Garrett A. Soukup, PhD
Garrett A. Soukup, PhD

Garrett A. Soukup, PhD

Professor
School of Medicine

Academic Appointments

Department

  • Biomedical Sciences

Position

  • Professor

Teaching Activity

  • 1. Enzymes, nucleic acid biochemistry and molecular biology.
  • 2. RNA structure, function, molecular recognition, and catalysis.
  • 3. RNA-mediated gene silencing in biology and biotechnology.

Education

  • Northwest Missouri State, B.S. Biology, 08/1987 - 12/1991
  • University of Nebraska Medical Center, Ph.D. Biochemistry & Molecular Biology, 07/1992 - 02/1997

Publications and Presentations

Articles

  • Kim J, Jeong S, Kertsburg A, Soukup GA, Lee SW. Conditional and target-specific transgene induction through RNA replacement using an allosteric trans-splicing ribozyme., ACS Chem Biol, 9, 2491-2495, 2014
  • Zhang Q, Liu H, Soukup GA, He DZZ. Identifying microRNAs involved in aging of the lateral wall of the cochlear duct., PLoS One, 9, e112857, 2014
  • Liu H, Pecka JL, Zhang Q, Soukup GA, Beisel KW, He DZZ. Characterization of transcriptomes of cochlear inner and outer hair cells., Journal of Neuroscience, 34, 11085-11095, 2014
  • Zhang Q, Liu H, McGee J, Walsh EJ, Soukup GA, He DZZ. Identifying microRNAs involved in degeneration of the organ of Corti during age-related hearing loss., PLoS One, 8, e62786, 2013
  • Barritt LC, Miller JM, Scheetz LR, Gardner K, Pierce ML, Soukup GA, Rocha-Sanchez SM. Conditional deletion of the human ortholog gene Dicer1 in Pax2-Cre expression domain impairs orofacial development., Indian Journal of Human Genetics, 18, 310-319, 2012
  • Kersigo J, D'Angelo A, Gray B, Soukup GA, Fritzsch B. The role of sensory organs and the forebrain for the development of the craniofacial shape as revealed by Foxg1-cre mediated microRNA loss., Genesis, 49, 326-341, 2011
  • Weston MD, Pierce ML, Jensen-Smith HC, Fritzsch B, Rocha-Sanchez S, Beisel KW, Soukup GA. MicroRNA-183 family expression in hair cell development and requirement of microRNAs for hair cell maintenance and survival., Developmental Dynamics, 240, 808-819, 2011
  • Gong AY, Hu G, Zhou R, Liu J, Feng Y, Soukup GA, Chen XM. MicroRNA-221 controls expression of intercellular adhesion molecule-1 in epithelial cells in response to Cryptosporidium parvum infection., Int J Parasitol, 41, 397-403, 2011
  • Klawuhn K, Jansen JA, Souchek J, Soukup GA, Soukup JK. Analysis of metal ion dependence in glmS ribozyme self-cleavage and coenzyme binding., Chembiochem, 11, 2567-1271, 2010
  • Soukup GA. Little but loud: small RNAs have a resounding affect on ear development., Brain Res, 1277, 104-114, 2009
  • Weston MD, Soukup GA. MicroRNAs sound off., Genome Medicine, 1, 59, 2009
  • Soukup GA, Fritzsch B, Pierce ML, Weston MD, Jahan I, McManus MT, Harfe BD. Residual microRNA expression dictates the extent of inner ear development in conditional Dicer knockout mice., Developmental Biology, 328, 328-341, 2009
  • Gong AY, Zhou R, Hu G, Li X, Splinter PL, O'Hara SP, LaRusso NF, Soukup GA, Dong H, Chen XM. MicroRNA-513 regulates B7-H1 translation and is involved in IFN-gamma-induced B7-H1 expression in cholangiocytes., Journal of Immunology, 182, 1325-1333, 2009
