Martha J. Fedor
Professor
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Department of Chemical Physiology,
Department of Molecular Biology and
The Skaggs Institute for Chemical Biology
The Scripps Research Institute, MB35
10550 North Torrey Pines Road
La Jolla, CA 92037
Phone: (858) 784-2770
Fax: (858) 784-2779
Email: mfedor@scripps.edu
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EDUCATION:
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University of Michigan, Ann Arbor, Michigan, B.S., 1976. Field: Zoology
University of California, Berkeley, California, Ph.D., 1982. Field: Molecular Biology
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HONORS:
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Leukemia Society of America Postdoctoral Fellow
Bank of America Giannini Foundation Postdoctoral Fellow
Phi Beta Kappa
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MAJOR RESEARCH INTERESTS:
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Nucleic Acid Structure and Function
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PROFESSIONAL POSITIONS:
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2007-present:
Associate Professor, Department of Chemical Physiology
The Scripps Research Institute
Area of Research: RNA Folding and Catalysis |
1997-present:
Associate Professor, Department of Molecular Biology and The Skaggs Institute for Chemical Biology
The Scripps Research Institute
Area of Research: RNA Folding and Catalysis |
1991-1997:
Assistant Professor, Department of Biochemistry and Molecular Biology
University of Massachusetts Medical Center
Area of Research: RNA Folding and Catalysis |
1988-1990:
Postdoctoral Fellow, Department of Chemistry and Biochemistry
University of Colorado at Boulder
Principal Investigator: Dr. Olke C. Uhlenbeck
Area of Research: The Kinetic Mechanism of the Hammerhead Ribozyme |
1982-1988:
Postdoctoral Fellow, Department of Structural/Cell Biology
Stanford University School of Medicine
Principal Investigator: Dr. Roger D. Kornberg
Area of Research: Chromatin Structure of the GAL1-10 Transcription Unit |
1977-1982:
Graduate Student, Department of Molecular Biology
University of California, Berkeley
Principal Investigator: Dr. Ellen Daniell
Area of Research: Adenovirus Chromatin Structure and Gene Regulation
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PROFESSIONAL ACTIVITIES:
Professional Society Service
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Chair, RNA Society Nominations Committee, 1999.
Member, Board of Directors of the RNA Society, 2001-2002.
Chair, RNA Society Nominations Committee, 2005.
Co-Chair, RNA Society Junior Scientist Committee, 2009 to present.
Member, RNA Society Nominations Committee, 2011.
Editor in Chief, Journal of Biological Chemistry, January 1, 2011 to present. |
Ad hoc Review Panels
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American Cancer Society Nucleic Acids and Proteins Scientific Review Committee, 1992.
National Cooperative Drug Discovery Group for HIV Special Review Committee, NIH-NIAID, 1993.
NIH, GM A-2 Study Section, January 1994.
American Cancer Society Institutional Research Grants Committee, U. Massachusetts, February 1994.
NIGMS MBRS Cellular and Molecular Biology Review Panel, October 2-3, 1996.
NIH, Molecular Biology Study Section, February 11-12, 1999.
NIH, Biochemistry Study Section, June 17-18, 1999.
Joint Infrastructure Fund, The Wellcome Trust, November 1999.
The Petroleum Research Fund, 2000.
The Wellcome Trust, 2000.
National Science Foundation, September 2001.
NIGMS ZRG PBC BCS Special Emphasis Panel, March 5-6, 2002.
NIH, Biochemistry Study Section, October 17-18, 2002.
NIGMS ZRG PBC BCS Special Emphasis Panel, December 2-3, 2002.
The Wellcome Trust, 2004.
Quinquennial Review Committee of the Cancer Research UK Nucleic Acid Structure Research Group
at the University of Dundee, May 25, 2004.
Facilitator for Biochemistry, Molecular Genetics, Genetics, and Evolution Discussion Group
at the Center for Scientific
Review Biomolecular Open House at the National Institutes of Health,
Bethesda, Maryland, December 18, 2007.
NIH, EUREKA Peer Review Panel, February-April, 2009.
National Science Foundation, March 2009.
Distinguished Editor, NIH Challenge Grant Stage 2 Review Panel, July 2009.
NIH, Basic Sciences Distinguished Editorial Panel, July 20-21, 2009.
National Science Foundation, March 2010.
Member, CSR College of Reviewers, January 2010 to present.
NIH, EUREKA Peer Review Panel, February-April, 2010.
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Study Section Service
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Member, NIH, Biochemistry Study Section, July 1, 2003 through June 30, 2004.
Member, NIH MSFA Study Section, July, 2004 through February, 2007.
