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1997 Faculty Publications

Erickson, M.R., B.J. Galletta, and S.M. Abmayr. Drosophila myoblast city Encodes a Conserved Protein that is Essential for Myoblast Fusion, Dorsal Closure, and Cytoskeletal Organization. J. Cell Biol. 138:589-603.

Keller, C.A., M.-R.S. Erickson, and S.A. Abmayr. Misexpression of nautilus Induces Myogenesis in Cardioblasts and Alters the Pattern of Somatic Muscle Fibers. Dev. Biol. 181:197-212.

Lin, M.-H., B.A. Bour, S.A. Abmayr, and R.V. Storti. Ectopic Expression of MEF2 in the Epidermis Induces Epidermal Expression of Muscle Genes and Abnormal Muscle Development in Drosophila. Dev. Biol. 182:240-255.

Babitzke, P. Regulation of Tryptophan Biosynthesis: Trp-ing the TRAP or How Bacillus subtilis Reinvented the Wheel. Mol. Microbiol. 26:1-9.

Hansen, D., R. Tarpey, and P. Babitzke. The trp RNA-binding Attenuation Protein Regulates TrpG Synthesis by Binding to the trpG Ribosome Binding Site of Bacillus subtilis. J. Bacteriol. 179:2582-2586.

J.M. Bollinger, Jr., C.Krebs, A. Vicol, S. Chen, B.A. Ley, D.E. Edmondson, and B.H. Huynh. Engineering the Diiron Site of Escherichia coli Ribonucleotide Reductase Protein R2 to Accumulate an Intermediate Similar to H_peroxo, the Putative Peroxodiiron (III) Complex from the Methane Monooxygenase Catalytic Cycle. J. Am. Chem. Soc. 120:1094-1095.

D.S. Kwon, C.-H. Lin, S. Chen, J.K. Coward, C.T. Walsh, and J.M. Bollinger, Jr. Dissection of Glutathionylspermidine Synthetase/Amidase from Escherichia coli into Autonomously Folding and Functional Synthetase and Amidase Domains. J. Biol. Chem. 272:2429-2436.

Lin, C.-H., D.S. Kwon, J.M. Bollinger, Jr., and C.T. Walsh. Evidence for a Glutathionyl-Enzyme Intermediate in the Amidase Activity of The Bifunctional Glutathionylspermidine Synthetase/Amidase from Escherichia coli. Biochemistry 36:14930-14938.

Parkin, S.E., S. Chen, B.A. Ley, L. Mangravite, D.E. Edmondson, B.H. Huynh, and J.M. Bollinger, Jr. Electron Injection through a Specific Pathway Determines the Outcome of Oxygen Activation at the Diiron Cluster in the F208Y Mutant of Escherichia coli Ribonucleotide Reductase Protein R2. Biochemistry 37:1124-1130.

DePrada, P., and J. Brenchley. Purification and Characterization of Two Extracellular Alkaline Phosphatases from a Psychrophilic Arthrobacter Isolate. Appl. Environ. Microbiol. 63:2928-2931.

Gutshall, K., K. Wang, and J. Brenchley. A Novel Arthrobacter -galactosidase with Homology to Eucaryotic -galactosidases. J. Bacteriol. 179:3064-3067.

Caslake, L., T.M. Gruber, and D.A. Bryant. Expression of Two Alternative Sigma Factors of Synechococcus sp. Strain PCC 7002 is Modulated by Carbon and Nitrogen Stress. Microbiology 143:3807-3818.

Gruber, T.M. and D.A. Bryant. Molecular Systematic Studies of Eubacteria Using ⁷⁰-type Sigma Factors of Group 1 and Group 2. J. Bacteriol. 179:1734-1747.

Löffelhardt, W., W.J. Bohnert, and D.A. Bryant. The Cyanelles of Cyanophora paradoxa. Crit. Rev. Plant Physiol. 16:393-413.

Löffelhardt, W., W.J. Bohnert, and D.A. Bryant. The Complete Sequence of the Cyanophora paradoxa Cyanelle Genome. In: Origins of the Algae and Their Plastids. (D. Bhattacharya, ed.), pp. 149-162, Springer-Verlag, Vienna, Austria.

