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About Us1999 Faculty PublicationsGalletta, B.J., X.-P. Niu, M.R.S. Erickson, and S.M. Abmayr. Identification of a Drosophila homologue to Crk by interaction with MBC. Gene 228:243-252. Babitzke, P. and P. Gollnick. Attenuation of transcription. In: Encyclopedia of Molecular Biology, (T.E. Creighton, ed.), pp. 216-220, John Wiley & Sons, Inc., New York, NY. Gollnick, P. and P. Babitzke. Antitermination control of gene expression. In: Encyclopedia of Molecular Biology, (T.E. Creighton, ed.), pp. 173-177, John Wiley & Sons, Inc., New York, NY. Sudershana, S., H. Du, M. Mahalanabis, and P. Babitzke. A 5% stem loop participates in the transcription attenuation mechanism that controls expression of the Bacillus sbtilis trpEDCFBA operon. J. Bacteriol. 181:5742-5749. Frey, P.A. and S. Booker. Radical intermediates in the reaction of lysine 2,3-aminomutase. In: Advances in Free Radical Chemistry, Vol. 2, (S.Z. Zard, ed.), pp. 1-43, JAI press, Inc., Greenwich, CT. Licht, S., S. Booker, and J. Stubbe. Studies on the catalysis of carbon-cobalt bond homolysis by ribonucleoside triphosphate reductase: Evidence for concerted carbon-cobalt bond homolysis and thiyl radical formation. Biochemistry 38:1221-1233. Atlas, R.M. and J. Brenchley. Ecology and industrial microbiology: Biotechnology's expanding horizons. Curr. Opin. Microbiol. 2:233-235. Coombs, J.M. and J.E. Brenchley. Biochemical and phylogenetic analyses of a cold-active b -galactosidase from the lactic acid bacterium Carnobacterium piscicola BA. Appl. Environ. Microb. 65:5443-5450. Loveland-Curtze, J., P.P. Sheridan, K.R. Gutshall, and J.E. Brenchley. Biochemical and phylogenetic analyses of psychrophilic isolates belonging to the Arthrobactersubgroup and description of Arthrobacter psychrolactophilus, sp. nov. Arch. Microbiol.171:355-363. Gruber, T.M. and D.A. Bryant. An overview of sigma factors of RNA polymerase in phototrophic bacteria. In: The Phototrophic Prokaryotes, (G.A. Peschek, W. Löffelhardt, and G. Schmetterer, eds.), pp. 791-798, Plenum, Vienna. Gruber, T.M. and D.A. Bryant. Tracing the relationships among the eubacteria using s 70-type sigma factors. In: Enigmatic Microorganisms and Life in Extreme Environments, (J. Seckbach, ed.), pp. 3-13, Kluwer, Dordrecht, Netherlands. Mayer, K.L., G. Shen, D.A. Bryant. J.T.J. Lecomte, and C.J. Falzone. The solution structure of Photosystem I accessory protein E from the cyanobacterium Nostocsp. strain PCC 8009. Biochemistry 38:13736-13746. Nomura, C. and D.A. Bryant. Cytochrome c6 from Synechococcus sp. PCC 7002. In: The Phototrophic Prokaryotes, (G.A. Peschek, W. Löffelhardt, and G. Schmetterer, eds.), pp. 269-274, Plenum, Vienna. Sakamoto, T. and D.A. Bryant. A novel nitrate/nitrite permease in the marine cyanobacterium Synechococcus sp. strain PCC 7002. J. Bacteriol. 181:7363-7372. Sakamoto, T. and D.A. Bryant. Nitrate transport and not photoinhibition is the rate-limiting step for growth of the freshwater cyanobacterium Synechococcus sp. PCC 6301 at low temperature. Plant Physiol. 