AG Hecker

Publikationen 2004-2011

  • Gerth, U.; Kirstein, J.; Mostertz, J.; Waldminghaus, T.; Miethke, M.; Kock, H. and Hecker, M.: Fine-tuning in the regulation of the Clp protein content in Bacillus subtilis. J. Bacteriol. 186, 179-191 (2004).
  • Sender, U.; Bandow, J.; Engelmann, S.; Lindequist, U. and Hecker, M.: Proteomic signatures for daunomycin and adriamycin in Bacillus subtilis. Pharmazie 59, 65-70 (2004).
  • Gabig-Ciminska, M.; Holmgren, A.; Andresen, H.; Bundvig Barken, K.; Wümpelmann, M.; Albers, J.; Hintsche, R.; Breitenstein, A.; Neubauer, P.; Los, M.; Czyz, A.; Wegrzyn, G.; Silfversparre, G.; Jürgen, B.; Schweder, T. and Enfors, S.-O.: Electric chips for rapid detection and quantification of nucleic acids. Biosens. Bioelectron. 19, 537-546 (2004).
  • Beyer, D.; Kroll, H.-P.; Endermann, R.; Schiffer, G.; Siegel, S.; Bauser, M.; Pohlmann, J.; Brands, M.; Ziegelbauer, K.; Haebich, D.; Eymann, C. and Brötz-Oesterhelt, H.: New class of bacterial phenylalanyl-tRNA synthetase inhibitors with high potency and broad-spectrum activity. Antimicrob. Agents Chemother. 48, 525-532 (2004).
  • Brandt, Rowena; Nawka, M.; Kellermann, J.; Salazar, R.; Becher, D.; Krantz, S.: Nucleophosmin is a component of the fructoselysine-specific receptor in cell membranes of Mono Mac 6 and U937 monocyte-like cells. Biochim. Biophys. Acta 1670, 132-136 (2004).
  • Kock, H.; Gerth, U. and Hecker, M.: MurAA, catalysing the first committed step in peptidoglycan biosynthesis, is a target of Clp-dependent proteolysis in Bacillus subtilis. Mol. Microbiol. 51, 1087-1102 (2004).
  • Mostertz, J.; Scharf, C.; Hecker, M. and Homuth, G.: Transcriptome and proteome analysis of Bacillus subtilis gene expression in response to superoxide and peroxide stress. Microbiology 150, 497-512 (2004).
  • Rosen, R.; Sacher, A.; Shechter, N.; Becher, D.; Büttner, K.; Biran, D.; Hecker, M. and Ron, E. Z.: A two dimensional reference map of Agrobacterium tumefaciens proteins. Proteomics 4, 1061-1073 (2004).
  • Weber, H.; Engelmann, S.; Becher, D. and Hecker, M.: Oxidative stress triggers thiol oxidation in the glyceraldehyde-3-phosphate dehydrogenase of Staphylococcus aureus. Mol. Microbiol. 52, 133-140 (2004).
  • Mäder, U.; Henning, S.; Hecker, M. and Homuth, G.: Transcriptional organization and posttranscriptional regulation of the Bacillus subtilis branched-chain amino acid biosynthesis genes. J. Bacteriol. 186, 2240-2252 (2004).
  • Voigt, B.; Schweder, T.; Becher, D.; Ehrenreich, A.; Gottschalk, G.; Feesche, J.; Maurer, K.-H. and Hecker, M.: A proteomic view of cell physiology of Bacillus licheniformis. Proteomics 4, 1465-1490 (2004).
  • Schweder, T. and Hecker, M.: Monitoring of stress responses. In: Enfors, S. O. and Scheper, T. (eds.) Advances in Biochemical Engineering/Biotechnology, Vol. 89, 47-71, Springer Verlag, Berlin Heidelberg (2004).
  • Tjalsma, H.; Antelmann, H.; Jonbloed, J. D. H.; Braun, P. G.; Darmon, E.; Dorenbos, R.; Dubois, J.-Y. F.; Westers, H.; Zanen, G. E.; Quax, W. J.; Kuipers, O. P.; Bron, S.; Hecker, M. and van Dijl, J. M.: The proteomics of protein secretion by Bacillus subtilis: Separating the “secrets” of the secretome. Microbiol. Mol. Biol. Rev. 68, 207-233 (2004).
  • Vitikainen, M.; Lappalainen, I.; Seppala, R.; Antelmann, H.; Boers, H.; Taira, S.; Savilahti, H.; Hecker, M.; Vihinen, M.; Sarvas, M. and Kontinen, V. P.: Structure-function analysis of PrsA reveals roles for the parvulin-like and flanking N- and C-terminal domains in protein folding and secretion in Bacillus subtilis. J. Biol. Chem. 279, 19302-19314 (2004).
  • Holtfreter, S.; Bauer, K.; Thomas, D.; Feig, C.; Lorenz, V.; Roschak, K.; Friebe, E.; Selleng, K.; Lövenich, S.; Greve, T.; Greinacher, A.; Panzig, B.; Engelmann, S.; Lina, G. and Bröker, B.: egc-encoded superantigens from Staphylococcus aureusare neutralized by human sera much less efficiently than are classical staphylococcal enterotoxins or toxic shock syndrome toxin. Infect. Immunol. 72, 4061-4071 (2004).
  • Kusch, H.; Biswas, K.; Schwanfelder, S.; Engelmann, S.; Rogers, P. D.; Hecker, M. and Morschhäuser, J.: A proteomic approach to understanding the development of multidrug-resistant Candida albicans strains. Mol. Gen. Genomics 271, 554-565 (2004).
  • Zanen, G.; Antelmann, H.; Westers, H.; Hecker, M.; van Dijl, J. M. and Quax, W. J.: FlhF, the third signal-recognition particle-GTPase of Bacillus subtilis, is dispensable for protein secretion. J. Bacteriol. 186, 5956-5960 (2004).
  • Antelmann, H.; Sapolsky, R.; Miller, B.; Ferrari, E.; Chotani, G.; Weyler, W.; Gaertner, A. and Hecker, M.: Quantitative proteome profiling during the fermentation process of pleiotropic Bacillus subtilis mutants. Proteomics 4, 2408-2424 (2004).
  • Allenby, N. E. E.; O’Connor, N.; Pràgai, Z.; Carter, N. M.; Miethke, M.; Engelmann, S.; Hecker, M.; Wipat, A.; Ward, A. C. and Harwood, C. R.: Post-transcriptional regulation of the Bacillus subtilis pst operon encoding a phosphate-specific ABC transporter. Microbiology 150, 2619-2628 (2004).
  • Kock, H.; Gerth, U. and Hecker, M.: The ClpP peptidase is the major determinant of bulk protein turnover in Bacillus subtilis. J. Bacteriol. 186, 5856-5864 (2004).
  • Nickel, M.; Homuth, G.; Böhnisch, C.; Mäder, U. and Schweder, T.: Cold induction of the Bacillus subtilis bkd operon is mediated by increased mRNA stability. Mol. Gen. Genomics 272, 98-107 (2004).
  • Eymann, C.; Dreisbach, A.; Albrecht, D.; Bernhardt, J.; Becher, D.; Gentner, S.; Le Thi, T.; Büttner, K.; Buurmann, G.; Scharf, C.; Venz, S.; Völker, U. and Hecker, M.: A comprehensive proteome map of growing Bacillus subtilis cells. Proteomics 4, 2849-2876 (2004).
  • Ziebandt, A.-K.; Becher, D.; Ohlsen, K.; Hacker, J.; Hecker, M. and Engelmann, S.: The influence of agr and σB in growth phase dependent regulation of virulence factors in Staphylococcus aureus. Proteomics 4, 3034-3037 (2004).
  • Jongbloed, J. D. H.; Grieger, U.; Antelmann, H.; Hecker, M.; Nijland, R.; Bron, S. and van Dijl, J. M.: Two minimal Tat translocases in Bacillus. Mol. Microbiol. 54, 1319-1325 (2004).
  • Rosen, R.; Becher, D.; Büttner, K.; Biran, D.; Hecker, M. and Ron, E. Z.: Probing the active site of homoserine trans-succinylase. FEBS Lett. 577, 386-392 (2004).
  • Rosen, R.; Becher, D.; Büttner, K.; Biran, D.; Hecker, M. and Ron, E. Z.: Highly phosphorylated bacterial proteins. Proteomics 4, 3068-3077 (2004).
  • Hecker, M. and Völker, U.: Towards a comprehensive understanding of Bacillus subtilis cell physiology by physiological proteomics. Proteomics 4, 3727-3750 (2004).
  • Hecker, M.; Schweder, T.; Voigt, B.; Maurer, K.-H.; Feesche, J.; Evers, S.; Ehrenreich, A. und Gottschalk, G.: Funktionelle Genomforschung industriell relevanter Bakterien – Bacillus licheniformis als ein Modell. GenomXPress 4, 4-7 (2004).
