2018
  • Keiblinger KM, Riedel K. Sample Preparation for Metaproteome Analyses of Soil and Leaf Litter. Methods Mol Biol. 2018;1841:303-318. PMID:30259495
     
  • Čapek P, Manzoni S, Kaštovská E, Wild B, Diáková K, Bárta J, Schnecker J,Biasi C, Martikainen PJ, Alves RJE, Guggenberger G, Gentsch N, Hugelius G,Palmtag J, Mikutta R, Shibistova O, Urich T, Schleper C, Richter A, ŠantrůčkováH. A plant-microbe interaction framework explaining nutrient effects on primaryproduction. Nat Ecol Evol. 2018 Sep 10. doi: 10.1038/s41559-018-0662-8. [Epubahead of print] PubMed PMID:30201963
     
  • Handorf O, Weihe T, Bekeschus S, Graf AC, Schnabel U, Riedel K, et al. Non-thermal plasma jet treatment negatively affects viability and structure of SC5314 biofilms. Appl Environ Microbiol. 2018;pii: AEM.01163-18. PMID:30143511
     
  • Söllinger A, Tveit AT, Poulsen M, Riedel K, et al. Holistic Assessment of Rumen Microbiome Dynamics through Quantitative Metatranscriptomics Reveals Multifunctional Redundancy during Key Steps of Anaerobic Feed Degradation. mSystems. 2018 Jul-Aug; 3(4): e00038-18.PMID:30116788
     
  • Eymann C, Wachlin G, Albrecht D, et al. Exoproteome Analysis of Human Pathogenic Dermatophyte Species and Identification of Immunoreactive Proteins. Proteomics Clin Appl. 2018 Jun 28;:e1800007. PMID: 29952123
     
  • Neumann-Schaal M, Metzendorf NG, Troitzsch D, Nuss AM, Hofmann JD, Beckstette M, Dersch P, Otto A, Sievers S. Tracking gene expression and oxidative damage of O-stressed Clostridioides difficile by a multi-omics approach. Anaerobe. 2018 May 31. pii: S1075-9964(18)30103-3 29859941
     
  • Gentsch N, Wild B, Mikutta R, Čapek P, Diáková K, Schrumpf M, Turner S, Minnich C, Schaarschmidt F, Shibistova O, Schnecker J, Urich T, Gittel A, Šantrůčková H, Bárta J, Lashchinskiy N, Fuß R, Richter A, Guggenberger G.Temperature response of permafrost soil carbon is attenuated by mineralprotection. Glob Chang Biol. 2018 Aug;24(8):3401-3415. doi: 10.1111/gcb.14316.Epub 2018 Jun 1. PubMed PMID:29774972
     
  • Meyer F, Netzer J, Meinert C, Voigt B, Riedel K, Steinbüchel A,. A proteomic analysis of ferulic acid metabolism in Amycolatopsis sp. ATCC 39116. Appl Microbiol Biotechnol.2018 May 16. PMID: 29766243
     
  • Alves RJE, Minh BQ, Urich T, Von haeseler A, Schleper C. Unifying the global phylogeny and environmental distribution of ammonia-oxidising archaea based on amoA genes. Nat Commun. 2018;9(1):1517, PMID:29666365
     
  • Giacomin P, Kraeuter A, Albornoz E, Jin S, Bengtsson MM, Gordon R, Woodruff T, Urich T, Sarnyai Z, Soares Magalhaes R. Chronic helminth infection in early life perturbs the gut-brain axis, alters behaviour and promotes neuropathology. J Infect Dis, in press. https://doi.org/10.1093/infdis/jiy092
     
  • Santruckova H, Kotas P, Bárta J, Urich T, Čapek P, Palmtag J, Alves R, Biasi C, Diáková K, Gentsch N, Gittel A, Guggenberger G, Hugelius G, Kuhry P, Lashchinsky N, Martikainen P, Mikutta R, Schleper C, Schnecker J, Shibistova O, Wild B, Richter A. Significance of dark CO2 fixation in arctic soils. Soil Biology and Biochemistry, Volume 119, April 2018, Pages 11-21.
     
  • Pjevac P, Meier DV, Markert S, Hentschker C, Schweder T, Becher D, Gruber-Vodicka HR, Richter M, Bach W, Amann R, Meyerdierks A. Metaproteogenomic Profiling of Microbial Communities Colonizing Actively Venting Hydrothermal Chimneys. Front Microbiol. 2018. 308(3):335-348. PMID: 29696004.
     
  • Bengtsson MM, Wagner K, Schwab C, Urich T, Battin TJ. Light availabilityimpacts structure and function of phototrophic stream biofilms across domains andtrophic levels. Mol Ecol. 2018 Jul;27(14):2913-2925. doi: 10.1111/mec.14696. Epub2018 Jun 4. PubMed PMID:29679511; PubMed Central PMCID: PMC6055792.
     