119:785-794. Yang, F., G. Shen, W.M. Schluchter, B. Zybailov, A. Ganago, J.H. Golbeck, and D.A. Bryant. Structural and functional analyses of cyanobacterial photosystem I: The directionality of electron transfer. In: The Phototrophic Prokaryotes, (G.A. Peschek, W. Löffelhardt, and G. Schmetterer, eds.), pp. 21-33, Plenum, Vienna. Arnold, J.J. and C.E. Cameron. Poliovirus RNA-dependent RNA polymerase, 3Dpol is sufficient for template switching in vitro. J. Biol. Chem. 274:2706-2716. Arnold, J.J., S.K.B. Ghosh, P.C. Bevilacqua, and C.E. Cameron. A rapid and efficient method for single-nucleotide resolution of RNA strands in the presence of their RNA complements. BioTechniques 27:450-456. Arnold, J.J., S.K.B. Ghosh, and C.E. Cameron. Poliovirus RNA-dependent RNA polymerase (3Dpol): Divalent cation modulation of primer, template and nucleotide selection. J. Biol. Chem. 274:37060-37069. Cameron, C.E. A review of: Hepatitis C protocols. In: Methods in Molecular Medicine, Vol. 19, (J.Y.-N. Lau, ed.), Q. Rev. Bio. 74:509-510. Gohara, D.W., C.S. Ha, S.K.B. Ghosh, J.J. Arnold, T.J. Wisniewski, and C.E. Cameron. Production of "authentic" poliovirus RNA-dependent RNA polymerase (3Dpol) by ubiquitin-protease-mediated cleavage in Escherichia coli. Protein Expres. Purif. 17:128-138. Alber, B.E., C.M. Colangelo, J. Dong, C.M.V. Stålhandske, T.T. Baird, C. Tu, C.A. Fierke, D.N. Silverman, R.A. Scott, and J.G. Ferry. Kinetic and spectroscopic characterization of the gamma carbonic anhydrase from the methanoarchaeon Methanosarcina thermophila. Biochemistry 40:13119-13128. Ferry, J.G. Enzymology of one-carbon reactions in methanogenic pathways. FEMS Microbiol. Rev. 23:12-38. Smith, K.S. and J.G. Ferry. A plant-type (b class) carbonic anhydrase from the thermophilic methanoarchaeon Methanobacterium thermoautotrophicum. J. Bacteriol. 181:6247-6253. Smith, K.S., C. Jakubzick, T.C. Whittam, and J.G. Ferry. Carbonic anhydrase is an ancient enzyme widespread in prokaryotes. Proc. Natl. Acad Sci. USA 96:15184-15189. Frisque, R.J. JC and BK viruses (Papovaviridae). In: Encyclopedia of Virology, Second Edition, (R.G. Webster and A. Granoff, eds.), pp. 876-883, Academic Press, London. Newman, J.T. and R.J. Frisque. Identification of JC virus variants in multiple tissues of pediatric and adult PML patients. J. Med. Virol. 58:79-86. Brubaker, K.D., M. Fei, and C.V. Gay. Localization of carbonic anhydrase in living osteoclasts with bodipy 558/568-modified acetazolamide, a thiadiazole carbonic anhydrase inhibitor. J. Hist. Cytochem. 47:545-550. Brubaker, K.D. and C.V. Gay. Depolarization of osteoclast plasma membrane potential by 17-estradiol. J. Bone Min. Res. 14:1861-1866. Brubaker, K.D. and C.V. Gay. Estrogen stimulates protein tyrosine phosphorylation and Src kinase activity in avian osteoclasts. J. Cell Biochem. 76:206-216. Brubaker, K.D. and C.V. Gay. Evidence for plasma membrane-mediated effects of estrogen. Calcif. Tissue Int. 64:459-462. Danks, J., C. Dacke, G. Flik, and C.V. Gay (eds.). Calcium Metabolism: Comparative Endocrinology, Bioscientifica Ltd., Bristol. Sugiyama, T., S. Kusuhara, and C.V. Gay. Parathyroid hormone and estrogen effects on adhesion of chicken medullary bone osteoclasts. In: Calcium Metabolism: Comparative Endocrinology, (J. Danks, C. Dacke, G. Flik, and C.V. Gay, eds.), pp. 107-112, Bioscientifica Ltd., Bristol. Cartwright, I.L., D.E. Cryderman, D.S. Gilmour, L.A. Pile, L.L. Wallrath, J.A. Weber, and S.C. Elgin. Analysis of Drosophila chromatin structure in vivo. Method. Enzymol. 