  • Hooshdaran, M.; Barker, K. S.; Hilliard, G. M.; Kusch, H.; Morschhäuser, J. and Rogers, P. D.: Proteomic analysis of azole resistancein Candida albicans clinical isolates. Antimicrob. Agents Chemother. 48, 2733-2735 (2004).
  • Höper, D.; Völker, U. and Hecker, M.: Comprehensive characterization of the contribution of individual sigB-dependent general stress genes to stress resistance of Bacillus subtilis. J. Bacteriol. 187, 2810-2826 (2005).
  • Westers, H.; Braun, P. G., Westers, L.; Antelmann, H.; Hecker, M.; Jongbloed, J. D. H.; Yoshikawa, H.; Tanaka, T.; van Dijl, J. M. and Quax, W. J.: Genes involved in SkfA killing factor production protect a Bacillus subtilis lipase against proteolysis. Appl. Environ. Microbiol. 71, 1899-1908 (2005).
  • Koburger, T.; Weibezahn, J.; Bernhardt, J.; Homuth, G. and Hecker, M.: Genome-wide mRNA profiling in glucose starved Bacillus subtilis cells. Mol. Gen. Genomics 274, 1-12 (2005).
  • Antelmann, H.; Williams, R. C.; Miethke, M.; Wipat, A.; Albrecht, D.; Harwood, C. R. and Hecker, M.: The extracellular and cytoplasmic proteomes of the non-virulent Bacillus anthracis strain UM23C1-2. Proteomics 5, 3684-3695 (2005).
  • Völker, U. and Hecker, M.: From genomics via proteomics to cellular physiology of the gram-positive model organism Bacillus subtilis. Cell. Microbiol. 7, 1077-1085 (2005).
  • Hochgräfe, F.; Mostertz, J.; Albrecht, D. and Hecker, M.: Fluorescence thiol modification assay: Oxidatively modified proteins in Bacillus subtilis. Mol. Microbiol. 58, 409-425 (2005).
  • Kirstein, J.; Zühlke, D.; Gerth, U.; Turgay, K. and Hecker, M.: A tyrosine kinase and its activator control the activity of the CtsR heat shock repressor in B. subtilis. EMBO J. 24, 3435-3445 (2005).
  • Linsen, L.; Löcherbach, J.; Berth, M.; Bernhardt, J. and Becher, D.: Differential protein expression analysis via liquid-chromatography/mass-spectrometry data visualization. In: Silva, C.; Gröller, E. and Rushmeier, H. (eds.): IEEE Visualization 2005, IEEE Computer Society Press, Los Alamitos, California. (2005).
  • Brötz-Oesterhelt, H.; Beyer, D.; Kroll, H.-P.; Endermann, R.; Ladel, C.; Schroeder, W.; Hinzen, B.; Raddatz, S.; Paulsen, H.; Henninger, K.; Bandow, J. E.; Sahl, H.-G. and Labischinski, H.: Dysregulation of bacterial proteolytic machinery by a new class of antibiotics. Nature Medicine 11, 1082-1087 (2005).
  • Brötz-Oesterhelt, H.; Bandow, J. E. and Labischinski, H.: Bacterial proteomics and its role in antibacterial drug discovery. Mass. Spectrom. Rev. 24, 549-565 (2005).
  • Jürgen, B.; Tobisch, S.; Wümpelmann, M.; Gördes, D.; Koch, A.; Thurow, K.; Albrecht, D.; Hecker, M. and Schweder, T.: Global expression profiling of Bacillus subtilis cells during industrial-close fed-batch fermentations with different nitrogen sources. Biotechnol. Bioeng. 92, 277-298 (2005).
  • Jürgen, B.; Barken, K. B.; Tobisch, S.; Pioch, D.; Wümpelmann, M.; Hecker, M. and Schweder, T.: Application of an electrical DNA-Chip for the expression analysis of bioprocess-relevant marker genes of Bacillus subtilis. Biotechnol. Bioeng. 92, 299-307 (2005).
  • Kohler, C.; Wolff, S.; Albrecht, D.; Fuchs, S.; Becher, D.; Büttner, K.; Engelmann, S. and Hecker, M.: Proteome analyses of Staphylococcus aureusin growing and non-growing cells: A physiological approach. Int. J. Med. Microbiol. 295, 547-565 (2005).
  • Bernhardt, J.: Defining the proteome. Genome Biology 6, 360.1-360.3 (2005).
  • Pané-Farré, J.; Lewis, R. J. and Stülke, J.: The RsbRST stress module in bacteria: A signalling system that may interact with different output modules. J. Mol. Microbiol. Biotechnol. 9, 65-76 (2005).
  • Linsen, L; Löcherbach, J.; Berth, M.; Bernhardt, J. and Becher, D.: Differential Protein Expression Analysis via Liquid-Chromatography/Mass-Spectrometry Data Visualization, in: Claudio Silva, Eduard Gröller, and Holly Rushmeier, editors; IEEE Visualization 2005, IEEE Computer Society Press, 447-454 (2005).
  • Hecker, M. and Engelmann, S.: Physiological proteomics of Bacillus subtilis and Staphylococcus aureus: Towards a comprehensive understanding of cell physiology and pathogenicity. In: Hacker, J. and Dobrindt, U. (eds.): Pathogenomics: Genome analysis of pathogenic microbes, Wiley-VCH Verlag & Co. KGaA, Weinheim, Chapter 3, pp. 43-69 (2006).
  • Voigt, B.; Schweder, T.; Sibbald, M. J. J. B.; Albrecht, D.; Ehrenreich, A.; Bernhardt, J.; Feesche, J.; Maurer; K.-H.; Gottschalk, G.; van Dijl, J. M. and Hecker, M.: The extracellular proteome of Bacillus licheniformis grown in different media and under different nutrient starvation conditions. Proteomics 6, 268-281 (2006).
  • Höper, D.; Bernhardt, J. and Hecker, M.: Salt stress adaptation of Bacillus subtilis: A physiological proteomics approach. Proteomics 6, 1550-1562 (2006).
  • Rosenberg, E.: Meeting Report: The diversity of bacterial pathogenicity mechanisms. Genome Biology 6, 320.1-320.3 (2006).
  • Ollinger, J.; Song, K.-B., Antelmann, H.; Hecker, M.; and Helmann, J. D.: Role of the Fur regulon in iron transport in Bacillus subtilis. J. Bacteriol. 188, 3664-3673 (2006).
  • Holtfreter, S.; Roschack, K.; Eichler, P.; Eske, K.; Holtfreter, B.; Kohler, C.; Engelmann, S.; Hecker, M.; Greinacher, A.; Bröker, B.: Staphylococcus aureuscarriers neutralize superantigens by antibodies specific for their colonizing strain; a potential explanation for their improved prognosis in severe sepsis. J. Infect. Dis. 193, 1275-1278 (2006).
  • Meyer zu Schwabedissen, H. E.; Dreisbach, A.; Hammer, E.; Fusch, C.; Hecker, M.; Völker, U. and Kroemer, H. K.: Direct mass spectrometric identification of ABCB1 (P-glycoprotein/MDR1) from the apical membrane fraction of human placenta using fourier transform ion cyclotron mass spectrometry. Pharmacogenet. Genomics 16, 385-389 (2006).
  • Miethke, M.; Hecker, M. and Gerth, U.: Involvement of Bacillus subtilis ClpE in CtsR degradation and protein quality control. J. Bacteriol. 188, 4610-4619 (2006).
  • Tam, L. T.; Eymann, C.; Albrecht, D.; Sietmann, R.; Schauer, F.; Hecker, M. and Antelmann, H.: Differential gene expression in response to phenol and catechol reveals different metabolic activities for the degradation of aromatic compounds in Bacillus subtilis. Environm. Microbiol. 8, 1408-1427 (2006).
  • Hoi, L. T.; Voigt, B.; Jürgen, B.; Ehrenreich, A.; Gottschalk, G.; Evers, S.; Feesche, J.; Maurer, K.-H.; Hecker, M. and Schweder, T.: The phosphate-starvation response of Bacillus licheniformis. Proteomics 6, 3582-3601 (2006).
  • Pané-Farré, J.; Jonas, B.; Förstner, K.; Engelmann, S. and Hecker, M.: The σB-regulon in Staphylococcus aureusand its regulation. Int. J. Med. Microbiol. 296, 237-258 (2006).
  • Wolff, S.; Otto, A.; Albrecht, D.; Zeng, J. S.; Büttner, K.; Glückmann, M.; Hecker, M. and Becher, D.: Gel-free and gel-based proteomics in Bacillus subtilis: A comparative study. Mol. Cell. Proteomics 5, 1183-1192 (2006).
  • Sibbald, M. J. J. B.; Ziebandt, A. K.; Engelmann, S.; Hecker, M.; de Jong, A.; Harmsen, H. J. M.; Raangs, G. C.; Stokroos, I.; Arends, J. P.; Dubois, J. Y. F. and van Dijl, J. M.: Mapping the pathways to staphylococcal pathogenesis by comparative secretomics. Microbiol. Mol. Biol. Rev. 70, 755-788 (2006).
