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  • Angerer, A., Enz, S., Ochs, M. & Braun, V. (1995) Transcriptional regulation of ferric citrate transport in Escherichia coli. FecI belongs to a new subfamily of sigma 70-type factors that respond to extracytoplasmic stimuli. Mol. Microbiol. 18, 163174.
  • Baba, T., Ara, T., Hasegawa, M., Takai, Y., Okumura, Y., Baba, M., Datsenko, K.A., Tomita, K.M., Wanner, B.L. & Mori, H. (2006) Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol. Syst. Biol. 882, 484508.
  • Datsenko, K.A. & Wanner, B.L. (2000) One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products. Proc. Natl Acad. Sci. USA 97, 66406645.
  • Goodell, E.W. (1985) Recycling of murrain by Escherichia coli. J. Bacteriol. 163, 305310.
  • Goodell, E.W. & Schwarz, U. (1985) Release of cell wall peptides into culture medium by exponentially growing Escherichia coii. J. Bacteriol. 162, 391397.
  • Gruber, T.M. & Gross, C.A. (2003) Multiple sigma subunits and the partitioning of bacterial transcription space. Annu. Rev. Microbiol. 57, 411466.
  • Guisbert, E., Yura, T., Rhodius, V.A. & Gross, C.A. (2008) Convergence of molecular, modeling, and systems approaches for an understanding of the Escherichia coli heat shock response. Microbiol. Mol. Biol. Rev. 72, 545554.
  • Hemm, M.R., Paul, B.J., Schneider, T.D., Storz, G. & Rudd, K.E. (2008) Small membrane proteins found by comparative genomics and ribosome binding site models. Mol. Microbiol. 70, 14871501.
  • Holtje, J.-V. (1998) Growth of the stress-bearing and shape-maintaining murein sacculus of Escherichia coli. Microbiol. Mol. Biol. Rev. 62, 183203.
  • Ishihama, A. (1999) Modulation of the nucleoid, the transcription apparatus, and the translation machinery in bacteria for stationary phase survival. Genes Cells 4, 135143.
  • Ishihama, A. (2000) Functional modulation of Escherichia coli RNA polymerase. Annu. Rev. Microbiol. 54, 499518.
  • Ishihama, A. (2010) Prokaryotic genome regulation: multifactor promoters, multitarget regulators and hierarchic networks. FEMS Microbiol. Rev. 34, 628645.
  • Ishihama, A. (2012) Prokaryotic genome regulation: a revolutionary paradigm. Proc. Jpn. Acad. Ser. B Phys. Biol. Sci. 88, 485508.
  • Jishage, M. & Ishihama, A. (1995) Regulation of RNA polymerase sigma subunit synthesis in Escherichia coli: intracellular levels of σ70 and σ38. J. Bacteriol. 177, 68326835.
  • Maqbool, A., Hervé, M., Mengin-Lecreulux, D., Wilkinson, A.J. & Thomas, G.H. (2012) MpaA is a murein-tripeptide-specific zinc carboxypeptidase that functions as part of a catabolic pathway for peptidoglycan derived peptides in γ-proteobacteria. Biochem. J. 448, 329341.
  • Mauck, J., Chan, L. & Glaser, L. (1971) Turnover of the cell wall of gram-positive bacterial. J. Biol. Chem. 246, 18201827.
  • Miller, J.H. (1972) Experiments in Molecular Genetics. Cold Spring Harbor Laboratory Press, New York.
  • Ogasawara, H., Hasegawa, A., Kanda, E., Miki, T., Yamamoto, K. & Ishihama, A. (2007) Genomic SELEX search for target promoters under the control of the PhoQP-RstBA signal cascade. J. Bacteriol. 187, 47914799.
  • Park, J.T., Raychaudhuri, D., Li, H., Normark, S. & Mengin-Lecreulx, D. (1998) MppA, a periplasmic binding protein essential for import of the bacterial cell wall peptide l-alanyl-gamma-D-glutamyl-meso-diaminopimelate. J. Bacteriol. 180, 12151223.
