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Ueki T, Nevin KP, Woodard TL, Lovley DR.\'a0 2016.\'a0\'a0Genetic switches and related tools for controlling gene expression and electrical outputs of Geobacter sulfurreducens.. J Ind Microbiol Biotechnol. 43(11):1561-1575.\par \par Benmerzouga I, Concepci\'f3n-Acevedo J, Kim H-S, Vandoros AV, Cross GAM, Klingbeil MM, Li B.\'a0 2013.\'a0\'a0Trypanosoma brucei Orc1 is essential for nuclear DNA replication and affects both VSG silencing and VSG switching.. Mol Microbiol. 87(1):196-210.\par \par He Y, Swaminathan A, Lopes JM.\'a0 2012.\'a0\'a0Transcription regulation of the Saccharomyces cerevisiae PHO5 gene by the Ino2p and Ino4p basic helix-loop-helix proteins.. Mol Microbiol. 83(2):395-407.\par \par Krushkal J, Sontineni S, Leang C, Qu Y, Adkins RM, Lovley DR.\'a0 2011.\'a0\'a0Genome diversity of the TetR family of transcriptional regulators in a metal-reducing bacterial family Geobacteraceae and other microbial species.. OMICS. 15(7-8):495-506.\par \par Shetty A, Lopes JM.\'a0 2010.\'a0\'a0Derepression of INO1 transcription requires cooperation between the Ino2p-Ino4p heterodimer and Cbf1p and recruitment of the ISW2 chromatin-remodeling complex.. Eukaryot Cell. 9(12):1845-55.\par \par Ueki T, Lovley DR.\'a0 2010.\'a0\'a0Genome-wide gene regulation of biosynthesis and energy generation by a novel transcriptional repressor in Geobacter species.. Nucleic Acids Res. 38(3):810-21.\par \par Krushkal J, Ju\'e1rez K, Barbe JF, Qu Y, Andrade A, Puljic M, Adkins RM, Lovley DR, Ueki T.\'a0 2010.\'a0\'a0Genome-wide survey for PilR recognition sites of the metal-reducing prokaryote Geobacter sulfurreducens.. Gene. 469(1-2):31-44.\par \par Ueki T, Lovley DR.\'a0 2010.\'a0\'a0Novel regulatory cascades controlling expression of nitrogen-fixation genes in Geobacter sulfurreducens.. Nucleic Acids Res. 38(21):7485-99.\par \par Krushkal J, Leang C, Barbe JF, Qu Y, Yan B, Puljic M, Adkins RM, Lovley DR.\'a0 2009.\'a0\'a0Diversity of promoter elements in a Geobacter sulfurreducens mutant adapted to disruption in electron transfer.. Funct Integr Genomics. 9(1):15-25.\par \par Leang C, Krushkal J, Ueki T, Puljic M, Sun J, Ju\'e1rez K, N\'fa\'f1ez C, Reguera G, DiDonato R, Postier B et al..\'a0 2009.\'a0\'a0Genome-wide analysis of the RpoN regulon in Geobacter sulfurreducens.. BMC Genomics. 10:331.\par \par Tran HT, Krushkal J, Antommattei FM, Lovley DR, Weis RM.\'a0 2008.\'a0\'a0Comparative genomics of Geobacter chemotaxis genes reveals diverse signaling function.. BMC Genomics. 9:471.\par \par Griffith KL, Grossman AD.\'a0 2008.\'a0\'a0A degenerate tripartite DNA-binding site required for activation of ComA-dependent quorum response gene expression in Bacillus subtilis.. J Mol Biol. 381(2):261-75.\par \par Griffith KL, Grossman AD.\'a0 2008.\'a0\'a0Inducible protein degradation in Bacillus subtilis using heterologous peptide tags and adaptor proteins to target substrates to the protease ClpXP.. Mol Microbiol. 70(4):1012-25.\par \par Krushkal J, Yan B, DiDonato LN, Puljic M, Nevin KP, Woodard TL, Adkins RM, Meth\'e9 BA, Lovley DR.\'a0 2007.\'a0\'a0Genome-wide expression profiling in Geobacter sulfurreducens: identification of Fur and RpoS transcription regulatory sites in a relGsu mutant.. Funct Integr Genomics. 7(3):229-55.\par \par Ueki T, Lovley DR.\'a0 2007.\'a0\'a0Heat-shock sigma factor RpoH from Geobacter sulfurreducens.. Microbiology. 