  • Tam, L. T.; Antelmann, H.; Eymann, C.; Albrecht, D.; Bernhardt, J. and Hecker, M.: Proteome signatures for stress and starvation in Bacillus subtilis as revealed by a 2-D gel image color coding approach. Proteomics 6, 4565-4585 (2006).
  • Lioy, V. S.; Martin, M. T.; Camacho, A. G.; Lurz, R.; Antelmann, H.; Hecker, M.; Hitchin, E.; Ridge, Y.; Wells, J. M. and Alonso, J. C.: pSM19035-encoded toxin induces stasis followed by death in a subpopulation of cells. Microbiol. 152, 2365-2379 (2006).
  • Batzilla, C. F.; Rachid, S.; Engelmann, S.; Hecker, M.: Hacker, J. and Ziebuhr, W.: Impact of the accessory gene regulatory system (Agr) on extracellular proteins, codY expression and amino acid metabolism in Staphylococcus epidermidis. Proteomics 6, 3602-3613 (2006).
  • Pamp, S. H.; Frees, D.; Engelmann, S.; Hecker, M. and Ingmer, H.: Spx is a global effector impacting on stress tolerance and biofilm formation in Staphylococcus aureus. J. Bacteriol. 188, 4861-4870 (2006).
  • Humphery-Smith, I. and Hecker, M. (eds.): Microbial Proteomics. Functional Biology of Whole Organisms. Methods of Biochemical Analysis. Vol. 49, p. 512, Wiley & Sons, Inc. Hoboken, New Jersey (2006).
  • Antelmann, H.; van Dijl, J. M.; Bron, S. and Hecker, M.: Proteomic Survey through Secretome of Bacillus subtilis. In: Humphery-Smith, I. and Hecker, M. (eds.): Microbial Proteomics. Functional Biology of Whole Organisms. Methods of Biochemical Analysis. Vol. 49, pp. 179-208, Wiley & Sons, Inc. Hoboken, New Jersey (2006).
  • Heidrich, N.; Chinali, A.; Gerth, U. and Brantl, S.: The small untranslated RNA SR1 from the Bacillus subtilis genome is involved in the regulation of arginine catabolism. Molecular Microbiology 62, 520-536 (2006).
  • Rogasch, K.; Rühmling, V.; Pané-Farré, J.; Höper, D.; Weinberg, C.; Fuchs, S.; Schmudde, M.; Bröker, B. M.; Wolz, C.; Hecker, M. and Engelmann, S.: Influence of the two-component system SaeRS on global gene expression in two different Staphylococcus aureusstrains. J. Bacteriol. 188, 7742-7758 (2006).
  • Zanen, G.; Antelmann, H.; Meima, R.; Jongbloed, J. D. H.; Kolkman, M.; Hecker, M.; van Dijl, J. M. and Quax, W. J.: Proteomic dissection of potential signal recognition particle dependence in protein secretion by Bacillus subtilis. Proteomics 6, 3636-3648 (2006).
  • Mattow, J.; Siejak, F.; Hagens, K.; Becher, D.; Albrecht, D.; Krah, A.; Schmidt, F.; Jungblut, P. R.; Kaufmann, S. H. E.; Schaible, U. E.: Proteins unique to intraphagosomally grown Mycobacterium tuberculosis. Proteomics 6, 2485-2494 (2006).
  • Silbersack, J.; Jürgen, B.; Hecker, M.; Schneidinger, B.; Schmuck, R. and Schweder, T.: An acetoin-regulated expression system of Bacillus subtilis. Appl. Microbiol. Biotechnol. 73, 895-903 (2006).
  • Linsen, L.; Löcherbach, J.; Berth, M.; Becher, D.; Bernhardt, J.: Visual analysis of gel-free proteome data. IEEE Trans. Vis. Comput. Graph. 12, 497-508 (2006).
  • Wilkins, M. R.; Appel, R. D.; van Eyk, J E.; Chung, M. C.; Gorg, A.; Hecker, M.; Huber, L. A.; Langen, H.; Link, A. J.; Paik, Y. K.; Patterson, S. D.; Pennington, S. R.; Rabillourd, T.; Simpson, R. J.; Weiss, W.; Dunn, M. J.: Guidelines fort he next 10 years of proteomics. Proteomics 6, 4-8 (2006).
  • Schweder, T. and Hecker, M.: Optimierung von mikrobiellen Enzymprodukttionsprozessen. LandesTechnologieAnzeiger Mecklenburg-Vorpommern 2, 6 (2006).
  • Bandow, J. E. and Hecker, M.: Proteomic profiling of cellular stresses in Bacillus subtilis reveals cellular networks and assists in elucidating antibiotic mechanisms of action. In: Boshoff, H. I. and Barry III, C. E. (eds.): Progress in Drug Research, Vol. 64, 80-101, Birkhäuser Verlag, Basel, Switzerland (2007).
  • Hecker, M. and Völker, U.: Towards a comprehenisve understanding of Bacillus subtilis cell physiology by physiological proteomics. In: Jungblut, P. and Hecker, M. (eds.): Proteomics of microbial pathogens, Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim, Chapter 3, pp. 31-61 (2007).
  • Ziebandt, A.-K.; Becher, D.; Ohlsen, K.; Hacker, J.; Hecker, M.; Engelmann, S.: The influence of agr and σB in growth phase dependent regulation of virulence factors in Staphylococcus aureus. In: Jungblut, P. and Hecker, M. (eds.): Proteomics of microbial pathogens, Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim, Chapter 3, pp. 225-247 (2007).
  • Markert, S.; Arndt, C.; Felbeck, H.; Becher, D.; Sievert, S. M.; Hügler, M.; Albrecht, D.; Robidart, J.; Bench, S.; Feldman, R.; Hecker, M. and Schweder, T.: Physiological proteomics of the uncultured endosymbiont of Riftia pachyptila. Science 315, 247-250 (2007).
  • Jürgen, B.; Pioch, D.; Voigt, B.; Hecker, M.; Evers, S.; Maurer, K.-H. and Schweder, T.: Elektrische Chips zur Expressionsanalyse bioprozessrelevanter Markergene. Biospektrum 01, 54-56 (2007).
  • Antelmann, H.; Töwe, S.; Albrecht, D. and Hecker, M.: The phosphorous source phytate changes the composition of the cell wall proteome in Bacillus subtilis. J. Proteome Res. 6, 897-903 (2007).
  • Voigt, B.; Hoi, L. T.; Jürgen, B.; Albrecht, D.; Ehrenreich, A.; Veith, B.; Evers, S.; Maurer, K.-H.; Hecker, M. and Schweder, T.: The glucose and nitrogen starvation response of Bacillus licheniformis. Proteomics 7, 413-423 (2007).
  • Van Duy, N.; Mäder, U.; Tran, N. P.; Cavin, J. F.; Tam, L. T.; Albrecht, D.; Hecker, M. and Antelmann, H.: The proteome and transcriptome analysis of Bacillus subtilis in response to salicylic acid. Protoemics 7, 698-710 (2007).
  • Darmon, E.; Dorenbos, R.; Meens, J.; Freudl, R.; Antelmann, H.; Hecker, M.; Kuipers, O. P.; Bron, S.; Quax, W. J.; Dubois, J.-Y. and van Dijl, J. M.: A disulfide bond-containing alkaline phosphatase triggers a BdbC-dependent secretion stress response in Bacillus subtilis. Appl. Environ. Microbiol. 72, 6876-6885 (2007).
  • Tam, L. T.; Eymann, C.; Antelmann, H.; Albrecht, D. and Hecker, M.: Global gene expression profiling of Bacillus subtilis in response to ammonium and tryptophan starvation as revealed by transcriptome and proteome analysis. J. Mol. Microbiol. Biotechnol. 12, 121-130 (2007).
  • Kusch, H.; Engelmann, S.; Albrecht, D.; Morschhäuser, J. and Hecker, M.: Proteomic analysis of the oxidative stress response in Candida albicans. Proteomics 7, 686-697 (2007).
  • Elsholz, A. K. W.; Moller Jorgensen, C.; Switzer, R. L.: The number of G residues in the Bacillus subtilis pyrG initially transcribed region governs reiterative transcription-mediated regulation. J. Bacteriol. 189, 2176-2180 (2007).
  • Hardwick, S. W.; Pané-Farré, J.; Delumeau, O.; Marles-Wright, J.; Murray, J. W.; Hecker, M. and Lewis, R. J.: Structural and functional chracterisation of partner-switching regulating the environmental stress response in B. subtilis. J. Biol. Chem. 282, 11562-11572 (2007).
  • Wolff, S.; Antelmann, H.; Albrecht, D.; Becher, D.; Bernhardt, J.; Bron, S.; Büttner, K.; van Dijl, J. M.; Eymann, C.; Otto, A.; Tam, L. T. and Hecker, M.: Towards the entire proteome of the model bacterium Bacillus subtilis by gel-based and gel-free approaches. J. Chromatogr. B 849, 129-140 (2007).
  • Özcan, S.; Yildirim, V.; Kaya, L.; Albrecht, D.; Becher, D.; Hecker, M. and Ozcengiz, G.: Phanerochaete chrysosporium soluble proteome as a prelude for the analysis of heavy metal stress response. Proteomics 7, 1249-1260 (2007).