  • Park, J.T. & Uehara, T. (2008) How bacteria consume their own exoskeletons (turnover and recycling of cell wall peptidoglycan). Microbiol. Mol. Biol. Rev. 72, 211227.
  • Prat, R. & de Pedro, M.A. (1989) Normal growth and division of Escherichia coli with a reduced amount of murein. J. Bacteriol. 171, 37403745.
  • Schroeder, U., Henrich, B., Fink, J. & Plapp, R. (1994) Peptidase D of Escherichia coli K-12, a metallopeptidase of low substrate specificity. FEMS Microbiol. Lett. 123, 153159.
  • Shimada, T., Bridier, A., Briandet, R. & Ishihama, A. (2011a) Novel roles of LeuO in transcription regulation in E. coli: antagonistic interplay with the universal silencer H-NS. Mol. Microbiol. 82, 376397.
  • Shimada, T., Fujita, N., Maeda, M. & Ishihama, A. (2005) Systematic search for the Cra-binding promoters using genomic SELEX system. Genes Cells 10, 907918.
  • Shimada, T., Fujita, N., Yamamoto, K. & Ishihama, A. (2011b) Novel roles of cAMP receptor protein (CRP) in regulation of transport and metabolism of carbon sources. PLoS ONE 6, e20081.
  • Shimada, T., Hirao, K., Kori, A., Yamamoto, K. & Ishihama, A. (2007) RutR is the uracil/thymine-sensing master regulator of a set of genes for synthesis and degradation of pyrimidines. Mol. Microbiol. 66, 744757.
  • Shimada, T., Ishihama, A., Busby, S.J.W. & Grainger, D.C. (2008) The Escherichia coli RutR transcription factor binds at targets within genes as well as intergenic regions. Nucleic Acids Res. 36, 39503955.
  • Shimada, T., Katayama, Y., Kawakita, S., Ogasawara, H., Nakano, M., Yamamoto, K. & Ishihama, A. (2012) A novel regulator RcdA of the csgD gene encoding the master regulator of biofilm formation in Escherichia coli. MicrobiologyOpen doi: 10.1002/mbo3.42.
  • Shimada, T., Yamamoto, K. & Ishihama, A. (2011c) Novel members of the Cra regulon involved in carbon metabolism in Escherichia coli. J. Bacteriol. 193, 649659.
  • Teramoto, J., Yoshimura, S., Takeyasu, K. & Ishihama, A. (2010) A novel nucleoid protein of Escherichia coli induced under anaerobiotic growth conditions. Nucleic Acids Res. 38, 36053618.
  • Uehara, T. & Park, J.T. (2003) Identification of MpaA, an amidase in Escherichia coli that hydrolyzes the γ-D-glutamyl-meso-diaminopimelate bond in murein peptides. J. Bacteriol. 185, 679682.
  • Uehara, T., Shuefuji, K., Valbena, N., Meehan, B., Donegan, M. & Park, J.T. (2005) Recycling of the anhydro-N-acetylmuramic acid derived from cell wall murein involves a two-step conversion to N-acetylglucosamine-phosphate. J. Bacteriol. 187, 36433649.
  • Umezawa, Y., Ogasawara, H., Shimada, T., Kori, A. & Ishihama, A. (2008) The uncharacterized YdhM is the regulator of the nemA gene, coding for N-ethylmaleimide reductase. J. Bacteriol. 190, 58905897.
  • Vollmer, W., Blanot, D. & de Pedro, M.A. (2008) Peptideglycan structure and architecture. FEMS Microbiol. Rev. 32, 149167.
  • Yamamoto, K., Hirao, H., Oshima, T., Aiba, A., Utsumi, T. & Ishihama, A. (2005) Functional characterization in vitro of all two-component signal transduction systems from Escherichia coli. J. Biol. Chem. 280, 14481456.