  • Sievers S, Dittmann S, Jordt T, Otto A, Hochgräfe F, Riedel K. Comprehensive redox profiling of the thiol proteome of Clostridium difficile. Mol Cell Proteomics.2018 Mar 1. PMID: 29496906
     
  • Hoyer J, Bartel J, Gómez-Mejia A, Rohde M, Hirschfeld C, Heß N, Sura T, Maaß S, Hammerschmidt S, Becher D. Proteomic response of Streptococcus pneumoniae to iron limitation. Int J Med Microbiol. 2018. [Epub ahead of print]. PMID: 29496408
     
  • Hahn V, Meister M, Hussy S, Cordes A, Enderle G, Saningong A, Schauer F. Enhanced laccase-mediated transformation of diclofenac and flufenamic acid in the presence of bisphenol A and testing of an enzymatic membrane reactor. AMB Express.2018 Feb 24;8(1):28. PMID: 29478084
     
  • Graf A, Lewis RJ, Fuchs S, Pagels M, Engelmann S, Riedel K, Pané-Farré J. The hidden lipoproteome of Staphylococcus aureus. Int J Med Microbiol.2018 Feb 1. PMID: 29454809
     
  • Müller A, Grein F, Otto A, Gries K, Orlov D, Zarubaev V, Girard M, Sher X, Shamova O, Roemer T, François P, Becher D, Schneider T, Sahl HG. Differential daptomycin resistance development in Staphylococcus aureus strains with active and mutated gra regulatory systems. Int J Med Microbiol. 2018. 308(3):335-348. PMID: 29429584
     
  • Wild B, Alves R, Bárta J, Čapek P, Gentsch N, Gittel A, Guggenberger G, Hugelius G, Knoltsch A, Kuhry P, Lashchinskiy N, Mikutta R, Palmtag J, Prommer J, Šantrůčková H, Schnecker J, Shibistova O, Takriti M, Urich T, Richter A. Amino acid production exceeds plant nitrogen demand in Siberian tundra. Environmental Research Letters, 13 (2018) 034002.
     
  • Treffon J, Block D, Moche M, Reiß S, Fuchs S, Engelmann S, Becher D, Langhanki L, Mellmann A, Peters G, Kahl BC. Adaptation of Staphylococcus aureus to the airways of cystic fibrosis patients by the up-regulation of superoxide dismutase M and iron-scavenging proteins. J Infect Dis. 2018. [Epub ahead of print]. PMID: 29325044
     
  • García-Pérez AN, de Jong A, Junker S, Becher D, Chlebowicz MA, Duipmans JC, Jonkman MF, van Dijl JM. From the wound to the bench: exoproteome interplay between wound-colonizing Staphylococcus aureus strains and co-existing bacteria. Virulence. 2017. 9(1):363-378. PMID: 29233035
     
  • Handtke S, Albrecht D, Otto A, Becher D, Hecker M, Voigt B,. The Proteomic Response of Bacillus pumilus Cells to Glucose Starvation. Proteomics.2018 Jan;18(1). PMID: 29193752
     
  • Junker SMaaß S, Otto A, Michalik S, Morgenroth F, Gerth UHecker MBecher D. Spectral library based analysis of arginine phosphorylations in Staphylococcus aureusMol Cell Proteomics. 2018 17:335-348.  PMID: 29183913
     
  • Liu Y, Pessi G, Riedel K, Eberl L. Identification of AHL- and BDSF-Controlled Proteins in Burkholderia cenocepacia by Proteomics. Methods Mol Biol.2018;1673:193-202. PMID: 29130174
     
  • Dosdall R, Preuß F, Hahn V, Schlüter R, Schauer F. Decay of the water reed Phragmites communis caused by the white-rot fungus Phlebia tremellosa and the influence of some environmental factors. Appl Microbiol Biotechnol.2018 Jan;102(1):345-354. PMID: 29082419
     
  • Raschdorf O, Bonn F, Zeytuni N, Zarivach R, Becher D, Schüler D. A quantitative assessment of the membrane-integral sub-proteome of a bacterial magnetic organelle. J Proteomics. 2018. 172:89-99. PMID: 29054541
     
  • Hentschker C, Dewald C, Otto A, Büttner K, Hecker M, Becher D. Global quantification of phosphoproteins combining metabolic labeling and gel-based proteomics in B. pumilus. ELECTROPHORESIS. 2017. 39(2):334-343. PMID: 28944503

 

2017
  • Ünsaldı E, Kurt-Kızıldoğan A, Voigt B, Becher D, Özcengiz G. Proteome-wide alterations in an industrial clavulanic acid producing strain of Streptomyces clavuligerusSynth and Syst Biotechnol. 2017. 2(1):39-48. PMID: 29062960.