Chair, NIH, MSFE Study Section, February, 2007 through June, 2008. |
Session Chairs at Meetings
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Ribozymes Session Chair, American Society of Biochemistry and Molecular Biology / Biophysical Society Meeting,
Houston, Texas, February 9-13, 1992.
Session Coordinator, RNA Folding, RNA 2000, Madison, Wisconsin, May 30-June 4, 2000.
Session Chair, Catalytic Nucleic Acids, Nucleic Acids Gordon Research Conference, Salve Regina University,
Newport, Rhode Island, June 1-6, 2003.
Session Chair, Nucleic Acid Enzymology, Enzymes, Coenzymes & Metabolic Pathways Gordon Research Conference, University of New England, July 13-18, 2008.
Session Chair, Catalytic RNA, Fourteenth Annual Meeting of the RNA Society, Madison, Wisconsin, May 26-31, 2009. |
Meeting Organization
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Co-organizer, RNA Based Life Meeting, Indiana University, November 16-18, 2001.
Co-organizer, RNA 2004, Ninth Annual Meeting of the RNA Society, Madison, Wisconsin, June 1-6, 2004.
Vice-Chair, Nucleic Acids Gordon Research Conference, Salve Regina University, Newport, Rhode Island, June 6-11, 2004.
Co-chair, Nucleic Acids Gordon Research Conference, Salve Regina University, Newport, Rhode Island, June 5-10, 2005.
Organizer, RNA-themed Symposia, ASBMB, 2010. |
Professional Society Memberships
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American Association for the Advancement of Science
American Chemical Society
American Society for Biochemistry and Molecular Biology
RNA Society |
Editorial Boards
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Member, Editorial Board of RNA, January 1, 2005 to present.
Member, Editorial Board of the Journal of Biological Chemistry, July 1, 2003 through March 15, 2006.
Associate Editor, Journal of Biological Chemistry, March 15, 2006 to present. |
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RESEARCH SUPERVISION:
Postdoctoral Fellows, Current
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Julia Viladoms Claverol, Ph.D., 2008 University of Barcelona |
Graduate Student, Current
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Peter Watson |
Postdoctoral Fellows, Past
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Lisa A. Hegg, Ph.D., 1996 Clark University, Worcester, MA
Project Leader, CVM Medicine Development, GlaxoSmithKline, Collegeville, PA |
Kimberly A. Gillis, Ph.D., 1994 Clark University, Worcester, MA
Staff Scientist, Baxter HealthCare, Norwood, MA |
Heidi A. Erlacher, Ph.D., 1999 Massachusetts Institute of Technology
Associate, Intellectual Property Section, Mintz Levin, Boston |
Kumud K. Singh, Ph.D., 2001 Biophysics, University of Delhi, India
Assistant Project Scientist, Pediatric Infectious Diseases, Univ. of California, San Diego |
Tracy A. Vivlemore, Ph.D., 2001 University of Rochester
Examiner, US Patent and Trademark Office, Washington, DC |
Lori L. Lebruska, Ph.D., 2001 Mayo Foundation
Science writer, Illumina Corp., San Diego, CA |
Ramesh S. Yadava, Ph.D., 2003 Jawaharlal Nehru University, New Delhi, India
Postdoctoral Fellow, Department of Pathology, University of Virginia |
Yaroslav I. Kuzmin, Ph.D., 2005 University of Massachusetts, Amherst
Assistant Professor, Novgorod State University, Russia |
Jason W. Harger, Ph.D., 2006 University of Medicine and Dentistry of New Jersey
Staff Scientist, Illumina Corp., San Diego, CA |
Manami R. Saha, Ph.D., 2006 Indiana University
Research Associate, The Scripps Research Institute, La Jolla, CA. |
| Carla P. DaCosta, Ph.D., 2007 University of Basel |
| Lu Liu, Ph.D., 2006 Brandeis University |
| Lichun Li, Ph.D., 2007 Texas A & M University |
| Steffen Grimm, Ph.D., 2007 University of Frankfurt |
Graduate Student, Past