  • Luo, Y.; Vilain, S.; Voigt, B.; Albrecht, D.; Hecker, M. and Brözel, V. S.: Proteomic analysis of Bacillus cereus growing in liquid soil organic matter. FEMS Microbiol. Lett. 271, 40-47 (2007).
  • Van Duy, N.; Wolf, C.; Mäder, U.; Lalk, M.; Langer, P.; Lindequist, U.; Hecker, M. and Antelmann, H.: Transcriptome and proteome analyses in response to 2-methylhydroquinone and 6-brom-2-vinyl-chroman-4-on reveal different degradation systems involved in the catabolism of aromatic compounds in Bacillus subtilis. Proteomics 7, 1391-1408 (2007).
  • Kirstein, J.; Dougan, D. A.; Gerth, U.; Hecker, M. and Turgay, K.: The tyrosine kinase McsB is a regulated adaptor protein for ClpCP. EMBO J. 26, 2061-2070 (2007).
  • Kouwen, T. R. H. M.; van der Goot, A.; Dorenbos, R.; Winter, T.; Antelmann, H.; Plaisier, M.-C.; Quax, W. J.; van Dijl, J. M. and Dubois, J.-Y. F.: Thiol-disulphide oxidoreductase modules in the low-GC Gram-positive bacteria. Mol. Microbiol. 64, 984-999 (2007).
  • Fuchs, S.; Pané-Farré, J.; Kohler, C.; Hecker, M. and Engelmann, S.: Anaerobic gene expression in Staphylococcus aureus. J. Bacteriol. 189, 4275-4289 (2007).
  • Jungblut, P. R. and Hecker, M. (eds.): Proteomics of microbial pathogens. Wiley-VCH Verlag Weinheim, 326 pp. (2007).
  • Hyyryläinen, H.-L.; Pietiainen, M.; Lundén, T.; Ekman, A.; Gardemeister, M.; Murtopuro, S.; Antelmann, H.; Hecker, M.; Valmu, L.; Sarvas, M. and Kontinen, V. P.: The density of negative charge in the cell wall influences two-component signal transduction in Bacillus subtilis. Microbiology 153, 2126-2136 (2007).
  • Mäder, U.; Homuth, G.; Völker, U. and Hecker, M.: Global regulatory systems mediating general starvation responses in Bacillus subtilis. In: Fujita, Y. (ed.): Global regulatory networks in Bacillus subtilis. pp. 205-228, Transworld Research Network, Kerala, India (2007).
  • Halbedel, S.; Eilers, H.; Jonas, B.; Busse, J.; Hecker, M.; Engelmann, S. and Stülke, J.: Transcription in Mycoplasma pneumoniae: Analysis of the promoters of the ackA and ldh genes. J. Mol. Biol. 371, 596-607 (2007).
  • Kuhla, S.; Rudolph, P. E.; Albrecht, D.; Schoenhusen, U.; Zitnan, R.; Tomek, W.; Huber, K.; Voigt, J. and Metges, C. C.: A milk diet partly containing soy protein does not change growth but regulates jejunal proteins in young goats. J. Dairy Sci. 90, 4334-4345 (2007).
  • Hochgräfe, F.; Mostertz, J.; Pöther, D.; Becher, D.; Helmann, J. and Hecker, M.: S-cysteinylation is a general mechanism for thiol protection of Bacillus subtilis proteins after oxidative stress. J. Biol. Chem. 282, 25981-25985 (2007).
  • Töwe, S.; Leelakriangsak, M; Kobayashi, K.; Van Duy, N; Hecker, M.; Zuber, P. and Haike Antelmann: The MarR-type repressor MhqR (YkvE) regulates multiple dioxygenases/glyoxalases and an azoreductase which confer resistance to 2-methylhydroquinone and catechol in Bacillus subtilis. Mol. Microbiol. 66, 40-54 (2007).
  • Pioch, D.; Jürgen, B.; Evers, S.; Maurer, K.-H.; Hecker, M. and Schweder, T.: At-line monitoring of bioprocess-relevant marker genes. Eng. Life Sci. 7, 373-379 (2007).
  • Eymann, C.; Becher, D.; Bernhardt, J.; Gronau, K.; Klutzny, A. and Hecker, M.: Dynamics of protein phosphorylation on Ser/Thr/Tyr in Bacillus subtilis. Proteomics 7, 3509-3526 (2007).
  • Hecker, M.; Pané-Farré, J. and Völker, U.: SigB-dependent general stress response in Bacillus subtilis and related gram-positive bacteria. Annu. Rev. Microbiol. 61, 215-236 (2007).
  • Berth, M.; Moser, F.; Kolbe, M. and Bernhardt, J.: The state of the art in the analysis of two-dimensional gel electrophoresis images. Appl. Microbiol. Biotechnol. 76, 1223-1243 (2007).
  • Brüsehaber, E.; Böttcher, D.; Musidlowska-Persson, A.; Albrecht, D.; Hecker, M.; Doderer, K. and Bornscheuer, U. T.: Identification of pig liver esterase variants by tandem mass spectroscopy analysis and their characterization. Appl. Microbiol. Biotechnol. 76, 853-859 (2007).
  • Chen, X. H.; Koumoutsi, A.; Scholz, R.; Eisenreich, A.; Schneider, K.; Heinemeyer, I.; Morgenstern, B.; Voss, B.; Hess, W. R.; Reva, O.; Junge, H.; Voigt, B.; Jungblut, P. R.; Vater, J.; Süssmuth, R.; Liesegang, H.; Strittmatter, A.; Gottschalk, G. and Borriss, R.: Comparative analysis of the complete genome sequence of the plant growth-promoting bacterium Bacillus amyloliquefaciens FZB42. Nature Biotechnol. 25, 1007-1014 (2007).
  • Schwarz, R.; Liang, C.; Kaleta, C.; Kühnel, M.; Hoffmann, E.; Kuznetsov, S.; Hecker, M.; Griffith, G.; Schuster, S. and Dandekar, T.: Integrated network reconstruction, visualization and analysis using YANAsquare. BMC Bioinformatics 8, 313-322 (2007).
  • Becker, K.; Bierbaum, G.; von Eiff, C.; Engelmann, S.; Götz, F.; Hacker, J.; Hecker, M.; Peters, G.; Rosenstein, R. and Ziebuhr, W.: Understanding the physiology and adptation of staphylococci: A post-genomic approach. Int. J. Med. Microbiol. 297, 483-501 (2007).
  • Reeves, A.; Gerth, U.; Völker, U. and Haldenwang, W.: ClpP modulates the activyity of the Bacillus subtilis stress response transcription factor, σB. J. Bacteriol. 189, 6168-6175 (2007).
  • Gerth, U.; Kock, H.; Küsters, I.; Michalik, S.; Switzer, R. L. and Hecker, M.: Clp-dependent proteolysis down-regulates central metabolic pathways in glucose starved Bacillus subtilis. J. Bacteriol. 190, 321-331 (2008).
  • Leeleakrisangsak, M; Huyen, N. T. T.; Töwe, S.; Duy, N. V.; Becher, D.; Hecker, M.; Antelmann, H. and Zuber, P.: Regulation of quinone detoxification by the thiol stress sensing DUF24/MarR-like repressor, YodB in Bacillus subtilis. Mol. Microbiol. 67, 1108-1124 (2008).
  • Antelmann, H.; Hecker, M. and Zuber, P.: Proteomic signatures uncover thiol-specific electrophile resistance mechanisms in Bacillus subtilis. Expert Rev. Proteomics 5, 77-90 (2008).
  • Engelmann, S. and Hecker, M.: Proteomic analysis to investigate regulatory networks in Staphylococcus aureus. In: DeLeo, F. R. and Otto, M. (eds.): Bacterial Pathogenesis: Methods and Protocols. Methods in Mol. Biol. 431, 25-45 (2008).
  • Kusch, H.; Engelmann, S.; Bode, R.; Albrecht, D.; Morschhäuser, J. and Hecker, M.: A proteomic view of Candida albicans yeast cell metabolism in exponential and stationary growth phases. Int. J. Med. Microbiol. 298, 291-318 (2008).
  • Hieu, C. X.; Voigt, B.; Albrecht, D.; Becher, D.; Lombardot, T.; Glöckner, F. O.; Amann, R.; Hecker, M. and Schweder, T.: Detailed proteome analysis of growing cells of the planctomycete Rhodopirellula baltica. Proteomics 8, 1608-1623 (2008).
  • Pioch, D.; Jürgen, B.; Evers, S.; Maurer, K.-H.; Hecker, M. and Schweder, T.: Improved sandwich-hybridization assay for an elctrical DNA-chip-based monitoring of bioprocess-relevant marker genes. Appl. Microbiol. Biotechnol. 78, 719-728 (2008).