Löffelhardt, W., V.L. Stirewalt, C.B. Michalowski, M. Annarella, J.Y. Farley, W.M. Schluchter, S. Chung, C. Newmann-Spallart, J.M. Steiner, J. Jakowitsch, H.J. Bohnert, and D.A. Bryant. The Complete Sequence of the Cyanelle Genome of Cyanophora Paradoxa: The Genetic Complexity of a Primitive Plastid. In: Eukaryotism and Symbiosis. (H.E.A. Schenk, R. Herrmann, K.W. Jeon, N.E. Muller, and W. Schwemmler, eds.), pp. 40-48, Springer, Heidelberg, Germany.

Sakamoto, T., and D.A. Bryant. Temperature-regulated mRNA Accumulation and Stabilization for Fatty Acid Desaturase Genes in the Cyanobacterium Synechococcus sp. Strain PCC 7002. Mol. Microbiol. 23:1281-1292.

Sakamoto, T., S. Higashi, H. Wada, N. Murata, and D.A. Bryant. Low-temperature Induced Desaturation of Fatty Acids and Expression of Desaturase Genes in the Cyanobacterium Synechococcus sp. Strain PCC 702. FEMS Microbiol. Lett. 52:313-320.

Sakamoto, T., V.L. Stirewalt, and D.A. Bryant. Two Acyl-lipid 9 Desaturase Genes of the Cyanobacterium Synechococcus sp. PCC 7002. In: Physiology, Biochemistry, and Molecular Biology of Plant Lipids. (J.P. Williams, M.U. Khan, and N.W. Lem, eds.), pp. 380-382, Kluwer Academic, Dordrecht, Netherlands.

Cameron, C.E., M. Ghosh, S.F.J. LeGrice, and S.J. Benkovic. Mutations in HIV Reverse Transcriptase which Alter RNAse H Activity and Decrease Strand Transfer Efficiency are Suppressed by HIV Nucleocapsid Protein. Proc. Natl. Acad. Sci. USA 94:6700-6705.

Cameron, C.E., and S.J. Benkovic. Evidence for a Functional Role of the Dynamics of Glycine-121 of Escherichia coli Dihydrofolate Reductase Obtained from Kinetic Analysis of a Site-Directed Mutant. Biochemistry 36:15792-15800.

Shao, H., M.D. Robek, D.S. Threadgill, L.S. Mankowski, C.E. Cameron, F.J. Fuller, and S.J. Payne. Characterization and Mutational Studies of Equine Infectious Anemia Virus dUTPase. Biochim. Biophy. Acta. 1339:181-191.

Dunbar, J., H. Yennawar, S. Banerjee, J. Luo, and G.K. Farber. The Effect of Denaturants on Protein Structure. Protein Science 6:1727-1733.

Jayasekera, M.M.K., W. Shi, G.K. Farber, and R.E. Viola. Evaluation of Functionally Important Amino Acids in L-Aspartate Ammonia-Lyase from Escherichia coli. Biochemistry 36:9145-9150.

Shi, W., J. Dunbar, M.M.K. Jayasekera, R.E. Viola, and G.K. Farber. The Structure of L-Aspartate Ammonia-lyase from Escherichia coli. Biochemistry 36:9136-9144.

Buss, K.A., C. Ingram-Smith, J.G. Ferry, D.A. Sanders, and M.S. Hasson. Crystallization of Acetate Kinase from Methanosarcina thermophila and Prediction of its Fold. Protein Science 6:2659-2662.

Ferry, J.G. Enzymology of the Fermentation of Acetate to Methane by Methanosarcina thermophila. BioFactors 6:25-35.

Ferry, J.G. Methane: Small Molecule Big Impact. Science 278:1413-1414.

Rasche, M.E., K.S. Smith, and J.G. Ferry. Identification of Cysteine and Arginine Residues Essential for the Phosphotransacetylase from Methanosarcina thermophila. J. Bacteriol. 179:7712-7717.

Newman, J.T., and R.J. Frisque. Detection of Archetype and Rearranged Variants of JC Virus in Multiple Tissues from a Pediatric PML Patient. J. Med. Virol. 52:243-252.