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Christine P. Donahue, Ph.D., 1993-1999
Postdoctoral Fellow, Center for Neurological Disease, Harvard Institutes of Medicine |
Research Advisory/Thesis Committees, Current
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William Ridgeway
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Research Advisory/Thesis Committees, Past
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Marion Bryan
Ing Wei Khor
Roshan Kumar
Tracey Lincoln
Andrea Manuell
Michelle McKinney
Megan Trevathan
Vickie Tsui
Sarah Voytek
Anne Bunner
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PUBLICATIONS:
| Fedor, M. J. and Daniell, E. (1980) Acetylation of Histone-like Proteins of Adenovirus Type 5. J. Virol. 35, 637-643. |
| Daniell, E., Groff, D.E., and Fedor, M. J. (1981) Structure of Adenovirus Chromatin at Different Stages of Infection. Mol. Cell. Biol. 1, 1094-1105. |
| Fedor, M.J. (1982) Structure and Function of Adenovirus Chromatin. Ph.D. Dissertation. University of California, Berkeley. |
| Daniell, E., Burg, J. L., and Fedor, M. J. (1982) DNA and Histone Synthesis in Butyrate-Inhibited BSC-1 Cells infected with SV40. Virology 116, 196-206. |
| Daniell, E. and Fedor, M. J. (1982) Transcription of Adenovirus Cores In Vitro: Major RNA Products Differ from those made from a DNA Template. Proc. Natl. Acad. Sci. 79, 1834-1838. |
| Fedor, M. J. and Daniell, E. (1983) Ionic and Nonionic Interactions in Adenoviral Nucleoprotein Complexes. J. Virol. 47, 370-375. |
| Fedor, M. J. and Daniell, E. (1983) DNase I Cleavage of Adenoviral Nucleoprotein. Nucleic Acids Res. 11, 4417-4434. |
| Fedor, M. J., Lue, N. F., and Kornberg, R. D. (1988) Statistical Positioning of Nucleosomes by Specific Protein-Binding to an Upstream Activating Sequence in Yeast. J. Mol. Biol. 204, 109-127. |
| Fedor, M. J. and Kornberg, R. D. (1989) Upstream Activating Sequence-Dependent Alteration of Chromatin Structure and Transcription Activation of the Yeast GAL1-GAL10 Genes. Mol. Cell. Biol. 9, 1721-1732. |
| Uhlenbeck O. C., Dahm, S. C., Ruffner, D. E., and Fedor, M. J. (1989) Structure and Mechanism of the Hammerhead Self-cleaving Domain. Nucleic Acids Symp. Ser. 21, 95-96. |
| Fedor, M. J. and Uhlenbeck, O. C. (1990) Substrate Sequence Effects on "Hammerhead" RNA Catalytic Efficiency. Proc. Natl. Acad. Sci. 87, 1668-1672. |
| Fedor, M. J. (1992) Chromatin Structure and Gene Expression. Current Opinion in Cell Biology 4, 436-443. |
| Fedor, M. J. and Uhlenbeck, O. C. (1992) Kinetics of Intermolecular Cleavage by Hammerhead Ribozymes. Biochemistry 31, 12042-12054. |
| Fedor, M. J. (1994) A Slippery Grip. News and Views. Nature Structural Biology 1, 267-269. |
| Hegg, L. A. and Fedor, M. J. (1995) Kinetics and Thermodynamics of Intermolecular Catalysis by Hairpin Ribozymes. Biochemistry 34, 15813-15828. |
| Fedor, M. J. (1997) Capturing a Speeding Locomotive. Book Review. Cell 88, 589-592. |
| Donahue, C. P. and Fedor, M. J. (1997) Kinetics of Hairpin Ribozyme Cleavage in Yeast. RNA 3, 961-973. |
| Nesbitt, S., Hegg, L. A. and Fedor, M. J. (1997) An Unusual pH-independent and Metal-Ion-Independent Mechanism for Hairpin Ribozyme Catalysis. Chemistry & Biology 4, 619-630. |
| Fedor, M. J. (1998) Ribozymes. Current Biology 8, R441-R443. |
| Nesbitt, S. M., Erlacher, H. A. and Fedor, M. J. (1999) The Internal Equilibrium of the Hairpin Ribozyme: Temperature, Ion and pH Effects. J. Mol. Biol. 286, 1009-1024. |
| Fedor, M. J. (1999) Tertiary Structure Stabilization Promotes Hairpin Ribozyme Ligation. Biochemistry 38, 11040-11050. |
| Fedor, M. J., Donahue, C. P. and Nesbitt, S. M. (2000) Hairpin Ribozyme Activity In Vitro and In Vivo. In Ribozymes. Technology and Applications pp. 205-226 (R.K. Gaur and G. Krupp, Eds.) Eaton Publishing, Natick,