  • Lorenz, U.; Hüttinger, C.; Schäfer, T.; Ziebuhr, W.; Thiede, A.; Hacker, J.; Engelmann, S.; Hecker, M. and Ohlsen, K.: The alternative sigma factor sigmaB of Staphylococcus aureusmodulates virulence in experimental central venous catheter-related infections. Microbes Infect. 10, 217-223 (2008).
  • Galka, F.; Wai, S. N.; Kusch, H.; Engelmann, S.; Hecker, M.; Schmeck, B.; Hippenstiel, S.; Uhlin, B. E. and Steinert, M.: Proteomic characterization of the whole secretome of Legionella pneumophila and functional analysis of outer membran vesicles. Infect. Immunol. 76, 1825-1836 (2008).
  • Raddatz, K.; Albrecht, D.; Hochgräfe, F.; Hecker, M. and Gotthardt, M.: A proteome map of murine heart and skelet muscle. Proteomics 8, 1885-1897 (2008).
  • Dreisbach, A., Otto, A., Becher, D., Hammer, E., Teumer, A., Gouw, J., Hecker, M., Völker, U.: Monitoring of changes in the membrane proteome during stationary phase adaptation of Bacillus subtilis using in vivo labeling techniques. Proteomics 8, 2062-2076 (2008).
  • Mostertz, J.; Hochgräfe, F.; Jürgen, B.; Schweder, T. and Hecker, M.: The role of the thioredoxin TrxA in Bacillus subtilis: A proteomics and transcriptomics approach. Proteomics 8, 2676-2690 (2008).
  • Westers, L.; Westers, H.; Zanen, G.; Antelmann, H.; Hecker, M.; Noone, D.; Devine, K. M.; van Dijl, J. M. and Quax, W. J.: Genetic or chemical protease inhibition causes significant changes in the Bacillus subtilis exoproteome. Proteomics 8, 2704-2713 (2008).
  • Hochgräfe, F.; Wolf, C.; Fuchs, S.; Liebeke, M.; Lalk, M.; Engelmann, S. and Hecker, M.: Nitric oxide stress induces different responses but mediates comparable protein thiol protection in Bacillus subtilis and Staphylococcus aureus. J. Bacteriol. 190, 4997-5008 (2008).
  • Wolf, C.; Hochgräfe, F.; Kusch, H.; Albrecht, D.; Hecker, M. and Engelmann, S.: Proteomic analysis of antioxidant strategies of Staphylococcus aureus: Diverse responses to different oxidants. Proteomics 8, 3139-3153 (2008).
  • Raberg, M.; Reinecke, F.; Reichelt, R.; Malkus, U.; König, S.; Pötter, M.; Fricke, W. F.; Pohlmann, A.; Voigt, B.; Hecker, M.; Friedrich, B.; Bowien, B. and Steinbüchel, A.: Ralstonia eutropha H16 changes flagellation according to nutrient supply and state of poly(3-hydroxybutyrate) accumulation. Appl. Environ. Microbiol. 74, 4477-4490 (2008).
  • Liebeke, M.; Pöther, D.-C.; van Duy, N.; Albrecht, D.; Becher, D.; Hochgräfe, F.; Lalk, M.; Hecker, M. and Antelmann, H.: Depletion of thiol-containing proteins in response to quinones in Bacillus subtilis. Mol. Microbiol. 69, 1513-1529 (2008).
  • Gaballa, A.; Antelmann, H.; Aguilar, H.; Khakh, S. K.; Song, K.-B.; Smaldone, G. T. and Helmann, J. D.: The Bacillus subtilis iron-sparing response is mediated by a Fur-regulated small RNA and three small, basic proteins. Proc. Nat. Acad. Sci. USA 105, 11927-11932 (2008).
  • Schweder, T.; Markert, S. and Hecker, M.: Proteomics of marine bacteria. Electrophoresis 29, 2603-2616 (2008).
  • Grumann, D.; Scharf, S. S.; Holtfreter, S.; Kohler, C.; Steil, L.; Engelmann, S., Hecker, M., Völker, U. and Bröker, B. M.: Immune cell activation by enterotoxin gene cluster (egc)-encoded and non-egc superantigens from Staphylococcus aureus. J. Immunol. 181,5054-5061 (2008).
  • Wolff, S.; Hahne, H.; Hecker, M. and Becher, D.: Complementary analysis of the vegetative membrane proteome of the human pathogen Staphylococcus aureus. Mol. Cell Proteomics 7, 1460-1468 (2008).
  • Zweers, J. C.; Barak, I.; Becher, D.; Driessen, A. J. M.; Hecker, M.; Kontinen, V. P; Saller, M. J.; Vavrova, L. and van Dijl, J. M.: Towards the development of Bacillus subtilis as a cell factory for membrane proteins and protein complexes. Microb. Cell Fact. 7,10- (2008).
  • Hahne, H.; Wolff, S., Hecker, M. and Becher, D.: From complementary to comprehensiveness – targeting the membrane proteome of growing Bacillus subtilis by divergent approaches. Proteomics 8, 4123-4136 (2008).
  • Kohler, C.; von Eiff, C.; LIebeke, M.; McNamara, P. J.; Lalk, M.; Proctor, R. A.; Hecker, M. and Engelmann, S.: A defect in menadione biosynthesis induces global changes in gene expression in Staphylococcus aureus. J. Bacteriol. 190, 6351-6364 (2008).
  • Reder, A.; Höper, D.; Weinberg, C.; Gerth, U.; Fraunholz, M. and Hecker, M.: The Spx paralogue MgsR (YqgZ) controls a subregulon within the general stress response of Bacillus subtilis. Mol. Microbiol. 69, 1104-1120 (2008).
  • Hecker, M.; Antelmann, H. and Bernhardt, J.: Gel-based proteomics of gram-positive bacteria: still a powerful tool to address physiological question. Proteomics 8, 4958-4975 (2008).
  • Nagy, G.; Palkovics, T.; Otto, A.; Kusch, H.; Kocsis, B.; Dobrindt, U.; Engelmann, S.; Hecker, M.; Emödy, L.; Pal, T. and Hacker, J.: „Gently rough“: vaccine potential of a Salmonella enterica lipopolysaccharide regulatory mutant. J J. Infec. Dis. 198, 1699-1706 (2008).
  • Schlag, S.; Fuchs, S.; Nerz, C.; Gaupp, R.; Engelmann, S.; Liebeke, M.; Lalk, M.; Hecker, M. and Götz, F.: Characterization of the oxygen-responsive NreABC regulon of Staphylococcus aureus. J. Bacteriol. 190, 7847-7858 (2008).
  • De Buck, E.; Höper, D.; Lammertyn, E.; Hecker, M. and Anné, J.: Differential 2-D protein gel electrophoresis analysis of Legionella pneumophila wild type and Tat secretion mutants. Int. J. Med. Microbiol. 298, 449-461 (2008).
  • Voigt, B.; Antelmann, H.; Albrecht, D.; Ehrenreich, A.; Maurer, K.-H.; Evers, S.; Gottschalk, G.; van Dijl, J. M.; Schweder, T. and Hecker, M.: Cell physiology and protein secretion of Bacillus licheniformis compared to Bacillus subtilis. J. Mol. Microbiol. Biotechnol. 16, 53-68 (2009).
  • Huyen, N. T. T.; Eiamphungporn, W.; Mäder, U.; Liebeke, M.; Lalk, M.; Hecker, M.; Helmann, J. D. and Antelmann, H.: Genome-wide responses to carbonyl electrophiles in Bacillus subtilis: control of the thiol-dependent formaldehyde dehydrogenase AdhA and cysteine proteinase YraA by the MerR-family regulator YraB (AdhR). Mol. Microbiol. 71, 876-894 (2009).
  • Eichstaedt, S.; Gäbler, K.; Below, S.; Müller, C.; Kohler, C.; Engelmann, S.; Hildebrandt, P.; Völker, U.; Hecker, M. and Hildebrandt, J.-P.: Effects of Staphylococcus aureus-hemolysin A on calcium signalling in immortalized human airway epithelial cells. Cell Calcium 45, 165-176 (2009).
  • Hempel, K.; Rosen, R.; Becher, D.; Büttner, K.; Hecker, M. and Ron, E. Z.: Analysis of ultra acidic proteins by the use of anodic acidic gels. Anal. Biochem. 385, 208-214 (2009).
  • Altındiş, E.; Tefon, B. E.; Yıldırım, V.; Ozcengiz, E.; Becher, D.; Hecker, M.; and Ozcengiz, G.: Immunoproteomic analysis of Bordetella pertussis and identification of new immunogenic proteins. Vaccine 27, 542-548 (2009).
  • Chatterjee, I.; Schmitt, S.; Batzilla, C. F.; Engelmann, S.; Keller, A.; Ring, M. W.; Kautenburger, R.; Ziebuhr, W.; Hecker, M.; Preissner, K. T.; Bischoff, M.; Proctor, R. A.; Beck, H. P.; Lenhof, H.-P.; Somerville, G. A. and Herrmann, M.: Staphylococcus aureusClpC ATPase is a late growth phase effector of metabolism and persistence. Proteomics 9, 1152-1176 (2009).