May, L.G., and C.V. Gay. Multiple G-Protein Involvement in Parathyroid Hormone Regulation of Acid Production by Osteoclasts. J. Cell. Bioch. 64:161-170.

May, L.G., and C.V. Gay. Parathyroid Hormone Uses Both Adenylate Cyclase and Protein Kinase C to Regulate Acid Production in Osteoclasts. J. Cell. Bioch. 65:565-573.

Praul, C.A., C.V. Gay, and R.M. Leach, Jr. Chondrocytes of the Tibial Dyschondroplastic Lesion are Apoptotic. Int. J. Dev. Biol. 41:621-626.

Troyan, M.B., V.R. Gilman, and C.V. Gay. Mitochondrial Membrane Potential Changes in Osteoblasts Treated with Parathyroid Hormone and Estradiol. Exp. Cell Res. 233:274-280.

Weber, J.A., D.J. Taxman, Q. Lu, and D.S. Gilmour. The Molecular Architecture of the hsp70 Promoter after Deleting the TATA Box or the Upstream Regulatory Region. Mol. Cell. Biol. 17:3799-3808.

Gourovskaya, K.N., M.D. Mamedov, I.R. Vassiliev, J.H. Golbeck, and A.Y. Semenov. Electrogenic Reduction of the Primary Electron Donor P700⁺ in Photosystem I by Redox Dyes. FEBS Lett. 414:193-196.

Jung, Y.-S., I.R. Vassiliev, and J.H. Golbeck. Crossover of a High-Spin (S=7/2, 3/2) to a Low-Spin (S=1/2) Iron-Selenium Cluster in F_A and F_B of Photosystem I on Rebinding of PsaC onto P700-F_X Cores. J. Biol. Inorg. Chem. 2:209-217.

Jung, Y.-S., I.R. Vassiliev, J. Yu, L. McIntosh, and J.H. Golbeck. Strains of Synechocystis sp. PCC 6803 with Altered PsaC II. EPR and Optical Spectroscopic Properties of F_A and F_B in Aspartate, Serine, and Alanine Replacements of Cysteines l4 and 5l. J. Biol. Chem. 272:8040-8049.

Rathinasabapathi, B., M. Burnet, B.L. Russell, D.A. Gage, P.-C. Liao, G.J. Nye, P. Scott, J.H. Golbeck, and A.D. Hanson. Choline Monooxygenase, an Unusual Iron-Sulfur Enzyme Catalyzing the First Step of Glycine Betaine Synthesis in Plants: Prosthetic Group Characterization and cDNA Cloning. Proc. Natl. Acad. Sci. USA 94:3454-3458.

Scott, M.P., B. Kjoer, H.V. Scheller, and J.H. Golbeck. Redox Titration of Two [4Fe-4S] Clusters in the Photosynthetic Reaction Center from the Anaerobic Green Sulfur Bacterium Chlorobium vitrioforme. Eur. J. Biochem. 244:454-461.

Vassiliev, I.R., Y.-S. Jung, M.D. Mamedov, A.Y. Semenov, and J.H. Golbeck. Near-IR Absorbance Changes and Electrogenic Reactions in the Microsecond-to-Second Time Domain in Photosystem I. Biophys. J. 72:301-315.

Yu, J., I.R. Vassiliev, Y.-S. Jung, J.H. Golbeck, and L. McIntosh. Strains of Synechocystis sp. PCC 6803 with Altered PsaC. I. Mutations Incorporated in the Cysteine Ligands of the Two [4Fe-4S] Clusters F_A and F_B of Photosystem I. J. Biol. Chem. 272:8032-8039.

Yu, L., J. Golbeck, J. Yao, and F. Rusnak. Spectroscopic and Enzymatic Characterization of the Active Site Dinuclear Metal Center of Calcineurin: Implications for a Mechanistic Role. Biochemistry 36:10727-10734.

Batycky, R.P., R. Hammerstedt, and D.A. Edwards. Osmotically Driven Intracellular Transport Phenomena. Phil. Trans. R. Soc. Lond. 355:2459-2488.

Nolan, J.P., and R.H. Hammerstedt. Regulation of Membrane Stability and the Acrosome Reaction in Mammalian Sperm. FASEB J. 11:670-682.