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| Donahue, C. P., Yadava, R. S., Nesbitt, S. M. and Fedor M. J. (2000) The Kinetic Mechanism of the Hairpin Ribozyme in Vivo: Influence of RNA Helix Stability on Intracellular Cleavage Kinetics. J. Mol. Biol. 295,
693-707. |
| Fedor, M. J. (2000) Structure and Function of the Hairpin Ribozyme. Review. J. Mol. Biol. 297, 269-291. |
| Yadava, R. S., Choi, A. J., Lebruska, L. L. and Fedor, M. J. (2001) Hairpin Ribozymes with Four-way Helical Junctions Mediate Intracellular RNA Ligation. J. Mol. Biol. 309, 893-902. |
| Lebruska, L. L., Kuzmine, I. I., and Fedor M. J. (2002) Rescue of an Abasic Hairpin Ribozyme by Cationic Nucleobases: Evidence for a Novel Mechanism of RNA Catalysis. Chemistry & Biology 9, 465-473. |
| Fedor, M. J. (2002) The Role of Metal Ions in RNA Catalysis. Current Opinion in Structural Biology, 12, 289-295. |
| Fedor, M. J. (2002) RNA Biochemistry From A to Z. Book review. Cell 109, 20-22. |
| Fedor, M .J. (2002) The Catalytic Mechanism of the Hairpin Ribozyme. Biochemical Society Transactions 30(6), 1109-1115. |
| Fedor, M. J. and Westhof, E. (2002) Ribozymes: The First 20 Years. Meeting Report. Molecular Cell 10, 703-704. |
| Fedor, M. J. (2004) Determination of Kinetic Parameters for Hammerhead and Hairpin Ribozymes. In Catalytic Nucleic Acid Enzymes, Methods in Molecular Biology 252, 19-32, The Humana Press, New Jersey. |
| Yadava, R. S., Mahen, E. M., and Fedor, M. J. (2004) Kinetic Analysis of Ribozyme-Substrate Complex Formation in Yeast. RNA 10(5), 863-879. |
| Kuzmin, Y. I., Da Costa, C .P., and Fedor, M. J. (2004) Role of an Active Site Guanine in Hairpin Ribozyme Catalysis Probed by Exogenous Nucleobase Rescue. J. Mol. Biol. 340, 233-251. |
| Fedor, M. J. and Williamson, J. R. (2005) The catalytic diversity of RNAs. Solicited review. Nat. Rev. Mol. Cell Biol. 6, 399-412. |
| Kuzmin, Y. I., Da Costa, C. P., Cottrell, J. W. and Fedor, M. J. (2005) Role of an Active Site Adenine in Hairpin Ribozyme Catalysis. J. Mol. Biol. 349, 989-1010. |
| Mahen, E. M., Harger, J. H., Calderon, E. M., and Fedor, M. J. (2005) Kinetics and Thermodynamics make Different Contributions to RNA Folding In Vitro and In Yeast. Mol. Cell. 19, 27-37. |
| Da Costa, C. P., Fedor, M. J. and Scott, L. (2007) 8-Azaguanine Reporter of Purine Ionization States in Structured RNAs. J. Am. Chem. Soc. 129, 3426-3432. |
| Cottrell, J. W., Kuzmin, Y. I. and Fedor M. J. (2007) Functional Analysis of Hairpin Ribozyme Active Site Architecture. J. Biol. Chem.282, 13498-13507. |
| Fedor, M. J. (2008) Alternative Splicing Minireview Series: Combinatorial Control Facilitates Splicing Regulation of Gene Expression and Enhances Genome Diversity. J. Biol. Chem. 283, 1209-1210. |
| Fedor, M. J. (2009) Comparative Enzymology and Structural Biology of RNA Self-Cleavage. Annu. Rev. Biophys. 38, 271-299. |
| Liu, L., Cottrell, J. W., Scott, L. G. and Fedor M. J. (2009) Direct Measurement of the Ionization State of an Essential Guanine in the Hairpin Ribozyme. Nat. Chem. Biol. 5(5): 351-357. |
| Watson, P. Y. and Fedor, M. J. (2009) Determination of Intracellular RNA Folding Rates Using Self-Cleaving RNAs. Methods Enzymol. 468, 259-286. |
| Mahen, E.M., Watson, P.Y., Cottrell, J.W. and Fedor, M.J. (2010) mRNA Secondary Structures Fold Sequentially but Exchange Rapidly In Vivo. PLoS Biol. 8(2), e1000307. |
| Cottrell, J.W., Scott, L.G., and Fedor, M.J. (2011) The pH dependence of hairpin ribozyme catalysis reflects ionization of an active site adenine. J. Biol. Chem. 286, 17658-17664. |
Watson, P.Y. and Fedor, M.J. (2011) The glmS Riboswitch Integrates Signals from Activating and Inhibitory Metabolites In Vivo. Nat. Struct. Molec. Biol. 18, 359-363.
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