153(Pt 3):838-46.\par \par Chen M, Lopes JM.\'a0 2007.\'a0\'a0Multiple basic helix-loop-helix proteins regulate expression of the ENO1 gene of Saccharomyces cerevisiae.. Eukaryot Cell. 6(5):786-96.\par \par Yan B, N\'fa\'f1ez C, Ueki T, Esteve-N\'fa\'f1ez A, Puljic M, Adkins RM, Meth\'e9 BA, Lovley DR, Krushkal J.\'a0 2006.\'a0\'a0Computational prediction of RpoS and RpoD regulatory sites in Geobacter sulfurreducens using sequence and gene expression information.. Gene. 384:73-95.\par \par Griffith KL, Becker SM, Wolf RE.\'a0 2005.\'a0\'a0Characterization of TetD as a transcriptional activator of a subset of genes of the Escherichia coli SoxS/MarA/Rob regulon.. Mol Microbiol. 56(4):1103-17.\par \par Gardocki ME, Bakewell M, Kamath D, Robinson K, Borovicka K, Lopes JM.\'a0 2005.\'a0\'a0Genomic analysis of PIS1 gene expression.. Eukaryot Cell. 4(3):604-14.\par \par Leang C, Lovley DR.\'a0 2005.\'a0\'a0Regulation of two highly similar genes, omcB and omcC, in a 10 kb chromosomal duplication in Geobacter sulfurreducens.. Microbiology. 151(Pt 6):1761-7.\par \par McCool JD, Long E, Petrosino JF, Sandler HA, Rosenberg SM, Sandler SJ.\'a0 2004.\'a0\'a0Measurement of SOS expression in individual Escherichia coli K-12 cells using fluorescence microscopy.. Mol Microbiol. 53(5):1343-57.\par \par Griffith KL, Shah IM, Wolf RE.\'a0 2004.\'a0\'a0Proteolytic degradation of Escherichia coli transcription activators SoxS and MarA as the mechanism for reversing the induction of the superoxide (SoxRS) and multiple antibiotic resistance (Mar) regulons.. Mol Microbiol. 51(6):1801-16.\par \par Gardocki M E, Lopes JM.\'a0 2003.\'a0\'a0Expression of the yeast PIS1 gene requires multiple regulatory elements including a Rox1p binding site.. J Biol Chem. 278(40):38646-52.\par \par Jara M, N\'fa\'f1ez C, Campoy S, Fern\'e1ndez de Henestrosa AR, Lovley DR, Barb\'e9 J.\'a0 2003.\'a0\'a0Geobacter sulfurreducens has two autoregulated lexA genes whose products do not bind the recA promoter: differing responses of lexA and recA to DNA damage.. J Bacteriol. 185(8):2493-502.\par \par Kaadige MR, Lopes JM.\'a0 2003.\'a0\'a0Opi1p, Ume6p and Sin3p control expression from the promoter of the INO2 regulatory gene via a novel regulatory cascade.. Mol Microbiol. 48(3):823-32.\par \par Griffith KL, Wolf RE.\'a0 2002.\'a0\'a0A comprehensive alanine scanning mutagenesis of the Escherichia coli transcriptional activator SoxS: identifying amino acids important for DNA binding and transcription activation.. J Mol Biol. 322(2):237-57.\par \par Griffith KL, Wolf RE.\'a0 2001.\'a0\'a0Systematic mutagenesis of the DNA binding sites for SoxS in the Escherichia coli zwf and fpr promoters: identifying nucleotides required for DNA binding and transcription activation.. Mol Microbiol. 40(5):1141-54.\par \par Robinson KA, Lopes JM.\'a0 2000.\'a0\'a0The promoter of the yeast INO4 regulatory gene: a model of the simplest yeast promoter.. J Bacteriol. 182(10):2746-52.\par \par Wood TI, Griffith KL, Fawcett WP, Jair KW, Schneider TD, Wolf RE.\'a0 1999.\'a0\'a0Interdependence of the position and orientation of SoxS binding sites in the transcriptional activation of the class I subset of Escherichia coli superoxide-inducible promoters.. Mol Microbiol. 34(3):414-30.\par \par Hegde S, Sandler SJ, Clark AJ, Madiraju MV.\'a0 1995.\'a0\'a0recO and recR mutations delay induction of the SOS response in Escherichia coli.. Mol Gen Genet. 246(2):254-8.\par \par }