  • Maier TV, Lucio M, Lee LH, VerBerkmoes NC, Brislawn CJ, Bernhardt J, Lamendella R, McDermott JE, Bergeron N, Heinzmann SS, Morton JT, González A, Ackermann G, Knight R, Riedel K, Krauss RM, Schmitt-Kopplin P, Jansson JK. Impact of Dietary Resistant Starch on the Human Gut Microbiome, Metaproteome, and Metabolome. MBio.2017 Oct 17;8(5). PMID: 29042495.

  • Vivod R, Oetermann S, Hiessl S, Gutsche S, Remmers N, Meinert C, Voigt B, Riedel K, Steinbüchel A,. Oligo(cis-1,4-isoprene) aldehyde-oxidizing dehydrogenases of the rubber-degrading bacterium Gordonia polyisoprenivorans VH2. Appl Microbiol Biotechnol.2017 Sep 27. PMID: 28956111.
  • Meier AK, Worch S, Böer E, Hartmann A, Mascher M, Marzec M,, Scholz U, Riechen J, Baronian K, Schauer F, Bode R, Kunze G. Agdc1p – a Gallic Acid Decarboxylase Involved in the Degradation of Tannic Acid in the Yeast Blastobotrys (Arxula) adeninivorans. Front Microbiol.2017 Sep 15;8:1777. PMID: 28966611.

  • Michalik S, Depke M, Murr A, Gesell Salazar M, Kusebauch U, Sun Z, Meyer TC, Surmann K, Pförtner H, Hildebrandt P, Weiss S, Palma Medina LM, Gutjahr M, Hammer E, Becher D, Pribyl T, Hammerschmidt S, Deutsch EW, Bader SL, Hecker M, Moritz RL, Mäder U, Völker U, Schmidt F. A global Staphylococcus aureus proteome resource applied to the in vivo characterization of host-pathogen interactions. Sci Rep. 2017. 7(1):9718. PMID: 28887440.

  • Abendroth U, Adlung N, Otto A, Grüneisen B, Becher D, Bonas U. Identification of new protein-coding genes with a potential role in the virulence of the plant pathogen Xanthomonas euvesicatoria. BMC Genomics. 2017. 18:625. PMID: 28814272.

  • Hillion M, Imber M, Pedre B, Bernhardt J, Saleh M, Loi VV, Maaß S, Becher D, Astolfi Rosado L, Adrian L, Weise C, Hell R, Wirtz M, Messens J, Antelmann H. The glyceraldehyde-3-phosphate dehydrogenase GapDH of Corynebacterium diphtheriae is redox-controlled by protein S-mycothiolation under oxidative stress. Sci Rep. 2017. 7:5020. PMID: 28694441.

  • Arora G, Sajid A, Virmani R, Singhal A, Kumar CMS, Dhasmana N, Khanna T, Maji A, Misra R, Molle V, Becher D, Gerth U, Mande SC, Singh Y. Ser/Thr protein kinase PrkC-mediated regulation of GroEL is critical for biofilm formation in Bacillus anthracis. NPJ Biofilms Microbiomes. 2017. 3:7. PMID: 28649408.

  • Lindequist U, Schauer F. In Memoriam: Prof. Dr. Hanns Kreisel (1931-2017). Int J Med Mushrooms.2017;19(3):277-278. PMID: 28605343.

  • Cernava T, Erlacher A, Aschenbrenner IA, Krug L, Lassek C, Riedel K, Grube M, Berg G. Deciphering functional diversification within the lichen microbiota by meta-omics. Microbiome.2017 Jul 19;5(1):82. PMID: 28724401.

  • Arora G, Sajid A, Virmani R, Singhal A, Kumar CMS, Dhasmana N, Khanna T, Maji A, Misra R, Molle V, Becher D, Gerth U, Mande SC, Singh Y. Ser/Thr protein kinase PrkC-mediated regulation of GroEL is critical for biofilm formation in Bacillus anthracis. NPJ Biofilms Microbiomes. 2017. 3:7. PMID: 28649408.

  • Lindequist U, Schauer F. In Memoriam: Prof. Dr. Hanns Kreisel (1931-2017). Int J Med Mushrooms.2017;19(3):277-278. PMID: 28605343.