Hammerstedt, R.H., and J.C. Andrews. Metabolic Support of Normothermia. In: Reproductive Tissue Banking. (A. Karow and J. Crister, eds), pp. 139-166, Academic Press, New York.

Elnitski, L., W. Miller, and R.C. Hardison. Conserved E Boxes Function as Part of the Enhancer in Hypersensitive Site 2 of the a-Globin Locus Control Region. J. Biol. Chem. 272:369-378.

Hardison, R.C., J. Oeltjen, and W. Miller. Long Human-Mouse Sequence Alignments Reveal Novel Regulatory Elements: A Reason to Sequence the Mouse Genome. Genome Res. 7:959-966.

Hardison. R.C., J.L. Slightom, D.L. Gumucio, M. Goodman, N. Stojanovic, and W. Miller. Locus Control Regions of Mammalian a-globin Gene Clusters: Combining Phylogenetic Analyses and Experimental Results to Gain Functional Insights. Gene 205:73-94.

Shewchuk, B.M., and R.C. Hardison. CpG Islands from the a-Globin Gene Cluster Increase Gene Expression in an Integration-Dependent Manner. Mol. Cell. Biol. 17:5856-5866.

Slightom, J.L, J.H. Bock, D.A. Tagle, D.L. Gumucio, M. Goodman, N. Stojanovic, J. Jackson, W. Miller, and R.C. Hardison. The Complete Sequences of the Galago and Rabbit a-Globin Locus Control Regions: Extended Sequence and Functional Conservation Outside the Cores of DNAse Hypersensitive Sites. Genomics 39:90-94.

Stojanovic, N., P. Berman, D. Gumucio, R.C. Hardison, and W. Miller. A Linear-Time Algorithm for the 1-Mismatch Problem. In: Algorithms and Data Structures. (F. Dehne, A. Rau-Chaplin, J.-R. Sack, and R. Tamassia, eds.), pp. 126-135, Springer, New York, N.Y.

Shelton, D.A., L. Stegman, R.C. Hardison, W. Miller, J.H. Bock, J.L. Slightom, M. Goodman, and D.L. Gumucio. Phylogenetic Footprinting of Hypersensitive Site 3 of the a-Globin Locus Control Region. Blood 89:3457-3469.

Tang, D.C., D. Ebb, R.C. Hardison, and G.P. Rodgers. Restoration of the CCAAT Box or Insertion of the CACCC Motif Activate a-Globin Gene Expression. Blood 90:421-427.

Slivinsky, G.G., W.C. Hymer, J. Bauer, D.R. Morrison. Cellular Electrophoretic Mobility Data: A First Approach to a Database. Electrophoresis 18:1109-1119.

Gilbert, S.P., M.L. Moyer, and K.A. Johnson. Alternating Site Mechanism of the Kinesin ATPase. Biochemistry 37:792-799.

Hacker, K.J., and K.A. Johnson. A Hexameric Helicase Encircles One DNA Strand and Excludes the Other during DNA Unwinding. Biochemistry 36:14080-14087.

Moyer, M.L., S.P. Gilbert, and K.A. Johnson. Pathway of ATP Hydrolysis by Monomeric and Dimeric Kinesin. Biochemistry 37:800-813.

Suo, Z., and K.A. Johnson. Effect ofRNA Secondary Structure on RNA Cleavage by HIV-1 Reverse Transcriptase. Biochemistry 36:12468-12476.

Suo, Z., and K.A. Johnson. Effect of RNA Secondary Structure on the Kinetics of DNA Synthesis Catalyzed by HIV-1 Reverse Transcriptase. Biochemistry 36:12459-12467.

Suo, Z., and K.A. Johnson. RNA Secondary Structure Switching during DNA Synthesis Catalyzed by HIV-1 Reverse Transcriptase. Biochemistry 36:14778-14785.

Kao, T.-h., and A.G. McCubbin. Molecular and Biochemical Bases of Gametophytic Self-Incompatibility in Solanaceae. Plant Physiol. Biochem. 35:171-176.