  • Kouwen, T. R. H. M.; van der Ploeg, R.; Antelmann, H.; Hecker; M.; Homuth, G.; Mäder, U. and van Dijl, J. M.: Overflow of a hyper-produced secretory protein from the Bacillus Sec pathway into the Tat pathway for protein secretion as revealed by proteogenomics. Proteomics 9, 1018-1032 (2009).
  • Kouwen, T. R. H. M.; Antelmann, H.; van der Ploeg, R.; Denham, E. L.; Hecker, M. and van Dijl, J. M.:MscL of Bacillus subtilis prevents selective release of cytoplasmic proteins in a hypotonic environment. Proteomics 9, 1033-1043 (2009).
  • Pané-Farré, J.; Jonas, B.; Hardwick, S. W.; Gronau, K.; Lewis, R. J.; Hecker, M. and Engelmann, S.: The role of RsbU in controlling SigB-activity in Staphylococcus aureusfollowing alkaline stress. J. Bacteriol. 191, 2561-2573 (2009).
  • Wecke, T.; Zühlke, D.; Mäder, U.; Jordan, S.; Voigt, B.; Pelzer, S.; Labischinski, H.; Homuth, G.; Hecker, M. and Mascher, T.: Daptomycin versus Friulimicin B: In-depth profiling of the Bacillus subtilis cell envelope stress responses. Antimicrob. Agents Chemother. 53, 1619-1623 (2009).
  • Eberhardt, C.; Engelmann, S.; Kusch, H.; Albrecht, D.; Hecker, M.: Autenrieth, I. B. and Kempf, V. A. J.: Proteomic analysis of the bacterial pathogen Bartonella henselae and identification of immunogenic proteins for serodiagnosis. Proteomics 9, 1967-1981 (2009).
  • Liebeke, M.; Brözel, V. S.; Hecker, M. and Lalk, M: Chemical characterization of soil extract as growth media for the ecophysiological study of bacteria. J. Appl. Microbiol. 83, 161-173 (2009).
  • Hecker, M.; Reder, A.; Fuchs, S.; Pagels, M. and Engelmann, S.: Physiological proteomics and stress/starvation responses in Bacillus subtilis and Staphylococcus aureus. Res. Microbiol. 160, 245-258 (2009).
  • Engelmann, S. and Hecker, M.: A proteomics view of virulence factors of Staphylococcus aureus. In: Bereswill, S. and de Reuse, H. (eds.): Microbial Pathogenomics. Genome Dynamics, 187-197 (2009).
  • Shevchuk, O.; Batzilla, C.; Hägele, S.; Kusch, H.; Engelmann, S.; Hecker, M.; Haas, A.; Heuner, K.; Glöckner, G. and Steinert, M.: Proteomic analysis of Legionella-containing phagosomes isolated from Dictyostelium. Int. J. Med. Microbiol. 299, 489-508 (2009).
  • Michalik, S.; Liebeke, M.; Zühlke, D.; Lalk, M.; Bernhardt, J.; Gerth, U. and Hecker, M.: Proteolysis during lon-term glucose starvation in Staphylococcus aureusCOL. Proteomics 9, 4468-4477 (2009).
  • Liang, C.; Wolz, C.; Herbert, S.; Bernhardt, J.; Engelmann, S.; Hecker, M.; Götz, F. and Dandekar, T.: GENOVA: A rapid genome visualization and functional genomics software. Online J. Bioinform. 10, 201-207 (2009).
  • Below, S.; Konkel, A.; Zeeck, C.; Müller, C.; Kohler, C.; Engelmann, S.; and Hildebrandt, J.-P.: Virulence factors of Staphylococcus aureusinduce Erk-MAP kinase activation and c-Fos expression in S9 and 16HBE14o- human airway epithelial cells. Am. J. Physiol. Lung Cell. Mol. Physiol. 296, L470-L479 (2009).
  • Schwartz, E.; Voigt, B.; Zühlke, D.; Pohlmann, A.; Lenz O.; Albrecht, D.; Schwarze, A.; Kohlmann, Y.; Krause, C.; Hecker, M. and Friedrich, B.: A proteomic view of the facultatively chemolithoautothrophic lifestyle of Ralstonia eutropha H16. Proteomics 9, 5132-5142 (2009).
  • Holtfreter, S.; Nguyen T. T. H.; Wertheim, H.; Steil, L.; Kusch, H.; Truong, Q. P.; Engelmann, S.; Hecker, M.; Völker, U.; van Belkum, A. and Bröker, B. M.: Human immune proteome in experimental colonization with Staphylococcus aureus. Clin. Vaccine Immunol. 16, 1607-1614 (2009).
  • Pöther, D.-C.; Liebeke, M.; Hochgräfe, F.; Antelmann, H.; Becher, D.; Lalk, M.; Lindequist, U.; Borovok, I.; Cohen, G.; Aharonowitz, Y. and Hecker, M.: Diamide triggers mainly S-thiolations in the cytoplasmic proteome of Bacillus subtilis and Staphylococcus aureus. J. Bacteriol. 191, 7520-7530 (2009).
  • Giese, B.; Dittmann, S.; Paprotka, K.; Levin, K.; Weltrowski, A.; Biehler, D.; Lâm, T. T.; Sinha, B.; Fraunholz, M. J.: Staphylococcal alpha-toxin is not sufficient to mediate escape from phagolysosomes in upper-airway epithelial cells. Infect. Immun. 77, 3611-3625 (2009).
  • Becher, D.; Hempel, K.; Sievers, S.; Zühlke, D.; Pané-Farré, J.; Otto, A.; Fuchs, S.; Albrecht, D.; Bernhardt, J.; Engelmann, S.; Völker, U.; van Dijl, J. M. and Hecker, M.: A proteomic view of an important human pathogen - Towards the quantification of the entire Staphylococcus aureusproteome. PLoS ONE 4, e8176 (2009).
  • Bernhardt, J.; Funke, S.; Hecker, M. and Siebourg J.: Visualizing gene expression
  • data via Voronoi treemaps. Voronoi Diagrams in Science and Engineering, ISVD '09. 6th International Symposium on. 0: 233-241. ISBN: 978-0-7695-3781-8 (2009).
  • Liang, C.; Schmid, A.; Lopez-Sanchez, M. J.; Moya, A.; Gross, R.; Bernhardt, J. and
  • Dandekar, T.: JANE: efficient mapping of prokaryotic ESTs and variable length sequence reads on related template genomes. BMC Bioinformatics. 10, 391-404 (2009).
  • MacLellan, S. R.; Helmann, J. D. and Antelmann, H.: The Yvrl alternative factor is essential for acid-stress induction of oxalate decarboxylase in Bacillus subtilis. J. Bacteriol. 191, 931-939 (2009).
  • Kuhla, B.; Albrecht, D.; Kuhla, S. and Metges, C. C.: Proteome analysis of fatty liver in feed deprived dairy cows reveals interaction of fuel sensing, calcium, fatty acid, and glycogen metabolism. Physiol. Genomics 10, 88-89 (2009).
  • Hecker, M.; Becher, D.; Fuchs, S. and Engelmann, S.: A proteomic view of cell physiology and virulence of Staphylococcus aureus. Int. J. Med. Microbiol. 300, 76-87 (2010).
  • Götz, F.; Hacker, J. and Hecker, M.: Pathophysiology of staphylococci in the post-genomic era – Editorial. Int. J. Med. Microbiol. 300, 75 (2010).
  • Schmidl, S. R.; Gronau, K.; Hames, C.; Busse, J.; Becher, D.; Hecker, M. and Stülke, J.: The stability of cytadherence proteins in Mycoplasma pneumoniae requires activity of the protein kinase PrkC. Infect. Immun. 78, 184-192 (2010).
  • Quiel, A.; Jürgen, B.; Piechotta, G.; Le Foll A.-P.; Ziebandt, A.-K.; Kohler, C.; Köster, D.; Engelmann, S.; Erck, C.; Hintsche, R.; Wehland, J.; Hecker, M. and Schweder, T.: Electrical protein array chips fo the detection of staphylococcal virulence factors. Appl. Microbiol. Biotechnol. 85, 1619-1627 (2010).
  • Hempel, K.; Pané-Farré, J.; Otto, A.; Sievers, S.; Hecker, M. and Becher, D.: Quantitative cell surface proteome profiling for sigB dependend protein expression in the human pathogen Staphylococcus aureusvia optimized biotinylation approach. J. Proteome Res. 9, 1579-1590 (2010).
  • Liedert, C.; Bernhardt, J.; Albrecht, D.; Voigt, B.; Hecker, M., Salkinoja-Salonen, M. and Neubauer, P.: Two-dimensional proteome reference map for the radiation-resistant Deinococcus geothermalis. Proteomics 10, 555-563 (2010).
  • Pietack, N.; Becher, D.; Schmidl, S. R.; Saier, M. H.; Hecker, M.; Commichau, F. M. and Stülke, J.: In vitro phosphorylation of key metabolic enzymes from Bacillus subtilis: PrkC phosphorylates enzymes from different branches of basic metabolism. J. Mol. Microbiol. Biotechnol. 18, 129-140 (2010).