  • Soukup JK, Soukup GA. Identification of metabolite-riboswitch interactions using nucleotide analog interference mapping and suppression. In Methods in Molecular Biology: Riboswitches Methods and Protocols. Serganov A, Ed., Methods in Molecular Biology, 540, 193-206, 2009
  • Soukup JK, Soukup GA. Structure and mechanism of the glmS ribozyme. In Springer Series in Biophysics 13: Non-protein coding RNAs. Walters NG, Woodson SA, Batey RT, Eds., Springer Publishing, 129-143, 2009
  • Beisel K, Hansen L, Soukup G, Fritzsch B. Regenerating cochlear hair cells: quo vadis stem cell., Cell and Tissue Research, 333, 373-379, 2008
  • Pauley S, Kopecky B, Beisel K, Soukup G, Fritzsch B. Stem cells and molecular strategies to restore hearing., Panminerva Med, 50, 41-53, 2008
  • Pierce ML, Weston MD, Fritzsch B, Gabel HW, Ruvkun G, Soukup GA. MicroRNA-183 family conservation and expression in ciliated neurosensory organs., Evolution & Development, 10, 106-113, 2008
  • Fritzsch B, Beisel KW, Pauley S, Soukup G. Molecular evolution of the vertebrate mechanosensory cell and ear., International Journal of Developmental Biology, 51, 663-678, 2007
  • Weston MD, Pierce ML, Rocha-Sanchez S, Beisel KW, Soukup GA. MicroRNA gene expression in the mouse inner ear., Brain Res, 1111, 95-104, 2006
  • Jansen JA, McCarthy TJ, Soukup GA, Soukup JK. Backbone and nucleobase contacts to glucosamine-6-phosphate in the glmS ribozyme., Nature Structural & Molecular Biology, 13, 517-523, 2006
  • Soukup GA. Allosteric ribozymes as molecular sensors and genetic regulatory switches. In Nucleic Acid Switches and Sensors. Silverman SK, Ed., Landes Bioscience, 3-24, 2006
  • Soukup GA. Core requirements for glmS ribozyme self-cleavage reveal a putative pseudoknot structure., Nucleic Acids Research, 34, 968-975, 2006
  • McCarthy TJ, Plog MA, Floy SA, Jansen JA, Soukup JK, Soukup GA. Ligand requirements for glmS ribozyme self-cleavage., Chemistry & Biology, 12, 1221-1226, 2005
  • Soukup GA. Aptamers meet allostery., Chemistry & Biology, 11, 1031-1032, 2004
  • Soukup JK, Soukup GA. Riboswitches exert genetic control through metabolite-induced conformational change., Current Opinion in Structural Biology, 14, 344-349, 2004
  • Steele D, Kertsburg A, Soukup GA. Engineered catalytic RNA and DNA: New biochemical tools for drug discovery and design., Am. J. Pharmacogenomics, 3, 131-144, 2003
  • Kertsburg A, Soukup GA. A versatile communication module for controlling RNA folding and catalysis., Nucleic Acids Research, 30, 4599-4606, 2002
  • Soukup GA. Nucleic acids: general properties. In Encyclopedia of Life Sciences., Macmillian Reference USA, www.els.net, 2001
  • Soukup GA, DeRose EC, Koizumi M, Breaker RR. Generating new ligand-binding RNAs by disintegration and affinity maturation of allosteric ribozymes., RNA, 7, 524-536, 2001
  • Jose AM, Soukup GA, Breaker RR. Cooperative binding of effectors by an allosteric ribozyme., Nucleic Acids Research, 29, 1631-1637, 2001
  • Soukup GA, Breaker RR. Allosteric Ribozymes. In Ribozme Biochemistry and Biotechnology., Eaton Publishing, 149-170, 2000

Editing and Reviews

  • Catalytic RNA. In Progress in Molecular Biology and Translational Science. Soukup GA, Ed., Academic Press, 120, 2013

