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Research Article

Deciphering the Cryptic Genome: Genome-wide Analyses of the Rice Pathogen Fusarium fujikuroi Reveal Complex Regulation of Secondary Metabolism and Novel Metabolites

  • Philipp Wiemann equal contributor,

    equal contributor Contributed equally to this work with: Philipp Wiemann, Christian M. K. Sieber, Katharina W. von Bargen

    Affiliation: Institut für Biologie und Biotechnologie der Pflanzen, Molecular Biology and Biotechnology of Fungi, Westfälische Wilhelms-Universität Münster, Münster, Germany

    Current address: Department of Medical Microbiology and Immunology, University of Wisconsin-Madison, Madison, Wisconsin, United States of America.

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  • Christian M. K. Sieber equal contributor,

    equal contributor Contributed equally to this work with: Philipp Wiemann, Christian M. K. Sieber, Katharina W. von Bargen

    Affiliation: Institute of Bioinformatics and Systems Biology, Helmholtz Zentrum München, German Research Center for Environmental Health (GmbH), Neuherberg, Germany

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  • Katharina W. von Bargen equal contributor,

    equal contributor Contributed equally to this work with: Philipp Wiemann, Christian M. K. Sieber, Katharina W. von Bargen

    Affiliation: Institute for Food Chemistry, Westfälische Wilhelms-Universität Münster, Corrensstraße 45, Münster, Germany

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  • Lena Studt,

    Affiliations: Institut für Biologie und Biotechnologie der Pflanzen, Molecular Biology and Biotechnology of Fungi, Westfälische Wilhelms-Universität Münster, Münster, Germany, Institute for Food Chemistry, Westfälische Wilhelms-Universität Münster, Corrensstraße 45, Münster, Germany

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  • Eva-Maria Niehaus,

    Affiliation: Institut für Biologie und Biotechnologie der Pflanzen, Molecular Biology and Biotechnology of Fungi, Westfälische Wilhelms-Universität Münster, Münster, Germany

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  • Jose J. Espino,

    Affiliation: Institut für Biologie und Biotechnologie der Pflanzen, Molecular Biology and Biotechnology of Fungi, Westfälische Wilhelms-Universität Münster, Münster, Germany

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  • Kathleen Huß,

    Affiliation: Institut für Biologie und Biotechnologie der Pflanzen, Molecular Biology and Biotechnology of Fungi, Westfälische Wilhelms-Universität Münster, Münster, Germany

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  • Caroline B. Michielse,

    Affiliation: Institut für Biologie und Biotechnologie der Pflanzen, Molecular Biology and Biotechnology of Fungi, Westfälische Wilhelms-Universität Münster, Münster, Germany

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  • Sabine Albermann,

    Affiliation: Institut für Biologie und Biotechnologie der Pflanzen, Molecular Biology and Biotechnology of Fungi, Westfälische Wilhelms-Universität Münster, Münster, Germany

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  • Dominik Wagner,

    Affiliation: Institut für Biologie und Biotechnologie der Pflanzen, Molecular Biology and Biotechnology of Fungi, Westfälische Wilhelms-Universität Münster, Münster, Germany

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  • Sonja V. Bergner,

    Affiliation: Institut für Biologie und Biotechnologie der Pflanzen, Plant Biochemistry and Biotechnology, Westfälische Wilhelms-Universität Münster, Münster, Germany

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  • Lanelle R. Connolly,

    Affiliation: Department of Biochemistry and Biophysics, Center for Genome Research and Biocomputing, Oregon State University, Corvallis, Oregon, United States of America

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  • Andreas Fischer,

    Affiliation: Institut of Genetics/Developmental Genetics, Martin-Luther-Universität Halle-Wittenberg, Halle, Germany

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  • Gunter Reuter,

    Affiliation: Institut of Genetics/Developmental Genetics, Martin-Luther-Universität Halle-Wittenberg, Halle, Germany

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  • Karin Kleigrewe,

    Affiliation: Institute for Food Chemistry, Westfälische Wilhelms-Universität Münster, Corrensstraße 45, Münster, Germany

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  • Till Bald,

    Affiliation: Institut für Biologie und Biotechnologie der Pflanzen, Plant Biochemistry and Biotechnology, Westfälische Wilhelms-Universität Münster, Münster, Germany

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  • Brenda D. Wingfield,

    Affiliation: Department of Genetics, University of Pretoria, Hatfield, Pretoria, South Africa

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  • Ron Ophir,

    Affiliation: Institute of Plant Sciences, Genomics, Agricultural Research Organization (ARO), The Volcani Center, Bet-Dagan, Israel

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  • Stanley Freeman,

    Affiliation: Department of Plant Pathology, Agricultural Research Organization (ARO), The Volcani Center, Bet-Dagan, Israel