Lee, H.-S., Y.-Y. Chung, C. Das, B. Karunanandaa, J.L. van Went, C. Mariani, and T.-h. Kao. Embryo Sac Development is Affected in Petunia inflata Plants Transformed with an Antisense Gene Encoding the Extracellular Domain of Receptor Kinase PRK1. Sex Plant Reprod. 10:341-350.

McCubbin, A.G., Y-Y. Chung, and T.-H. Kao. A Mutant S₃ Rnase of Petunia inflata Lacking Rnase Activity has an Allele-specific Dominant Negative Effect on Self-incompatibility Interactions. Plant Cell 9:85-95.

Balczarek, K.A., Z.-C. Lai, and S. Kumar. Evolution and Functional Diversification of the Paired Box (Pax) DNA-binding Domains. Mol. Biol. Evol. 14:829-842.

Lai, Z.-C., M. Fetchko, and Y. Li. Repression of Drosophila Photoreceptor Cell Fate Through Cooperative Action of Two Transcriptional Repressors Yan and Tramtrack. Genetics 147-1131-1137.

Li, S., Y. Li, R.W. Carthew, and Z.-C. Lai. Photoreceptor Cell Differentiation Requires Regulated Proteolysis of the Transcriptional Repressor Tramtrack. Cell 90:469-478.

Ellis, L.A., A.M. Mastro, and M.F. Picciano. Do Milk-Borne Cytokines and Hormones Influence Neonatal Immune Cell Function? J. Nutr. 127:985S-988S.

Gunes, H., S. Zawilla, and A.M. Mastro. Prolactin Receptor Expression by Splenocytes from Rats in Various Hormonal States. Cell Prolif. 30:127-137.

Gunes, H., and A.M. Mastro. Prolactin Receptor Gene Expression in Rat Splenocytes and Thymocytes during Oestrous Cycle, Pregnancy and Lactation. Cell Prolif. 30:219-235.

Mastro, A.M., and M.F. Picciano. Effects of Reduced Milk Intake on Lymphocytes of Neonatal Rats. Endocr. Reg. 31:9-13.

Mustad, V.A., T.D. Etherton, A.D. Cooper, A.M. Mastro, T.A. Pearson, S.S. Jonnalagadda, and P.M. Kris-Etherton. Reducing Saturated Fat Intake is Associated with Increased Levels of LDL Receptors on Mononuclear Cells in Healthy Men and Women. J. Lip. Res. 38:459-468.

Carlini, L.E. and R.D. Porter. Analysis of ssb Mutations in vivo Implicates SSB Protein in Two Distinct Pathways of SOS Induction and in Recombinational DNA Repair. Mol. Microbiol. 24:129-139.

Booth, B.L., and B. F. Pugh. Identification and Characterization of a Nuclease Specific for the 3' End of the U6 Small Nuclear RNA. J. Biol. Chem. 272:984-991.

Coleman, R.A., and B.F. Pugh. Slow Dimer Dissociation of the TATA Binding Protein Dictates the Kinetics of DNA Binding. Proc. Natl. Acad. Sci. USA 94:7221-7226.

Pugh, B.F. Dynamics of Transcription Complex Assembly. In: Transcription Factors in Eukaryotes. (A.G. Papavassiliou, ed.), pp. 37-50, R.G. Landes Company Biomedical, Austin, TX.

Weideman, C.A., R.C. Netter, L.R. Benjamin, J.J. McAllister, L.A. Schmiedekamp, R.A. Coleman, and B.F. Pugh. Dynamic Interplay of TFIIA, TBP, and TATA DNA. J. Mol. Biol. 271:61-75.

Walker, S.S., W.-C. Shen, J.C. Reese, L.M. Apone, and M.R. Green. Yeast TAF₁₁145 Required for Transcription of G1/S Cyclin Genes and Regulated by the Cellular Growth State. Cell 90:607-614.

Pradhan, D., S. Krahling, P. Williamson, and R.A. Schlegel. Multiple Systems for Recognition of Apoptotic Lymphocytes by Macrophages. Mol. Biol. Cell 8:767-778.

Westerman, M.P., K. Bailey, S. Freels, R. Schlegel, and P. Williamson. Assessment of Painful Episode Frequency in Sickle-Cell Disease. Am. J. Hematol. 54:183-188.