  • Miller, M.; Donat, S.; Rakette, S.; Stehle, T.; Kouwen, T. R. H. M.; Diks, S. H.; Dreisbach, A.; Reilman, E.; Gronau, K.; Becher, D.; Peppelenbosch, M. P.; van Dijl, J. M. and Ohlsen, K.: Identification of staphylococcal PknB as a first prokaryotic representative of the proline-directed kinases. PLoS One. 5, e9057 (2010).
  • Ziebandt, A.-K.; Kusch, H.; Degner, M.; Jaglitz, S.; Sibbald; M. J. J. B.; Arends, J. P.; Chlebowicz, M. A.; Albrecht, D.; Pantuček, R.; Doškar, J.; Ziebuhr, W.; Bröker, B. M.; Hecker, M.; van Dijl, J. M. and Engelmann, S.: Proteogenomics uncovers exteme heterogeneity of the Staphylococcus aureusexoproteome due to genomic plasticity and variant gene regulation. Proteomics 10, 1634-1644 (2010).
  • Sievers, S.; Ernst, C.; Geiger, T.; Hecker, M.; Wolz, C.; Becher, D. and Peschel, A.: Changing the phospholipid composition of Staphylococcus aureuscauses distinct changes in membrane proteome and membrane-sensory regulators. Proteomics 10, 1685-1693 (2010).
  • Hahne, H.; Mäder, U.; Otto, A.; Bonn, F.; Steil, L.; Bremer, E.; Hecker, M. and Becher, D.: A comprehensive proteomics and transcriptomics analysis of B. subtilis salt stress adaptation. J. Bacteriol. 192, 870-882 (2010).
  • Schmidl, R. S.; Gronau, K.; Pietack, N.; Hecker, M.; Becher, D. and Stülke, J.: The phosphoproteome of the minimal bacterium Mycoplasma pneumoniae: Analysis of the complete known Ser/Thr kinome suggests the existence of novel kinases. Mol. Cell. Proteomics 9, 1228-1242 (2010).
  • Schmarr, H.-G.; Bernhardt, J.; Fischer, U.; Stephan, A.; Müller, P. and Durner, D.: Two-dimensional gas chromatographic profiling as a tool for a rapid screening of the changes in volatile composition occuring due to microoxygensation of red wines. Anal. Chim. Acta 672, 114-123 (2010).
  • Jürgen, B.; Breitenstein, A.; Urlacher, V.; Büttner, K.; Lin, H.; Hecker, M.; Schweder, T. and Neubauer, P.: Quality control of inclusion bodies in Escherichia coli. Microb. Cell Fact. 9, 41- (2010).
  • Schmarr, H.G. and Bernhardt J.: Profiling analysis of volatile compounds from fruits using comprehensive two-dimensional gas chromategraphy and image processing techniques. J. Chromatogr. A 1217, 566-574 (2010).
  • Hammer, E., Phong, T. Q.; Steil, L.; Klingel, K.; Gesell Salazar, M.; Bernhardt, J.; Kandolf, R.; Kroemer, H. K.; Felix, S. B. and Völker, U.: Viral myocarditis induced by coxsackievirus B3 in A.BY/SnJ mice: Analysis of changes in the myocardial proteome. Proteomics 10, 1-17 (2010).
  • Antelmann, H. and Hecker, M.: The proteomic road map to explore novel mechanisms of bacterial physiology. In: Shah, H. N. and Gharbia, S. E. (eds.): Mass spectrometry for microbial proteomics. John Wiley & Sons, Ltd., Chichester, West Sussex, UK, Part V, Chap. 14, pp.339-366 (2010).
  • Herbert, S.; Ziebandt, A.-K.; Ohlsen, K.; Schäfer, T.; Hecker, M.; Albrecht, D.; Novick, R. and Götz, F.: Repair of global regulators in Staphylococcus aureus8325 and comparative analysis with other clinical isolates. Infect. Immun. 78, 2877-2889 (2010).
  • Pagels, M.; Fuchs, S.; Pané-Farré, J.; Kohler, C.; Menschner, L.; Hecker, M.; McNamarra, P. J.; Bauer, M. C.; von Wachenfeldt, C.; Liebeke, M.; Lalk, M.; Sander, G.; von Eiff, C.; Proctor, R. A. and Engelmann, S.: Redox sensing by a Rex-family repressor is involved in the regulation of anaerobic gene expression in Staphylococcus aureus. Mol. Microbiol. 76, 1142-1161 (2010).
  • Joshi, M.; Mann, S.; Antelmann, H.; Widdick, D.; Fyans, J.; Chandra, G.; Hutchings, M.; Toth, I.; Hecker, M.: Loria, R. and Palmer, T.: The twin arginine protein transport pathway exports multiple virulence proteins in the plant pathogen Streptomyces scabies. Mol. Microbiol. 77, 252-272 (2010).
  • Janssen, H.; Döring, C.; Ehrenreich, A.; Voigt, B.; Hecker, M.; Bahl, H. and Fischer, R. J.: A proteomic and transcriptional view of acidogenic and solventogenic steady-state cells of Clostridium acetobutylicum in a chemostat culture. Appl. Microbiol. Biotechnol. 87, 2209-2226 (2010).
  • Chi, B. K.; Albrecht, D.; Gronau, K.; Becher, D.; Hecker, M. and Antelmann, H.: The redox-sensing regulator YodB senses quinones and diamide via thiol-disulfide switch in Bacillus subtilis. Proteomics 10, 3155-3164 (2010).
  • Chi, B. K.; Kobayashi, K.; Albrecht, D.; Hecker, M. and Antelmann, H.: The paralogous MarR/DUF24-family repressors YodB and CatR control expression of the catechol dioxygenase CatE in Bacillus subtilis. J. Bacteriol.192, 4571-4581 (2010).
  • Fuchs, S.; Mehlan, H.; Kusch, H.; Teumer, A.; Zühlke, D.; Berth, M.; Wolf, C.; Dandekar, T.; Hecker, M.; Engelmann, S. and Bernhardt, J.: Protecs, a comprehensive and powerful storage and analysis system for OMICS data, applied for profiling the anaerobiosis response of Staphylococcus aureusCOL. Proteomics 10, 2982-3000 (2010).
  • Wolf, D.; Kalamorz, F.; Wecke, T.; Jusczak, A.; Mäder, U.; Homuth, G.; Jordan, S.; Kirstein, J.; Hoppert, M.; Voigt, B.; Hecker, M. and Mascher, T.: In-depth profiling of the LiaR response of Bacillus subtilis. J. Bacteriol. 192, 4680-4693 (2010).
  • Sibbald, M. J. J. B.; Winter, T.; van der Kooi-Pol, M. M.; Buist, G.; Tsompanidou, E.; Bosma, T.; Schäfer, T.; Ohlsen, K.; Hecker, M.; Antelmann, H.; Engelmann, S.; van Dijl, J. M.: Synthetic effects of secG and secY2 mutations on exoporoteme biogenesis in Staphylococcus aureus. J. Bacteriol. 192, 3788-3800 (2010).
  • Antelmann, H.: Bakterielle Mechanismen zur Anpassung an reactive elektrophile Spezies (RES). Biospektrum 05.10, 592 (2010).
  • Dreisbach, A.; Hempel, K.; Buist, G.; Hecker, M. and Becher, D.: Profiling the surfacome of Staphylococcus aureus. Proteomics 10, 3082-3096 (2010).
  • Thanh, T. N.; Jürgen, B.; Bauch, M.; Liebeke, M.; Lalk, M.; Ehrenreich, A.; Evers, S.; Maurer, K. H.; Antelmann, H.; Ernst, F.; Homuth, G.; Hecker, M. and Schweder, T.: Regulation of acetoin and 2,3-butanediol utilization in Bacillus licheniformis. Appl. Microbiol. Biotechnol. 87, 2227-2235 (2010).
  • Price, C. E.; Otto, A.; Fusetti, F.; Becher, D.; Hecker, M. and Driessen, A. J.: Differential effect of YidC depletion on the membrane proteome of Escherichia coli under aerobic and anaerobic growth conditions. Proteomics 10, 3235-3247 (2010).
  • Fanous, A.; Hecker, M.; Görg, A.; Parlar, H.; Jacob, F.: Corynebacterium glutamicum as an indicator for environmental cobalt and silver stress – A proteome analysis. J. Environ. Sci. Health B. 45, 666-675 (2010).
  • Paprotka, K.; Giese, B. and Fraunholz, M. J.: Codon-omproved fluoresent proteins in investigation of Staphylococcus aureushost pathogen interactions. J. Microbiol. Meth. 83, 82-86 (2010).
  • Gaballa, A.; Newton, J.; Antelmann, H.; Parsonage, D.; Upton, H.; Rawat, M.; Claiborne, A.; Fahey, R. and Helmann, J. D.: Biosynthesis and functions of bacillithiol, a major low-molecular-weight thiol in Bacilli. Proc. Natl. Acad. Sci. 107, 6482-6486 (2010).