304:462-96. Cryderman, D.E., H. Tang, C. Bell, D.S. Gilmour, and L.L. Wallrath. Heterochromatic silencing of Drosophila heat shock genes acts at the level of promoter potentiation. Nucleic Acids Res. 27:3364-70. Antonkine, M.L., C. Galzone, A. Hansen, F. Yang, and J.H. Golbeck. Chemical rescue of site-modified ligands to the iron-sulfur clusters of PsaC in photosystem I. In: Photosynthesis: Mechanisms and Effects, Vol. I, (G. Garab, ed.), pp. 659-662, Kluwer, Dordrecht, Netherlands. Golbeck, J.H. A comparative analysis of the spin state distribution of in vitroand in vivo mutants of PsaC. A biochemical argument for the sequence of electron transfer as FX -> FA -> FB -> ferredoxin. Photosynth. Res. 61:107-144. Hays, A.-M., I.R. Vassiliev, J.H. Golbeck, and R. Debus. Role of D1-His190 in the proton-coupled oxidation of tyrosine YZ in Mn-depleted photosystem II. Biochemistry 38:11851-11865. Lakshmi, K.V., Y.-S. Jung, J.H. Golbeck, and G.W. Brudvig. Location of the iron-sulfur clusters FA and FB in photosystem I: An electron paramagnetic resonance study of spin relaxation enhancement of P700+. Biochemistry 38:13210-13215. Mamedova, A.A., K.N. Gourovskaya, M.D. Mamedov, I. Vassiliev, J.H. Golbeck, and A.Yu Semenov. Electron transfer from the PsaC FA/FB clusters to external acceptors studied by electrometry. In: Photosynthesis: Mechanisms and Effects, Vol. I, (G. Garab, ed.), pp. 651-654, Kluwer, Dordrecht, Netherlands. Mamedova, A.A., M.D. Mamedov, K.N. Gourovskaya, I.R. Vassiliev, J.H.Golbeck, and A.Y. Semenov. Electrometrical study of electron transfer from the terminal FA/FB iron- sulfur clusters to external acceptors in photosystem I. FEBS Lett. 462:421-424. Reategui, R., W. Johnson, W. Xy, B. Zybailov, I. Vassiliev, G. Shen, J.H. Golbeck, and P. Chitnis. Mutational analysis of photosystem I: Function of Phylloquinones. In: Photosynthesis: Mechanisms and Effects, Vol. I, (G. Garab, ed.), pp. 515-520, Kluwer, Dordrecht, Netherlands. Redding, K., L. Cournac, I.R. Vassiliev, J.H. Golbeck, G. Peltier, and J.-D. Rochaix. Photosystem I is indispensable for photoautotrophic growth, CO2 fixation, and H2 photoproduction in Chlamydomonas reinhardtii. J. Biol. Chem. 274:10466-10473. Shen, G., M.L. Antonkine, I. Vassiliev, J.H. Golbeck, and D.A. Bryant. A rubredoxin-like protein plays an essential role in assembly of the FA, FB and FX iron-sulfur clusters in photosystem I. In: Photosynthesis: Mechanisms and Effects, Vol IV, (G. Garab, ed.), pp. 3147-3150, Kluwer, Dordrecht, Netherlands. Vassiliev, I.R., Y.-S. Jung, R. Schulz, L. McIntosh, and J.H. Golbeck. The cysteine-proximal aspartates in the FX-binding niche of photosystem I effect of alanine and lysine replacements on photoautotrophic growth, electron transfer rates, single-turnover flash efficiency, and EPR spectral properties. J. Biol. Chem. 274:9993-10001. Vassiliev, I., V. Shinkarev, and J.H. Golbeck. Electron transfer and redox equilibrium between the iron-sulfur clusters in photosystem I: FB is the terminal acceptor. In: Photosynthesis: Mechanisms and Effects, Vol. I, (G. Garab, ed.), pp. 