Judy Callis
Professor
jcallis@ucdavis.edu
Molecular & Cellular Biology
Office
103A Briggs Hall
752-1015
Lab
752-1014
Degrees:
1987
PhD
Stanford University
Biology
1981
MA
University of Illinois, Urbana-Champaign
Botany
1977
BA
Washington University
Biology
Research Interests:
The ubiquitin pathway is a protein modification pathway, whereby the protein ubiquitin is covalently attached to other proteins. This alters the longevity, activity or localization of the ubiquitinated protein. We are interested in understanding the specificity and regulation of the ubiquitin pathway. We try to understand how proteins are recruited to the ubiquitinating enzymes. There are are large number of ubiquitinating enzymes whose functions are not known. We are taking a reverse genetics approach to understand the function of RING E3 ligases which interact with substrate proteins and catalyze ubiquitin transfer. We also study a ubiquitin-like protein, RUB, for Related to ubiquitin, and are trying to identify RUB-modified proteins in plants. We use a variety of techniques- biochemistry, molecular biology and genetics.
Awards:
Elected Fellow, American Association for the Advancement of Science 2002
National Science Foundation Presidential Young Investigator Faculty Award, 1991-1996.
NSF Postdoctoral Fellowship in Plant Biology, 1987-1989.
NIH Predoctoral Trainee, 1981-1983.
Paul K. and Ruth R. Stumpf Endowed Chair in Plant Biochemistry
Davis Division of Academic Senate Distinguished Undergraduate Teaching Award 2008-2009
ASUCD Excellence in Education Award, 2004
Department and Center Affiliations:
Department of Molecular and Cellular Biology
Secondary Member, Department of Plant Biology
Professional Societies:
American Society for Biochemistry and Molecular Biology
American Society of Plant Biologists
Genetics Society of America
International Society for Plant Molecular Biologists
CBS Graduate Group Affiliations:
Biochemistry, Molecular, Cellular and Developmental Biology
Genetics
Plant Biology
Specialties / Focus:
Biochemistry, Molecular, Cellular and Developmental Biology
Genomics, Proteomics and Metabolomics
Plant Biochemistry and Molecular Biology
Signal Transduction and Gene Regulation
Genetics
Model Plants
Plant Biology
Cell and Developmental Biology
Molecular Biology, Biochemistry, and Genomics
Publications:
Last updated 4/11/2012
Réjane Pratelli, Damian D. Guerra, Shi Yu, Mark Wogulis, Edward Kraft, Wolf B. Frommer, Judy Callis and Guillaume Pilot 2012 The Ubiquitin E3 Ligase LOSS OF GDU2 Is Required for GLUTAMINE DUMPER1-Induced Amino Acid Secretion in Arabidopsi. Plant Physiology 158:1628-1642.
Hotton, SK., Eigenheer, RA., Castro, MF., Bostick M., and Callis, J. 2011 AXR1-ECR1 and AXL1-ECR1 heterodimeric RUB-activating enzymes diverge in function in Arabidopsis thaliana Plant Mol. Biology, 75: 515-526
Hsia, MM. and Callis, J. 2010 BRIZ1 and BRIZ2 proteins form a heteromeric E3 ligase complex required for seed germination and post-germination growth in Arabidopsis thaliana. J. Biol. Chem., 285:37070-37081
Berrocal-Lobo, M, Stone, S, Yang, X, Antico, J, Callis, J, Ramonell, KM, Somerville, S. 2010 ATL9, a RING Zinc Finger Protein with E3 Ubiquitin Ligase Activity Implicated in Chitin- and NADPH Oxidase-Mediated Defense Responses. Plos One vol 5, issue 12. 10.1371/journal.pone.0014426
Gilkerson, J. Hu, J. Brown, J. Jones, J. Sun, T-P. and Callis J. 2009 Isolation and Characterization of cul1-7, a Recessive Allele of CULLIN1 that Disrupts SCF Function at the C-terminus of CUL1 in Arabidopsis thaliana Genetics, 181:945-963
Jowett, J., Ramos, J. and Callis, J. 2008 Degradation of auxin response factor ARF1 Plant J. 54: 118-128
Hotton, S. and Callis, J 2008 Regulation of Cullin-based E3 ligases Ann. Rev. Plant Biol. 59: 469-489
Kraft, E., Bostick, M., Jacobsen, S., and Callis, J. 2008 ORTH/VIM proteins that regulate DNA methylation are functional ubiquitin E3 ligases. Plant J. 56: 704-715
Dreher, K.A. and Callis, J. 2007 Ubiquitin, Hormones and Biotic Stress in Plants. Annals of Bot. 9: 787 - 822.
Stone SL, Callis J. Ubiquitin ligases mediate growth and development by promoting protein death. Curr Opin Plant Biol. 2007 Sep 10; PMID: 17851112
Doelling JH, Phillips AR, Soyler-Ogretim G, Wise J, Chandler J, Callis J, Otegui MS, Vierstra
The Ubiquitin-Specific Protease Subfamily UBP3/UBP4 Is Essential for Pollen Development and Transmission in Arabidopsis. Plant Physiol. 2007 Sep 28, PMID: 17905865
Scherer GF, Zahn M, Callis J, Jones AM. A role for phospholipase A in auxin-regulated gene expression. FEBS Lett. 2007 581:4205-11
Johnson, L.M., Bostick, M. Zhang, X, Kraft, E., Henderson, I., Callis, J. and Jacobsen, S.E. 2007 The SRA Methyl-Cytosine-Binding Domain Links DNA and Histone Methylation. Current Biology 17, 1-6
Stone, S.L., Williams, L.A., Farmer, L.M., Vierstra, R.D. and Callis, J. 2006 KEEP ON GOING, a RING E3 ligase essential for Arabidopsis growth and development, is involved in abscisic acid signaling. Plant Cell 18, 3415-3428
Dreher, K., Brown, J. Saw, R. and Callis, J. 2006 The Arabidopsis Aux/IAA Protein Family Has Diversified in Degradation and Auxin Responsiveness. The Plant Cell, 18, 699-714.
