based on sequences of ITS with African, Australian and South American species showed its closeness to A. luteobubalina.
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Affiliation(s)
- Milena L A Lima
- Instituto de Botânica, Caixa Postal 3005, 01061-970 São Paulo, SP, Brazil
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18
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Sekizaki H, Kuninaga S, Yamamoto M, Asazu SN, Sawa S, Kojoma M, Yokosawa R, Yoshida N. Identification of Armillaria nabsnona in Gastrodia Tubers. Biol Pharm Bull 2008; 31:1410-4. [DOI: 10.1248/bpb.31.1410] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Affiliation(s)
- Haruo Sekizaki
- Faculty of Pharmaceutical Sciences, Health Sciences University of Hokkaido
| | - Shiro Kuninaga
- School of Dentistry, Health Sciences University of Hokkaido
| | - Mizuho Yamamoto
- Faculty of Pharmaceutical Sciences, Health Sciences University of Hokkaido
| | - Sandra Naomi Asazu
- Faculty of Pharmaceutical Sciences, Health Sciences University of Hokkaido
| | - Satoko Sawa
- Faculty of Pharmaceutical Sciences, Health Sciences University of Hokkaido
| | - Mareshige Kojoma
- Faculty of Pharmaceutical Sciences, Health Sciences University of Hokkaido
| | - Ryozo Yokosawa
- Faculty of Pharmaceutical Sciences, Health Sciences University of Hokkaido
| | - Naotoshi Yoshida
- Faculty of Pharmaceutical Sciences, Health Sciences University of Hokkaido
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19
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Schmidt O. Indoor wood-decay basidiomycetes: damage, causal fungi, physiology, identification and characterization, prevention and control. Mycol Prog 2007. [DOI: 10.1007/s11557-007-0534-0] [Citation(s) in RCA: 50] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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Hawksworth DL. Pandora's mycological box: molecular sequences vs. morphology in understanding fungal relationships and biodiversity. Rev Iberoam Micol 2007; 23:127-33. [PMID: 17196017 DOI: 10.1016/s1130-1406(06)70031-6] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022] Open
Abstract
Fundamental reappraisals of diverse traditional ideas in mycology have become necessary as a result of molecular insights. These different insights are discussed in relation to: the positions of microsporidia, slime moulds and oomycetes; the basal position of lichen fungi in the evolution of ascomycetes forming fruit bodies; remodelling of orders and families; changed generic concepts; the issue of whether permitting a dual nomenclature for the different states of pleomorphic fungi should be continued; and the recognition of additional cryptic species within a "species". The molecular data has necessitated a reassessment of the systematic importance of many types of characters. Also, the techniques open exciting horizons and undreamed of abilities through being able to identify non-sporing fungi in ecological samples and plant material, and revealing unexpected levels of diversity in hitherto little-explored habitats. Major advances in understanding how fungi operate through total genomic approaches can be anticipated as more are completely sequenced. The Pandora's box of molecular surprises is to be seen as one of blessings and not one of miseries and evils.
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Affiliation(s)
- David L Hawksworth
- Departamento de Biología Vegetal II, Facultad de Farmacia, Universidad Complutense de Madrid, Spain.
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