655-658, Kluwer, Dordrecht, Netherlands. Zybailov, B., G. Shen, I. Vassiliev, D.A. Bryant, R. Reategui, W. Johnson, W. Xy, P. Chitnis, and J.H. Golbeck. Mutations in the phylloquinone biosynthetic pathway: A foreign quinone is recruited into the A1 binding site after inactivation of the menA and menB genes in Synechocystis sp. PCC 6803. In: Photosynthesis: Mechanisms and Effects, Vol. I, (G. Garab, ed.),pp. 647-650, Kluwer, Dordrecht, Netherlands. Elnitski, L. and R. Hardison. Efficient and reliable transfection of mouse erythroleukemia cells using cationic lipids. Blood Cell Mol. Dis. 25:299-304. Hardison, R. The evolution of hemoglobin: Studies of a very ancient protein suggest that changes in gene regulation are an important part of the evolutionary story. American Scientist 87:126-137. Stojanovic, N., L. Florea, C. Riemer, D.L. Gumucio, J. Slightom, M. Goodman, W. Miller, and R. Hardison. Comparison of five methods for finding conserved sequences in multiple alignments of gene regulatory regions. Nucleic Acids Res. 27:3899-3910. McCubbin, A. G. and T.-h. Kao. The emerging complexity of self-incompatibility (S-) loci. Sex Plant Reprod. 12:1-5. Ritchie, S., A.G. McCubbin, G. Ambrose, T.-h. Kao, and S. Gilroy. The sensitivity of barley aleurone tissue to GA is heterogeneous and may be spatially determined. Plant Physiol. 120:361-370. Tsukamoto, T., T. Ando, H. Kokubun, H. Watanabe, M. Masada, X. Zhu, E. Marchesi and T.-h. Kao. Breakdown of self-incompatibility in a natural population of Petunia axillaris (Solanaceae) in Uruguay containing both self-incompatible and self-compatible plants. Sex Plant Reprod. 12:6-13. Lai, Z.-C. and Y. Li. Tramtrack69 is positively and autonomously required for Drosophila photoreceptor development. Genetics 152:299-305. Price, M. and Z.-C. Lai. The yan gene is highly conserved in Drosophila and its expression suggests a complex role throughout development. Dev. Genes Evol.209:207-217. Baer, K., C. Essrich, J. A. Benson, D. Benke, H. Bluethmann, J.M. Fritschy, and B. Lüscher. Postsynaptic clustering of GABAA receptors by the g 3 subunit in vivo. Proc.Natl. Acad. Sci. USA 96:12860-12865. Crestani, F., M. Lorez, D. Benke, J.M. Fritschy, B. Lüscher, and H. Mohler. Impairment of GABAA receptor clustering results in enhanced anxiety responses and a cognitive bias for threat cues. Nature Neurosci. 2:833-839. Bush, J.A., W.J. Kraemer, A.M. Mastro. Exercise and recovery response of adrenal medullary neurohormones to heavy resistance exercise. Med. Sci. Sport Exer. 31:554-559. Krause, D., A.M. Mastro, G. Handte, H. Smiciklas-Wright, M.P. Miles, and N. Ahluwalia. Immune function did not decline with aging in apparently healthy, well-nourished women. Mech. Aging Dev. 121:43-57. Mastro, A.M., D.A. Schlosser, D.S. Grove, C. Lincoski, S.A. Pishak, S. Gordon, and W. J. Kraemer. Lymphocyte subpopulations in lymphoid organs of rats after acute resistance exercise. Med. Sci. Sport Exer. 31:74-81. You, J., A.M. Mastro, and C. Dong. Application of the dual micropipette technique to the measurement of tumor cell locomotion. Exp. Cell Res. 248:160-171. Maconochie, M., R. Krishnamurthy, S. Nonchev, P. Meier, M. Manzanares, P.J. Mitchell, and R. Krumlauf. Regulation