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Genetic diversity of endophytic fungi from Coffea arabica cv. IAPAR-59 in organic crops

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Abstract

Endophytes are microorganisms that live inside plant tissues throughout its life cycle and during certain phases of development. The endophyte–host relationships can provide benefits to the host, protecting it against attack by insects and diseases. Several studies have demonstrated the diversity of endophytes from Coffea arabica, but few studies in varieties of organic crops. Thus, the objective in this study was to corroborate these reports with knowledge of the endophytic fungi communities in an organic variety of C. arabica L. cultivar IAPAR-59. We identified the endophytic fungi by molecular methods using the ITS1-5.8S-ITS2 region of rDNA and phylogenetic analyses. In the antagonist activity tests, the endophytes were tested against phytopathogens with the evaluation of the kind of interactions between them. Analyses demonstrated a diversity of genera, including: Colletotrichum, Trichoderma, Schizophyllum, Mycosphaerella, Cladosporium, and Cercospora, as well as the first record of the genus Ophiognomonia in C. arabica. The antagonist activity showed reduced growth of the phytopathogenic fungi Glomerella sp., Colletotrichum sp. and Sclerotinia sclerotiorum. The results obtained in this work, with the identification for the first time, of a highly diverse isolated endophytic of the species Ophiognomonia sp. in the coffee plants, is the second report of the detection of these fungi in Brazil. Also, the detection of different isolates with the ability to antagonise pathogens, emphasises the importance of further research, involving the isolation, identification and exploration of endophytes of other genetic varieties of coffee, obtained by breeding programs of this important crop in Brazil.

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Acknowledgments

We thank the Complex Research Support Centres (COMCAP-UEM), Laboratory of Molecular Biology and Structural for the facilities provided in the sequencing of ITS1-5.8S-ITS2 regions, and the Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES) for granting the scholarship. Additional acknowledgments are given to CNPq (311534/2014-7; 447265/2014-8) and Fundação Araucária – FA (276/2014) for financial support.

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Authors and Affiliations

  1. Departamento de Biotecnologia, Genética e Biologia Celular, Laboratório de Biotecnologia Microbiana, Universidade Estadual de Maringá, CEP 87020-900, Maringá, Paraná, Brazil

    Vagner Alexandre Bongiorno, Adriana Garcia, Julio Cesar Polonio, João Lúcio Azevedo & João Alencar Pamphile

  2. IFC- Instituto Federal Catarinense, Câmpus de São Francisco do Sul, Santa Catarina, Brazil

    Sandro Augusto Rhoden

  3. Departamento de Genética, ESALQ - Escola Superior de Agricultura “Luiz de Queiroz” - USP, CEP 13418-900, Piracicaba, SP, Brazil

    João Lúcio Azevedo

  4. Departamento de Ciências Fundamentais e Desenvolvimento Agrícola, Faculdade de Ciências Agrárias, Universidade do Amazonas, CEP 69077-000, Manaus, AM, Brazil

    José Odair Pereira

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  1. Vagner Alexandre Bongiorno
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  2. Sandro Augusto Rhoden
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  7. João Alencar Pamphile
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Correspondence to João Alencar Pamphile.

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Bongiorno, V.A., Rhoden, S.A., Garcia, A. et al. Genetic diversity of endophytic fungi from Coffea arabica cv. IAPAR-59 in organic crops. Ann Microbiol 66, 855–865 (2016). https://doi.org/10.1007/s13213-015-1168-0

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