Callis, J. 2005 Plant biology: Auxin action (Invited commentary) Nature 435, 436-437
Kraft, E., Stone, S., Ma, L., Su, N., Gao, Y., Lau, O., Deng, X-W, and Callis, J. 2005 Genome Analysis and Functional Characterization of the E2 and RING domain E3 Ligase Ubiquitination Enzymes of Arabidopsis thaliana Plant Physiol., 139, 1597-1611.
Callis, J and Ling, R 2005 Preparation, Characterization, and Use of Tagged Ubiquitins. Methods in Enzymol. 399, 51-64
Figueroa, P., Gusmaroli, G., Serino, G., Habashi, J., Ma, L., Shen, Y., Feng, S., Bostick, M., Callis, J., Hellmann, H., and Deng, X-W. 2005 Arabidopsis Has Two Redundant Cullin3 Proteins That Are Essential for Embryo Development and that Interact with RBX1 and BTB Proteins to Form Multisubunit E3 Ubiquitin Ligase Complexes in Vivo. Plant Cell 17, 1180-1195
Stone, S., Hauksdottir, H., Troy, A., Herschleb, J., Kraft, E., and Callis, J. 2005 Functional analysis of the RING type ubiquitin ligase family of Arabidopsis thaliana L. Plant Physiol., 137: 13-30.
Laplaza, J.M.+, Bostick, M.+, Scholes, D.T., Curcio, M.J., and Callis, J. 2004
Saccharomyces cerevisiae ubiquitin-like protein Rub1p conjugates to cullin family members Rtt101p and Cul3p in vivo. Biochemical Journal 377:459-467. +these authors contributed equally to the work.
Magnolia Bostick, Stephanie R. Lochhead, Adria Honda, Scott Palmer, and Judy Callis 2004 RUB1 and RUB2 (Related to Ubiquitin) are redundant, essential, and regulate vegetative growth, auxin signaling, and ethylene production in Arabidopsis, Plant Cell 16, 2418-2432
Zenser, N., Dreher, K.A. Edwards, S.R., and Callis, J. 2003. Acceleration of Aux/IAA proteolysis is specific for auxin and independent of AXR1 Plant J. 35: 285-294.
Yoshida, S., Ito, M., Callis, J., Nishida, I. and Watanabe, A. 2002. A delayed leaf senescence mutant is defective in arginyl-tRNA : protein arginyltransferase, a component of the N-end rule pathway in Arabidopsis. Plant J. 32:129-137.
Linghu, B., Callis, J., and Goebl, M. 2002 Rub1p processing by Yuh1p is required for wild-type levels of Rub1p conjugation to Cdc53p. Eukaryotic Cell, 1: 491-494.
Ramos, JA, Zenser, N, Leyser, O, and Callis, J 2001
Rapid Degradation of Auxin/Indoleacetic Acid Proteins Requires Conserved Amino Acids of Domain II and Is Proteasome Dependent
Plant Cell 13: 2349-2360.
Schwechheimer C, Serino G, Callis J, Crosby WL, Lyapina S, Deshaies R, Gray WL, Estelle M and X-W Deng. 2001. Interactions of the COP9 Signalosome with the E3 Ubiquitin Ligase SCFTIR in Mediating Auxin Response. Science 292:1379-1382.
Zenser N, Ellsmore A, Leasure C, and J Callis. 2001. Auxin modulates the degradation rate of Aux/IAA proteins. Proceedings of the National Academy of Sciences USA. 98:11795-11800
McClinton, R. S.; Chandler, J. S.; Callis, J. 2001
cDNA isolation, characterization, and protein intracellular localization of a katanin-like p60 subunit from Arabidopsis thaliana.
Protoplasma . 216 (3-4): 181-190.
Callis, J; Vierstra, RD. 2000
Protein degradation in signaling.
Current Opinion in Plant Biology 3: 381-6.
Worley, CK; Zenser, N; Ramos, J; Rouse, D; Leyser, O; Theologis, A; Callis, J. 2000
Degradation of Aux/IAA proteins is essential for normal auxin signalling.
Plant Journal 21: 553-62.
Ling, R; Colon, E; Dahmus, ME; Callis, J. 2000
Histidine-tagged ubiquitin substitutes for wild-type ubiquitin in Saccharomyces cerevisiae and facilitates isolation and identification of in vivo substrates of the ubiquitin pathway.
Analytical Biochemistry 282: 54-64.
Rao-Naik, C; Chandler, JS; McArdle, B; Callis, J. 2000
Ubiquitin-specific proteases from Arabidopsis thaliana: cloning of AtUBP5 and analysis of substrate specificity of AtUBP3, AtUBP4, and AtUBP5 using Escherichia coli in vivo and in vitro assays.
Archives of Biochemistry and Biophysics 379: 198-208.
Callis, J; Vierstra, RD. 2000
Protein degradation in signaling.
Current Opinion in Plant Biology 3: 381-6.
Teaching Interests:
Biochemistry- I teach BIS103, called Bioenergetics and metabolism. I co-teach Plant Biochemistry. I also teach an undergraduate seminar in Biochemistry/Molecular Biology.
http://
Courses:
BIS
103
Energetics and Metabolism
Winter,Spring
MCB
138
Undergraduate Seminar
Winter
MCB
126
Plant Biochemistry
Winter,Spring