of Hoxa2 in cranial neural crest cells involves members of the AP-2 family. Development 126:483-1494. Maytin, E., J.C. Lin, R. Krishnamurthy, N. Batchvarova, D. Ron, P.J. Mitchell, and J.F. Habener. Keratin 10 gene expression during differentiation of mouse epidermis requires transcription factors C/EBP and AP-2. Dev. Biol. 216:164-181. Leser, G.P., K.J. Ector, D.T.W. Ng, M.A. Shaughnessy, and R.A Lamb. The signal for clathrin-mediated endocytosis of the paramyxovirus SV5 HN protein resides at the transmembrane domain-ectodomain boundary region. Virology 262:79-92 Sojda, J., III, B. Gu, J. Lee, T.R. Hoover, and B.T. Nixon. A rhizobial homolog of IHF stimulates transcription of dctA in Rhizobium leguminosarum but not in Sinorhizobium meliloti. Gene 238:489-500. Coleman, R.A., A.K.P. Taggart, S. Burma, J.J. Chicca, II, and B.F. Pugh. TFIIA regulates TBP and TFIID dimers. Mol. Cell 4:451-457. Jackson-Fisher, A.J., S. Burma, M. Portnoy, L. Schneeweis, R.A. Coleman, M. Mitra, C. Chitikila, and B.F. Pugh. Dimer dissociation and thermosensitivity kinetics of the Saccharomyces cerevisiae and human TATA binding proteins. Biochemistry 38:11340-11348. Jackson-Fisher, A.J., C. Chitikila, M. Mitra, and B.F. Pugh. A role for TBP dimerization in preventing unregulated gene expression. Mol. Cell 3:717-727. Halleck, M.S., J. Lawler, S. Blackshaw, L. Gao, P. Nagarajan, C. Hacker, S. Pyle, J.T. Newman, Y. Nakanishi, H. Ando, D. Weinstock, P. Williamson, and R.A. Schlegel. Differential expression of putative transbilayer amphipath transporters. Physiol.Genomics 1:139-150. Krahling, S., M.K. Callahan, P. Williamson, and R.A. Schlegel. Exposure of phosphatidylserine is a general feature in the phagocytosis of apoptotic lymphocytes by macrophages. Cell Death Diff. 6:183-189. Mouro, I., M.S. Halleck, R.A. Schlegel, M.G. Mattei, P. Williamson, A. Zachowski, P. Devaux, J.-P. Cartron, and Y. Colin. Cloning, expression and chromosomal mapping of a human ATPase II gene, member of the third subfamily of P-type ATPases and orthologous to the presumed bovine and murine aminophospholipid translocase. Biochem. Biophys. Res. Comm. 257:333-339. Schlegel, R.A., S. Krahling, M.K. Callahan, and P. Williamson. CD14 is a component of multiple systems used by macrophages to phagocytose apoptotic lymphocytes. Cell Death Differ. 6:583-592. Verhoven, B., S. Krahling, R.A. Schlegel, and P. Williamson. Regulation of phosphatidylserine exposure and phagocytosis of apoptotic T lymphocytes. Cell Death Differ. 6:262-270. Westerman, M.P., D. Green, A. Gilman-Sachs, K. Beaman, S. Freels, L. Boggio, S. Allen, L. Zuckerman, R. Schlegel, and P. Williamson. Antiphospholipid antibodies, proteins C and S, and coagulation changes in sickle cell disease. J. Lab. Clin. Med. 134:352-362. Siegfried, E. Role of Drosophila wingless signaling in cell fate determination. In: Cell Lineage and Fate Determination, (S. Moody, ed.), pp. 249-266, Academic Press, San Diego, CA. Tsuda, M., K. Kamimura, H. Nakato, M. Archer, W. Staatz, B. Fox, M. Humphrey, S. Olson, T. Futch, V. Kaluza, E. Siegfried, L. Stam, and S. B. Selleck. The cell-surface proteoglycan dally regulates wingless signaling in Drosophila. Nature 400:276-80. Kladde, M.P., M. Xu, and R.T. Simpson. DNA methyltransferases as probes of chromatin structure in vivo. Method. Enzymol. 