Evaluation of mitochondrial genes as DNA barcode for Basidiomycota

Authors

  • AGATHE VIALLE,

    1. Centre d'étude de la forêt, Université Laval, QC, Canada G1 K 7P4
    2. Laurentian Forestry Centre, Canadian Forest Service, Natural Resources Canada, 1055 du PEPS, PO Box 10380, Stn Sainte-Foy, QC, Canada G1V 4C7
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      Equal contributors

  • NICOLAS FEAU,

    1. Laurentian Forestry Centre, Canadian Forest Service, Natural Resources Canada, 1055 du PEPS, PO Box 10380, Stn Sainte-Foy, QC, Canada G1V 4C7
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      Equal contributors

  • MATHIEU ALLAIRE,

    1. Laurentian Forestry Centre, Canadian Forest Service, Natural Resources Canada, 1055 du PEPS, PO Box 10380, Stn Sainte-Foy, QC, Canada G1V 4C7
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  • MARYNA DIDUKH,

    1. Department of Ecology and Evolutionary Biology, University of Toronto, ON, Canada M5S 3B2
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  • FRANCIS MARTIN,

    1. Unité Mixte de Recherche INRA/UHP 1136 ‘Interactions Arbres/Microorganismes’, Institut National de la Recherche Agronomique, Centre de Recherches de Nancy, 54280 Champenoux, France
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  • JEAN-MARC MONCALVO,

    1. Department of Natural History, Royal Ontario Museum, and Department of Ecology and Evolutionary Biology, University of Toronto, ON, Canada M5S 2C6
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  • RICHARD C. HAMELIN

    1. Centre d'étude de la forêt, Université Laval, QC, Canada G1 K 7P4
    2. Laurentian Forestry Centre, Canadian Forest Service, Natural Resources Canada, 1055 du PEPS, PO Box 10380, Stn Sainte-Foy, QC, Canada G1V 4C7
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Richard C. Hamelin, Fax: 001 418648 5849; E-mail: Richard.hamelin@ubc.ca

Abstract

Our study evaluated in silico the potential of 14 mitochondrial genes encoding the subunits of the respiratory chain complexes, including cytochrome c oxidase I (CO1), as Basidiomycota DNA barcode. Fifteen complete and partial mitochondrial genomes were recovered and characterized in this study. Mitochondrial genes showed high values of molecular divergence, indicating a potential for the resolution of lower-level relationships. However, numerous introns occurred in CO1 as well as in six other genes, potentially interfering with polymerase chain reaction amplification. Considering these results and given the minimal length of 600-bp that is optimal for a fungal barcode, the genes encoding for the ATPase subunit 6, the cytochrome oxidase subunit 3 and the NADH dehydrogenase subunit 6 have the most promising characteristics for DNA barcoding among the mitochondrial genes studied. However, biological validation on two fungal data sets indicated that no single mitochondrial gene gave a better taxonomic resolution than the ITS, the region already widely used in fungal taxonomy.

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