A Map of the Interactome Network of the Metazoan C. elegans

doi:10.1126/science.1091403

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Originally published in Science Express on 2 January 2004
Science 23 January 2004:
Vol. 303. no. 5657, pp. 540 - 543
DOI: 10.1126/science.1091403

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A Map of the Interactome Network of the Metazoan C. elegans

Siming Li,¹^* Christopher M. Armstrong,¹^* Nicolas Bertin,¹^* Hui Ge,¹^* Stuart Milstein,¹^* Mike Boxem,¹^* Pierre-Olivier Vidalain,¹^* Jing-Dong J. Han,¹^* Alban Chesneau,¹^,2^* Tong Hao,¹ Debra S. Goldberg,³ Ning Li,¹ Monica Martinez,¹ Jean-François Rual,¹^,4 Philippe Lamesch,¹^,4 Lai Xu,⁵ Muneesh Tewari,¹ Sharyl L. Wong,³ Lan V. Zhang,³ Gabriel F. Berriz,³ Laurent Jacotot,¹ Philippe Vaglio,¹ Jérôme Reboul,¹ Tomoko Hirozane-Kishikawa,¹ Qianru Li,¹ Harrison W. Gabel,¹ Ahmed Elewa,¹^|| Bridget Baumgartner,⁵ Debra J. Rose,⁶ Haiyuan Yu,⁷ Stephanie Bosak,⁸ Reynaldo Sequerra,⁸ Andrew Fraser,⁹ Susan E. Mango,¹⁰ William M. Saxton,⁶ Susan Strome,⁶ Sander van den Heuvel,¹¹ Fabio Piano,¹² Jean Vandenhaute,⁴ Claude Sardet,² Mark Gerstein,⁷ Lynn Doucette-Stamm,⁸ Kristin C. Gunsalus,¹² J. Wade Harper,⁵ Michael E. Cusick,¹ Frederick P. Roth,³ David E. Hill,¹^¶ Marc Vidal¹^¶^#

To initiate studies on how protein-protein interaction (or "interactome")networks relate to multicellular functions, we have mapped alarge fraction of the Caenorhabditis elegans interactome network.Starting with a subset of metazoan-specific proteins, more than4000 interactions were identified from high-throughput, yeasttwo-hybrid (HT=Y2H) screens. Independent coaffinity purificationassays experimentally validated the overall quality of thisY2H data set. Together with already described Y2H interactionsand interologs predicted in silico, the current version of theWorm Interactome (WI5) map contains $~$ 5500 interactions. Topologicaland biological features of this interactome network, as wellas its integration with phenome and transcriptome data sets,lead to numerous biological hypotheses.

¹ Dana-Farber Cancer Institute and Department of Genetics, Harvard Medical School, 44 Binney Street, Boston, MA 02115, USA.
² Institut de Génétique Moléculaire, Centre National de la Recherche Scientifique UMR 5535, 1919 Route de Mende, 34293 Montpellier Cedex 5, France.
³ Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, 250 Longwood Avenue, Boston, MA 02115, USA.
⁴ Unité de Recherche en Biologie Moléculaire, Facultés Notre-Dame de la Paix, 61 Rue de Bruxelles, 5000 Namur, Belgium.
⁵ Verna and Marrs Department of Biochemistry and Molecular Biology, Program in Cell and Molecular Biology, Biophysics, and Biology, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030, USA.
⁶ Department of Biology, Indiana University, Jordan Hall 142, 1001 East Third Street, Bloomington, IN 47405, USA.
⁷ Department of Molecular Biophysics and Biochemistry and Department of Computer Science, Yale University, 266 Whitney Avenue, New Haven, CT 06520, USA.
⁸ Agencourt Bioscience Corporation, 100 Cummings Center, Suite 107G, Beverly, MA 01915, USA.
⁹ The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SA, UK.
¹⁰ Huntsman Cancer Institute, University of Utah, 2000 Circle of Hope, Salt Lake City, UT 84112, USA.
¹¹ Massachusetts General Hospital Cancer Center, Building 149, 13th Street, Charlestown, MA 02129, USA.
¹² Department of Biology, New York University, 1009 Silver Building, 100 Washington Square East, New York, NY 10003, USA.

^* These authors contributed equally to this work.

Present address: Department of Pathology, Harvard Medical School,200 Longwood Avenue, Boston, MA 02115, USA.

Present address: Modul-Bio, 232 Boulevard Sainte-Marguerite,13009 Marseille, France.

Present address: INSERM, Unité 119, Institut Paoli Calmettes,13009 Marseille, France.

^|| Present address: Program in Gene Function and Expression, Universityof Massachusetts, 55 Lake Avenue, North Worcester, MA 01605,USA.

^¶ Present address: Center for Cancer Systems Biology and Departmentof Cancer Biology, Dana-Farber Cancer Institute and Departmentof Genetics, Harvard Medical School, 44 Binney Street, Boston,MA 02115, USA.

^# To whom correspondence should be addressed. E-mail: marc_vidal{at}dfci.harvard.edu.

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