304:431-447. Ravindra, A., K. Weiss, and R.T. Simpson. High-resolution structural analysis of chromatin at specific loci: Saccharomyces cerevisiae silent mating-type locus HMRa. Mol. Cell Biol.19:7944-7950. Simpson, R.T. In vivo methods to analyze chromatin structure. Curr. Opin. Genet. Dev.9:225-229. Thomas, G.H. and J.A. Williams. Dynamic rearrangement of the spectrin membrane skeleton during the generation of epithelial polarity in Drosophila. J. Cell Science 112: 2843-2852. Zarnescu, D.C. and G.H. Thomas. Apical spectrin is essential for epithelial morphogenesis but not apico-basal polarity in Drosophila. J. Cell Biol. 146:1075-1086. Banci, L., I. Bertini, C. Capannoli, R. Del Conte, and M. Tien. Spectroscopic characterization of active mutants of manganese peroxidase: mutations on the proximal side affect calcium binding of the distal side. Biochemistry 38:9617-9625. Banci, L., S. Ciofi-Baffoni, and M. Tien. Lignin and Mn peroxidase-catalyzed oxidation of phenolic lignin oligomers. Biochemisty 38:3205-3210. Tien, M. Myeloperoxidase-catalyzed oxidation of tyrosine. Arch. Biochem. Biophys. 367:61-66. Tien, M., B.S. Berlett, R.L. Levine, P.B. Chock, and E.R. Stadtman. Peroxynitrite-mediated modification of proteins at physiological carbon dioxide concentration: pH dependence of carbonyl formation, tyrosine nitration, and methionine oxidation. Proc. Natl. Acad. Sci. USA 96:7809-7814. Allard, S., R.T. Utley, J. Savard, A. Clarke, P. Grant, C.J. Brandl, L. Pillus, J.L.Workman, and J. Côté. NuA4, an essential transcription adaptor/histone H4 acetyltransferase complex containing Esa1p and the ATM-related cofactor Tra1p. EMBO J. 18:5108-5119. Barlev, N.A., T. Owen-Hughes, J.L. Workman, and S.L. Berger. Functional analysis of the human Gcn5 histone acetyltransferase complex. Method. Enzymol. 304:696-715. Bazett-Jones, D.P., J. Côté, C.C. Landel, C.L. Peterson, and J.L. Workman. SWI/SNF complex creates loop domains in DNA and polynucleosome arrays and can disrupt DNA:histone contacts within these domains. 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A novel transactivation motif present in a class of helix-loop-helix proteins is conserved from yeast to mammals and stimulates transcription by direct recruitment of the SAGA histone acetyltransferase complex. Mol. Cell 4:63-73. Neely, K.E., A.H. Hassan, A.E. Wallberg, D.J. Steger, B.R. Cairns, A.P.H. Wright, and J.L. Workman. Activation domain-mediated targeting of the SWI/SNF complex to promoters stimulates transcription from nucleosome arrays. Mol. Cell. 4:649-655. Ohba, R., D.J. Steger, J.E. Brownell, C.A. Mizzen, R.G. Cook, J. Côté, J.L. Workman, and C.D. Allis. A novel H2A/H4 nucleosomal histone acetyltransferase in Tetrahymena thermophila. Mol. Cell. Biol. 19:2061-2068. Owen-Hughes, T., R.T. Utley, D.J. Steger, J. West, S. John, J. Cote, K.M. Harvas and J.L. Workman. Nucleosome reconstitution and analysis of transcription factor interactions. Method. Mol. Biol. 119:319-332. Steger, D.J. and J.L. Workman. Transcriptional analysis of purified histone acetyltransferase complexes. 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