  • Zdziarski, J.; Brzuszkiewicz, E.; Wullt, B.; Liesegang, H.; Biran, D.; Voigt, B.; Grönberg-Hernandez, J.; Ragnarsdottir, B.; Hecker, M.; Ron, E.; Daniel, R.; Gottschalk, G.; Hacker, J.; Svanborg, C. and Dobrindt, U.: Host imprints on bacterial genomes – rapid, divergent evolution in individual patients. PLoS Pathog. 6, e1001078 (2010).
  • Schmidt, F., Scharf, S. S.; Hildebrandt, P.; Burian, M.; Dhople, V.; Kalinka, J.; Gutjahr, M.; Bernhardt, J.; Hammer, E. and Völker, U.: Time resolved quantitative proteome profiling of host-pathogen interactions: The Staphylococcus aureusRN1HG response to human S9 cells after internalization. Proteomics 10, 2801-2811 (2010).
  • Uebe, R.; Voigt, B.; Schweder, T.; Albrecht, D.; Katzmann, E.; Lang, C.; Böttger, L.; Matzanke, B.; Schüler, D.: Deletion of a fur-like gene affects iron homeostasis and magnetosome formation in Magnetospirillum gryphiswaldense. J. Bacteriol. 192, 4192-4204 (2010).
  • Lâm, T. T.; Giese, B.; Chikkaballi, D.; Wolber, W.; Pané-Farré, J.; Schäfer, D.; Engelmann, S.; Fraunholz, M. and Sinha, B.: Phagolysosomal integrity is generally maintained after Staphylococcus aureusinvasion of nonprofessional phagocytes but is modulated by strain 6850. Infect. Immun. 78, 3392-3403 (2010).
  • Antelmann, H. and Zuber, P.: Thiol-based sensory factors. In: Spiro, S. and Dixon, R. (eds.) Sensory mechanisms in bacteria: Molecular aspects of signal recognition. Caister Academic Press Norfolk UK, chapter 8, pp. 199-229 (2010).
  • Mäder, U.; Nicolas, P.; Richard, H.; Bessieres, P. and Aymerich, S.: Comprehensive identification and quantification of microbial transcriptomes by genome-wide unbiased methods. Curr. Opin. Biotech. 22, 1-10 (2010).
  • Elsholz, A. K. W.; Michalik, S.; Zühlke, D.; Hecker, M. and Gerth, U.: CtsR, the Gram-positive master regulator of protein quality control, feels the heat. EMBO J. 29, 3621-3629 (2010).
  • Elsholz, A. K. W.; Gerth, U. and Hecker, M.: Regulation of CtsR activity in low GC, Gram+ bacteria. Adv. Microb. Physiol. 57, 119-144 (2010).
  • Otto, A.; Bernhardt, J.; Meyer, H.; Schaffer, M.; Herbst, F.-A.; Siebourg, J.; Mäder, U.; Lalk, M.; Hecker, M. and Becher, D.: System-wide temporal proteomic profiling in glucose-starved Bacillus subtilis. Nat. Commun., DOI: 10.1038/ncomms1137 (2010).
  • Elsholz, A. K. W.; Hempel, K.; Pöther, D.-C.; Becher, D.; Hecker, M. and Gerth, U.: CtsR inactivation during thiol-specific stress in low GC, Gram+ bacteria. Mol. Microbiol. 79, 772-785 (2011).
  • Saller, M. J.; Otto, A.; Berrelkamp-Lahpor, G. A.; Becher, D.; Hecker, M. and Driessen, A.J.: Bacillus subtilis YqjG is required for genetic competence development. Proteomics 11, 270-282 (2011).
  • Wilmes, B.; Kock, H.; Glagla, S.; Albrecht, D.; Bode, R.; Danchin, A.; Feller, G.; Hecker, M. and Schweder, T.: The cytoplasmic and periplasmic proteome of the psychrophilic bacterium Pseudoalteromonas haloplanktis TAC125 during exponential growth. Appl. Environm. Microbiol. 77, 1276-1283 (2011).
  • Liebeke, M.; Dörries, K.; Zühlke, D.; Bernhardt, J.; Fuchs, S.; Pané-Farré, J.; Engelmann, S.; Völker, U.; Bode, R.; Dandekar, T.; Lindequist, U.; Hecker, M. and Lalk, M.: A metabolomics and proteomics study of the adaptation of Staphylococcus aureusto glucose starvation. Mol. Biosyst. 7, 1241-1253 (2011).
  • Raberg, M.; Peplinski, K.; Heiss, S.; Ehrenreich, A.; Voigt, B.; Döring, C.; Bömeke, M.; Hecker, M. and Steinbüchel, A.: Proteomic and transcriptomic elucidation of the mutant Ralstonia eutropha G+1 with regard to glucose utilization. Appl. Environ. Microbiol. 77, 2058-2070. (2011).
  • Raberg, M.; Bechmann, J.; Brandt, U.; Schlüter, J.; Uischner, B.; Voigt, B.; Hecker, M. and Steinbüchel, A.: Versatile metabolic adaptations of Ralstonia eutropha H16 to a loss of PdhL, the E3 component of the pyruvate dehydrogenase complex. Appl Environ. Microbiol. 77, 2254-2263 (2011).
  • Antelmann, H. and Helmann, J. D.: Thiol-based redox switches and gene regulation. In: Forum reviews on “Redox switches”. Antioxidants & Redox signalling, 14, 1049-1063 (2011).
  • Yıldırım, V.; Özcan, S.; Becher, D.; Büttner, K.; Hecker, M. and Özcengiz, G.: Characterization of proteome alterations in Phanerochaete chrysosporium in response to lead exposure. Proteome Sci. 9, doi: 10.1186/1477-5956-9-12 (2011).
  • Maass, S.; Sievers, S.; Zühlke, D.; Kuzinski, J.; Sappa, P. K.; Muntel, J.; Hessling, B.; Bernhardt, J.; Sietmann, R.; Völker, U.; Hecker, M. and Becher, D.: Efficient, global-scale quantification of absolute protein amounts by integration of targeted mass spectrometry and two-dimensional gel-based proteomics. Anal. Chem. 83, 2677-2684 (2011).
  • Hempel, K.; Herbst, F.A.; Moche, M.; Hecker, M. and Becher, D.: Quantitative proteomic view on secreted, cell surface-associated, and cytoplasmic proteins of the methicillin-resistant human pathogen Staphylococcus aureusunder iron-limited conditions. J. Proteome Res. 10, 1657-1666 (2011).
  • Tefon, B. E.; Maaß, S.; Ozcengiz, E.; Becher, D.; Hecker, M. and Ozcengiz, G.: A comprehensive analysis of Bordetella pertussis surface proteome and identification of new immunogenic proteins. Vaccine 29, 3583-3595 (2011).
  • Eymann, C.; Schulz, S.; Gronau, K.; Becher, D.; Hecker, M. and Price, C. W.: In vivo phosphorylation patterns of key stressosome proteins define a second feedback loop that limits activation of Bacillus subtilis σ(B). Mol. Microbiol. 80, 798-810 (2011).
  • Kusch, K.; Hanke, K.; Holtfreter, S.; Schmudde, M.; Kohler, C.; Erck, C.; Wehland, J.; Hecker, M.; Ohlsen, K.; Bröker, B. and Engelmann, S.: The influence of SaeRS and σB on the expression of superantigens in different Staphylococcus aureusisolates. Int. J. Med. Microbiol. (2011), in press.
  • Liang, L.; Liebeke, M.; Schwarz, R.; Zühlke, D.; Fuchs, S.; Menschner, L.; Engelmann, S.; Wolz, C.; Jaglitz, S.; Bernhardt, J.; Hecker, M.; Lalk, M. and Dandekar, T.: Staphylococcus aureusphysiological growth limitations: Insights from flux calculations built on proteomics and external metabolite data. Protoemics 11, 1915-1935 (2011).
  • van der Ploeg, R.; Mäder, U.; Homuth, G.; Schaffer, M.; Denham, E. L.; Monteferrante, C. G.; Miethke, M.; Marahiel, M. A.; Harwood, C. R.; Winter, T.; Hecker, M.; Antelmann, H.; van Dijl, J. M.: Environmental salinity determines the specificity and need for Tat-dependent secretion of the YwbN protein in Bacillus subtilis. PLoS One 6, e18140 (2011).
  • Kohlmann, Y.; Pohlmann, A.; Otto, A.; Becher, D.; Cramm, R.; Lutte, S.; Schwartz, E.; Hecker, M. and Friedrich, B.: Analyses of soluble and membrane proteomes of <em>Ralstonia eutropha</em> H16 reveal major changes in the protein complement in adaptation to lithoautotrophy. J. Proteome Res. (2011) May 11. [Epub ahead of print]
  • Borgmeier, C.; Voigt, B; Hecker, M. and Meinhardt, F.: Functional analysis of the response regulator DegU in Bacillus megaterium DSM319 and comparative secretome analysis of degSU mutants. Appl. Microbiol. Biotechnol. (2011) May 3. [Epub ahead of print]