Presentations

  • "Phylogenetic Conservation and Expression of Neurosensory MicroRNAs in Mechanosensory Organs." Association for Research in Otolaryngology (ARO) Mid-Winter Meeting, Denver, CO, 2007
  • "Neurosensory MicroRNA Expression in the Developing Mouse Inner Ear and Dependence on Sensory Cell Specification." Association for Research in Otolaryngology (ARO) Mid-Winter Meeting, Denver, CO, 2007
  • "Neurosensory MicroRNA Expression in the Developing Mouse Inner Ear and Dependence on Sensory Cell Specification." Keystone Conference on MicroRNAs and siRNAs: Biological Functions and Mechanisms, Keystone, CO, 2007
  • "Phylogenetic Conservation and Expression of Neurosensory MicroRNAs in Mechanosensory Organs." Keystone Symposia on MicroRNAs and siRNAs: Biological Functions and Mechanisms, Keystone, CO, 2007
  • "Identification of Novel MicroRNAs Expressed in the Mouse Inner Ear." Keystone Symposia on MicroRNAs and siRNAs: Biological Functions and Mechanisms, Keystone, CO, 2007
  • "Riboswitch Regulation of Gene Expression." Nebraska INBRE Program, Omaha, NE, 2006
  • "Structure and Mechanism of a Metabolic Ribozyme." Federation of American Societies for Experimental Biology (FASEB) Summer Research Conference on Nucleic Acid Enzymes, Saxtons River, VT, 2006
  • "MicroRNA Expression in the Mouse Inner Ear." Association for Research in Otolaryngology (ARO) Mid-Winter Meeting, Baltimore, MD, 2006
  • "Coenzyme function of glucosamine-6-phosphate in the glmS ribozyme." Gordon Research Conference on Nucleic Acids, Newport, RI., 2005
  • "MicroRNA expression in a developing mammalian neurosensory organ." Promoted Talk at Gordon Research Conference on Nucleic Acids, Newport, RI., 2005
  • "Investigation of microRNA expression in mouse ear development." Association for Research in Otolaryngology Mid-Winter Meeting, New Orleans, LA., 2005
  • "RNA catalysts in biology." Nebraska BRIN/INBRE program, Omaha, NE., 2004
  • "Core requirements of a natural metabolite-reponsive ribozyme reveal a putative pseudoknot structure." RNA Conference, Madison, WI, 2004
  • "Development of self-cleaving and self-splicing allosteric ribozymes for regulating RNA function and gene expression." Gordon Research Conference: Nucleic Acids, Newport, RI., 2003
  • "RNA interference: The sound of silence." Department of Biomedical Sciences, Creighton University, Omaha, NE., 2003
  • "A versatile communication module for controlling RNA folding and catalysis", RNA Conference, Madison, WI, 2002
  • "RNA as target and tool for genetic regulation and biosensor development", AAAS Southwest and Rocky Mountain Regional Meeting, Omaha, NE, 2001
  • "Allosteric Ribozymes: Structural Dynamics and the Challenge of Selection", Archemix Corporation, Boston, Massachusetts., 2001
  • "Allosteric Ribozymes: Biotechnology and Biomedicine", Veterans Affairs Medical Center, Omaha, Nebraska., 2001

Research and Scholarship

Research and Scholarship Interests

  • 1. Role of microRNAs in mammalian ear development and neurosensory specification.
    2. MicroRNA promotion of neurosensory hair cell differentiation.
    3. RNA-ligand interactions and RNA catalysis in riboswitch regulation of gene expression.

Current Research Projects

  • Role of microRNA-183 family in neurosensory hair cell and sensory neuron development in the mouse inner ear.

Awards and Honors

  • PCT - glmS RIBOSOME COENZYMES AND METHODS (Patent No: PCT/US06/21965), 2006
  • glmS RIBOZYME COENZYMES AND MTHODS OF USE THEREOF (Patent No: 60/687,717), 2005
  • RIBOZYME-REGULATED SMALL INHIBITORY RNA (siRNA) PRODUCTION AND METHODS OF USE THEREOF (Patent No: PCT/US04/017,034), 2004
  • Ribozyme-Regulated Small Inhibitory RNA (siRNA) Production and Methods of Use Thereof (Patent No: 60/474,001), 2003