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Research Article

Genomic Analysis of the Hydrocarbon-Producing, Cellulolytic, Endophytic Fungus Ascocoryne sarcoides

  • Tara A. Gianoulis equal contributor †,

    equal contributor Contributed equally to this work with: Tara A. Gianoulis, Meghan A. Griffin, Daniel J. Spakowicz

    † Deceased.

    Affiliations: Department of Genetics, Harvard Medical School, Boston, Massachusetts, United States of America, Wyss Institute for Biologically Inspired Engineering, Boston, Massachusetts, United States of America, Program in Computational Biology and Bioinformatics, Yale University, New Haven, Connecticut, United States of America

    X
  • Meghan A. Griffin equal contributor,

    equal contributor Contributed equally to this work with: Tara A. Gianoulis, Meghan A. Griffin, Daniel J. Spakowicz

    Affiliation: Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut, United States of America

    X
  • Daniel J. Spakowicz equal contributor,

    equal contributor Contributed equally to this work with: Tara A. Gianoulis, Meghan A. Griffin, Daniel J. Spakowicz

    Affiliation: Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut, United States of America

    X
  • Brian F. Dunican,

    Affiliation: Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut, United States of America

    X
  • Cambria J. Alpha,

    Affiliation: Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut, United States of America

    X
  • Andrea Sboner,

    Affiliations: Program in Computational Biology and Bioinformatics, Yale University, New Haven, Connecticut, United States of America, Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut, United States of America

    X
  • A. Michael Sismour,

    Affiliations: Department of Genetics, Harvard Medical School, Boston, Massachusetts, United States of America, Wyss Institute for Biologically Inspired Engineering, Boston, Massachusetts, United States of America

    X
  • Chinnappa Kodira,

    Affiliation: Roche 454 Life Sciences, Branford, Connecticut, United States of America

    X
  • Michael Egholm,

    Affiliation: Pall Corporation, Long Island City, New York, United States of America

    X
  • George M. Church,

    Affiliations: Department of Genetics, Harvard Medical School, Boston, Massachusetts, United States of America, Wyss Institute for Biologically Inspired Engineering, Boston, Massachusetts, United States of America

    X
  • Mark B. Gerstein mail,

    mark.gerstein@yale.edu (MBG); scott.strobel@yale.edu (SAS)

    Affiliations: Program in Computational Biology and Bioinformatics, Yale University, New Haven, Connecticut, United States of America, Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut, United States of America

    X
  • Scott A. Strobel mail

    mark.gerstein@yale.edu (MBG); scott.strobel@yale.edu (SAS)

    Affiliation: Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut, United States of America

    X
  • Published: March 01, 2012
  • DOI: 10.1371/journal.pgen.1002558

About the Authors

Tara A. Gianoulis, A. Michael Sismour, George M. Church
Department of Genetics, Harvard Medical School, Boston, Massachusetts, United States of America
Tara A. Gianoulis, A. Michael Sismour, George M. Church
Wyss Institute for Biologically Inspired Engineering, Boston, Massachusetts, United States of America
Tara A. Gianoulis, Andrea Sboner, Mark B. Gerstein
Program in Computational Biology and Bioinformatics, Yale University, New Haven, Connecticut, United States of America
Meghan A. Griffin, Daniel J. Spakowicz, Brian F. Dunican, Cambria J. Alpha, Andrea Sboner, Mark B. Gerstein, Scott A. Strobel
Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut, United States of America
Chinnappa Kodira
Roche 454 Life Sciences, Branford, Connecticut, United States of America
Michael Egholm
Pall Corporation, Long Island City, New York, United States of America

Corresponding Authors

Competing Interests

CK currently works at 454 Life Sciences. All of the work reported in this manuscript was completed when he was in residence at the Broad Institute. ME currently works at Pall Corporation. All of the work reported in this manuscript was completed when he was at 454 Life Sciences..

Author Contributions

Conceived and designed the experiments: TAG MAG DJS CJA BFD MBG SAS. Performed the experiments: TAG MAG DJS CJA BFD. Analyzed the data: TAG MAG DJS CJA BFD AS. Wrote the paper: TAG MAG DJS. Performed initial genome sequencing and assembly: CK ME. Contributed to the pathway trajectory analysis: AMS GMC.