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Research Article

Genome, Functional Gene Annotation, and Nuclear Transformation of the Heterokont Oleaginous Alga Nannochloropsis oceanica CCMP1779

  • Astrid Vieler equal contributor,

    equal contributor Contributed equally to this work with: Astrid Vieler, Guangxi Wu

    Affiliation: Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Guangxi Wu equal contributor,

    equal contributor Contributed equally to this work with: Astrid Vieler, Guangxi Wu

    Affiliation: Cell and Molecular Biology Program, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Chia-Hong Tsai,

    Affiliations: Department of Plant Biology, Michigan State University, East Lansing, Michigan, United States of America, DOE–Plant Research Laboratory, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Blair Bullard,

    Affiliation: Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Adam J. Cornish,

    Affiliation: Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Christopher Harvey,

    Affiliation: Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Ida-Barbara Reca,

    Affiliation: DOE–Plant Research Laboratory, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Chelsea Thornburg,

    Affiliation: Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Rujira Achawanantakun,

    Affiliation: Deptartment of Computer Science and Engineering, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Christopher J. Buehl,

    Affiliations: Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, Michigan, United States of America, Cell and Molecular Biology Program, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Michael S. Campbell,

    Affiliation: Department of Human Genetics, University of Utah, Salt Lake City, Utah, United States of America

    X
  • David Cavalier,

    Affiliation: DOE–Plant Research Laboratory, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Kevin L. Childs,

    Affiliation: Department of Plant Biology, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Teresa J. Clark,

    Affiliation: Department of Biological Sciences, Western Michigan University, Kalamazoo, Michigan, United States of America

    X
  • Rahul Deshpande,

    Affiliation: Department of Plant Biology, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Erika Erickson,

    Affiliations: Howard Hughes Medical Institute, Department of Plant and Microbial Biology, University of California Berkeley, Berkeley, California, United States of America, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, California, United States of America

    X
  • Ann Armenia Ferguson,

    Affiliation: Department of Horticulture, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Witawas Handee,

    Affiliation: Cell and Molecular Biology Program, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Que Kong,

    Affiliation: Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Xiaobo Li,

    Affiliations: Department of Plant Biology, Michigan State University, East Lansing, Michigan, United States of America, DOE–Plant Research Laboratory, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Bensheng Liu,

    Affiliation: Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Steven Lundback,

    Affiliation: Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Cheng Peng,

    Affiliations: Department of Plant Biology, Michigan State University, East Lansing, Michigan, United States of America, DOE–Plant Research Laboratory, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Rebecca L. Roston,

    Affiliation: Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Sanjaya,

    Affiliation: Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Jeffrey P. Simpson,

    Affiliation: Department of Plant Biology, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Allan TerBush,

    Affiliations: Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, Michigan, United States of America, Department of Plant Biology, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Jaruswan Warakanont,

    Affiliation: Department of Plant Biology, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Simone Zäuner,

    Affiliation: Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Eva M. Farre,

    Affiliation: Department of Plant Biology, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Eric L. Hegg,

    Affiliation: Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Ning Jiang,

    Affiliation: Department of Horticulture, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Min-Hao Kuo,

    Affiliation: Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Yan Lu,

    Affiliation: Department of Biological Sciences, Western Michigan University, Kalamazoo, Michigan, United States of America

    X
  • Krishna K. Niyogi,

    Affiliations: Howard Hughes Medical Institute, Department of Plant and Microbial Biology, University of California Berkeley, Berkeley, California, United States of America, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, California, United States of America

    X
  • John Ohlrogge,

    Affiliation: Department of Plant Biology, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Katherine W. Osteryoung,

    Affiliation: Department of Plant Biology, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Yair Shachar-Hill,

    Affiliation: Department of Plant Biology, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Barbara B. Sears,

    Affiliation: Department of Plant Biology, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Yanni Sun,

    Affiliation: Deptartment of Computer Science and Engineering, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Hideki Takahashi,

    Affiliation: Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Mark Yandell,

    Affiliation: Department of Human Genetics, University of Utah, Salt Lake City, Utah, United States of America

    X
  • Shin-Han Shiu mail,

    shius@msu.edu (S-HS); benning@msu.edu (CB)

    Affiliations: Cell and Molecular Biology Program, Michigan State University, East Lansing, Michigan, United States of America, Department of Plant Biology, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Christoph Benning mail

    shius@msu.edu (S-HS); benning@msu.edu (CB)

    Affiliation: Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, Michigan, United States of America

    X
  • Published: November 15, 2012
  • DOI: 10.1371/journal.pgen.1003064

About the Authors

Astrid Vieler, Blair Bullard, Adam J. Cornish, Christopher Harvey, Chelsea Thornburg, Christopher J. Buehl, Que Kong, Bensheng Liu, Steven Lundback, Rebecca L. Roston, Sanjaya, Allan TerBush, Simone Zäuner, Eric L. Hegg, Min-Hao Kuo, Hideki Takahashi, Christoph Benning
Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, Michigan, United States of America
Guangxi Wu, Christopher J. Buehl, Witawas Handee, Shin-Han Shiu
Cell and Molecular Biology Program, Michigan State University, East Lansing, Michigan, United States of America
Chia-Hong Tsai, Kevin L. Childs, Rahul Deshpande, Xiaobo Li, Cheng Peng, Jeffrey P. Simpson, Allan TerBush, Jaruswan Warakanont, Eva M. Farre, John Ohlrogge, Katherine W. Osteryoung, Yair Shachar-Hill, Barbara B. Sears, Shin-Han Shiu
Department of Plant Biology, Michigan State University, East Lansing, Michigan, United States of America
Chia-Hong Tsai, Ida-Barbara Reca, David Cavalier, Xiaobo Li, Cheng Peng
DOE–Plant Research Laboratory, Michigan State University, East Lansing, Michigan, United States of America
Rujira Achawanantakun, Yanni Sun
Deptartment of Computer Science and Engineering, Michigan State University, East Lansing, Michigan, United States of America
Michael S. Campbell, Mark Yandell
Department of Human Genetics, University of Utah, Salt Lake City, Utah, United States of America
Teresa J. Clark, Yan Lu
Department of Biological Sciences, Western Michigan University, Kalamazoo, Michigan, United States of America
Erika Erickson, Krishna K. Niyogi
Howard Hughes Medical Institute, Department of Plant and Microbial Biology, University of California Berkeley, Berkeley, California, United States of America
Erika Erickson, Krishna K. Niyogi
Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, California, United States of America
Ann Armenia Ferguson, Ning Jiang
Department of Horticulture, Michigan State University, East Lansing, Michigan, United States of America

Corresponding Authors

Competing Interests

CB and KKN are on the advisory board of Aurora Alga. AV was supported in part by a grant from Aurora Alga.

Author Contributions

Conceived and designed the experiments: AV GW S-HS CB BBS. Performed the experiments: AV BB C-HT CH CT I-BR AJC GW. Analyzed the data: AV GW RA CB BB MSC KLC TJC AJC RD EE EMF AAF WH ELH NJ QK M-HK XL BL YL SL KKN JO KWO CP I-BR RLR S YS-H BBS S-HS JPS YS HT AT C-HT JW MY SZ CJB. Contributed reagents/materials/analysis tools: MY. Wrote the paper: CB AV GW DC AJC RD EE EMF ELH NJ QK BL YL KKN JO I-BR RLR S YS-H BBS S-HS JPS YS HT AT C-HT.