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  • Michael Hippler,

    Affiliation: Institut für Biologie und Biotechnologie der Pflanzen, Plant Biochemistry and Biotechnology, Westfälische Wilhelms-Universität Münster, Münster, Germany

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  • Kristina M. Smith,

    Affiliation: Department of Biochemistry and Biophysics, Center for Genome Research and Biocomputing, Oregon State University, Corvallis, Oregon, United States of America

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  • Daren W. Brown,

    Affiliation: National Center for Agricultural Utilization Research, United States Department of Agriculture, Peoria, Illinois, United States of America

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  • Robert H. Proctor,

    Affiliation: National Center for Agricultural Utilization Research, United States Department of Agriculture, Peoria, Illinois, United States of America

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  • Martin Münsterkötter,

    Affiliation: Institute of Bioinformatics and Systems Biology, Helmholtz Zentrum München, German Research Center for Environmental Health (GmbH), Neuherberg, Germany

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  • Michael Freitag,

    Affiliation: Department of Biochemistry and Biophysics, Center for Genome Research and Biocomputing, Oregon State University, Corvallis, Oregon, United States of America

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  • Hans-Ulrich Humpf mail,

    humpf@uni-muenster.de (HGH); u.gueldener@helmholtz-muenchen.de (UG); tudzynsb@uni-muenster.de (BT)

    Affiliation: Institute for Food Chemistry, Westfälische Wilhelms-Universität Münster, Corrensstraße 45, Münster, Germany

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  • Ulrich Güldener mail,

    humpf@uni-muenster.de (HGH); u.gueldener@helmholtz-muenchen.de (UG); tudzynsb@uni-muenster.de (BT)

    Affiliation: Institute of Bioinformatics and Systems Biology, Helmholtz Zentrum München, German Research Center for Environmental Health (GmbH), Neuherberg, Germany

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  • Bettina Tudzynski mail

    humpf@uni-muenster.de (HGH); u.gueldener@helmholtz-muenchen.de (UG); tudzynsb@uni-muenster.de (BT)

    Affiliation: Institut für Biologie und Biotechnologie der Pflanzen, Molecular Biology and Biotechnology of Fungi, Westfälische Wilhelms-Universität Münster, Münster, Germany

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  • Published: June 27, 2013
  • DOI: 10.1371/journal.ppat.1003475

About the Authors

Philipp Wiemann, Lena Studt, Eva-Maria Niehaus, Jose J. Espino, Kathleen Huß, Caroline B. Michielse, Sabine Albermann, Dominik Wagner, Bettina Tudzynski
Institut für Biologie und Biotechnologie der Pflanzen, Molecular Biology and Biotechnology of Fungi, Westfälische Wilhelms-Universität Münster, Münster, Germany
Christian M. K. Sieber, Martin Münsterkötter, Ulrich Güldener
Institute of Bioinformatics and Systems Biology, Helmholtz Zentrum München, German Research Center for Environmental Health (GmbH), Neuherberg, Germany
Katharina W. von Bargen, Lena Studt, Karin Kleigrewe, Hans-Ulrich Humpf
Institute for Food Chemistry, Westfälische Wilhelms-Universität Münster, Corrensstraße 45, Münster, Germany
Sonja V. Bergner, Till Bald, Michael Hippler
Institut für Biologie und Biotechnologie der Pflanzen, Plant Biochemistry and Biotechnology, Westfälische Wilhelms-Universität Münster, Münster, Germany
Lanelle R. Connolly, Kristina M. Smith, Michael Freitag
Department of Biochemistry and Biophysics, Center for Genome Research and Biocomputing, Oregon State University, Corvallis, Oregon, United States of America
Andreas Fischer, Gunter Reuter
Institut of Genetics/Developmental Genetics, Martin-Luther-Universität Halle-Wittenberg, Halle, Germany
Brenda D. Wingfield
Department of Genetics, University of Pretoria, Hatfield, Pretoria, South Africa
Ron Ophir
Institute of Plant Sciences, Genomics, Agricultural Research Organization (ARO), The Volcani Center, Bet-Dagan, Israel
Stanley Freeman
Department of Plant Pathology, Agricultural Research Organization (ARO), The Volcani Center, Bet-Dagan, Israel
Daren W. Brown, Robert H. Proctor
National Center for Agricultural Utilization Research, United States Department of Agriculture, Peoria, Illinois, United States of America

Corresponding Authors

Competing Interests

The authors have declared that no competing interests exist.

Author Contributions

Conceived and designed the experiments: BT UG PW HUH MF MH GR. Performed the experiments: KWvB PW LS EMN KH SA DW JJE SVB LRC AF KK. Analyzed the data: KWvB PW LS JJE AF EMN UG CMKS MM CBM TB KMS RO DWB RHP. Contributed reagents/materials/analysis tools: BDW SF BT HUH MF. Wrote the paper: BT PW UG DWB RHP MF MH.