Gavin, I., and R.T. Simpson. Interplay of Yeast Global Transcriptional Regulators Ssn6p-Tup1p and Swi-Snf and Their Effect on Chromatin Structure. EMBO J. 16:6263-6271.

Weiss, K., and R.T. Simpson. Cell Type-specific Chromatin Organization of the Region that Governs Directionality of Yeast Mating Type Switching. EMBO J. 16:4352-4360.

Inoue, K., B.W. Dreyfuss, K.L. Kindle, D.B. Stern, S. Merchant, and O.A. Sodeinde. Ccs1, a Nuclear Gene Required for the Post-translational Assembly of Chloroplast c-Type Cytochromes. J. Biol.Chem. 272:31747-31754.

Holst, B., C. Tachibana, and J.R. Winther. Active Site Mutations in Yeast Protein Disulfide Isomerase Cause Dithiothreitol Sensitivity and a Reduced Rate of Protein Folding in the Endoplasmic Reticulum. J. Cell Biol. 138:1229-1238.

Praul, C.A. and W.D. Taylor. Responses of Halobacterium halobium and Sulfolobus solfataricus to Hydrogen Peroxide and N-methyl-N-nitrosoguanidine Exposure. Microbial Res. 152:257-260.

Muse, S.V., A.G. Clark, and G.H. Thomas. Comparisons of the Nucleotide Substitution Process Among Repetitive Segments of the - and -Spectrin Genes. J. Mol. Evol. 44:492-500.

Thomas, G.H., E.C. Newbern, C.C. Korte, M.A. Bales, S.V. Muse, A.G. Clark, and D.P. Kiehart. Intragenic Duplication and Divergence in the Spectrin Superfamily of Proteins. Mol. Biol. Evol. 14:1285-1295.

Janse, B.J.H., J. Gaskell, D. Cullen, L. Zapanta, M.J. Dougherty, and M. Tien. Are Bacteria Omnipresent on Phanerochaete chrysosporium Burdsall? Appl. Environ. Microbiol. 63:2913-2914.

Tien, M. and D. Ma. Oxidation of 4-Methoxymandelic Acid by Lignin Peroxidase. J. Biol. Chem. 272:8912-8917.

Whitwam, R.E., K.R. Brown, M. Musick, M.J. Natan, and M. Tien. Mutagenesis of the Mn²⁺-Binding Site of Manganese Peroxidase Affects Oxidation of Mn²⁺ by both Compound I and Compound II. Biochemistry 36:9766-9773.

Grant, P.A., L. Duggan. J. Côté, S.M. Robert, J.E. Brownell, R. Candau, R. Ohba, T. Owen-Hughes, C.D. Allis, F. Winston, S.L. Berger, and J.L. Workman. Yeast Gen5 Functions in two Multisubunit Complexes to Acetylate Nucleosomal Histones: Characterization of an ADA Complex and the SAGA (Spt/Ada) Complex. Genes Dev. 11:1640-1650.

Juan, L.-J., R.T. Utley, M. Vignali, L. Bohm, and J.L. Workman. Histone H1 Repression of Transcription Factor Binding to a Stably Positioned Nucleosome. J. Biol. Chem. 272:3635-3640.

Kermekchiev, M., J.L. Workman, and C.S. Pikaard. Nucleosome Binding by the pol 1 Transcription Factor UBF Displaces Linker Histone H1. Mol. Cell. Biol. 17:5833-5842.

Steger, D.J. and J.L. Workman. Stable Coocupancy of Transcriptional Regulators and Histones on HIV-1 Remodeled Nucleosomal DNA. EMBO J. 16:2463-2472.

Steger, D.J., T. Owen-Hughes, S. John, and J.L. Workman. Analysis of Transcription Factor-mediated Remodeling of Nucleosome Arrays in a Purified System. Methods 12:276-285.

Utley, R.T., J. Côté, T. Owen-Hughes, and J.L. Workman. SWI/SNF Stimulates the Formation of Disparate Activator-nucleosome Complexes but is Partially Redundant with Cooperative Binding. J. Biol. Chem. 272:12642-12649.