  • Otto A, Maaß S, Bonn F, Büttner K, Becher D. An easy and fast protocol for affinity bead-based protein enrichment and storage of proteome samples. Methods Enzymol. 2017. 585:1-13.
  • Hillion M, Imber M, Pedre B, Bernhardt J, Saleh M, Loi VV, Maaß S, Becher D, Rosado LA, z Adrian L, Weise C, Hell R, Wirtz M, Messens J, Antelmann H. The glyceraldehyde-3-phosphate dehydrogenase GapDH of Corynebacterium diphtheriae is redox-controlled by protein S-mycothiolation under oxidative stress. Sci Rep. 2017. 7(1):1195.
  • Depke M, Murr A, Gesell Salazar M, Kusebauch U, Zhi S, Meyer T, Surmann K, Pförtner H,  Hildebrandt P, Weiss S, Palma Medina LM, Hammer E, Becher D, Hammerschmidt S, Deutsch E, Hecker M, Moritz R, Mäder U, Völker U, Schmidt F. A global Staphylococcus aureus proteome resource applied to the in vivo characterization of host-pathogen interactions. Sci Rep. [Epub ahead of print]
  • Abendroth U, Adlung N, Otto A, Grüneisen B, Becher D, Bonas U. Identification of new protein-coding genes with a potential role in the virulence of the plant pathogen Xanthomonas euvesicatoria. BMC Genomics. 2017. 18(1)625

  • Schären M, Kiri K, Riede S, Gardener M, Meyer U, Hummel J, Urich T, Breves G, Dänicke S. Alterations in the Rumen Liquid-, Particle- and Epithelium-Associated Microbiota of Dairy Cows during the Transition from a Silage- and Concentrate-Based Ration to Pasture in Spring. Front Microbiol.2017 May 2;8:744. PMID: 28512453.

  • Weitzel JM, Viergutz T, Albrecht D, Bruckmaier R, Schmicke M, Tuchscherer A, Koch F, Kuhla B. Hepatic thyroid signaling of heat-stressed late pregnant and early lactating cows. J Endocrinol.2017 Aug;234(2):129-141. PMID: 28500083.

  • Mekonnen SA, Palma Medina LM, Glasner C, Tsompanidou E, de Jong A, Grasso S, Schaffer M, Mäder U, Larsen AR, Gumpert H, Westh H, Völker U, Otto A, Becher D, van Dijl JM. Signatures of cytoplasmic proteins in the exoproteome distinguish community- and hospital-associated methicillin-resistant Staphylococcus aureus USA300 lineages. Virulence. 2017. 1-17 [Epub ahead of print]. PMID:  28475476.

  • Hillion M, Bernhardt J, Busche T, Rossius M, Maaß S, Becher D, Rawat M, Wirtz M, Hell R, Rückert C, Kalinowski J, Antelmann H. Monitoring global protein thiol-oxidation and protein S-mycothiolation in Mycobacterium smegmatis under hypochlorite stress. Sci Rep. 2017. 7(1):1195. PMID: 28446771.

  • Handtke S, Albrecht D, Zühlke D, Otto A, Becher D, Schweder T, Riedel K, Hecker M, Voigt B,. Bacillus pumilus KatX2 confers enhanced hydrogen peroxide resistance to a Bacillus subtilis PkatA::katX2 mutant strain. Microb Cell Fact.2017 Apr 26;16(1):72. PMID: 28446175.

  • Schmidt R, Jager V, Zühlke D, Wolff C, Bernhardt J, Cankar K, Beekwilder J, Ijcken WV, Sleutels F, Boer W, Riedel K, Garbeva P. Fungal volatile compounds induce production of the secondary metabolite Sodorifen in Serratia plymuthica PRI-2C. Sci Rep.2017 Apr 13;7(1):862. PMID: 28408760.

  • Giovannelli D, Sievert SM, Hügler M, Markert S, Becher D, Schweder T, Vetriani C. Insight into the evolution of microbial metabolism from the deep-branching bacterium, Thermovibrio ammonificans. Elife. 2017. 6. pii: e18990. PMID: 28436819.

  • Meinert C, Brandt U, Heine V, Beyert J, Schmidl S, Wübbeler JH, Voigt B, Riedel K, Steinbüchel A,. Proteomic analysis of organic sulfur compound utilisation in Advenella mimigardefordensis strain DPN7T. PLoS One.2017 Mar 30;12(3):e0174256. PMID: 28358882.

  • Mazzoli R, Riedel K, Pessione E. Editorial: Bioactive Compounds from Microbes. Front Microbiol.2017 Mar 8;8:392. PMID: 28337192.

  • Eymann C, Lassek C, Wegner U, Bernhardt J, Fritsch OA, Fuchs S, Otto A, Albrecht D, Schiefelbein U, Cernava T, Aschenbrenner I, Berg G, Grube M, Riedel K. Symbiotic interplay of fungi, algae, and bacteria within the lung lichen Lobaria pulmonaria  L. Hoffm. as assessed by 'state-of-the-art' metaproteomics. J Proteome Res.2017 Mar 14. PMID: 28290203.

  • Hehemann JH, Truong LV, Unfried F, Welsch N, Kabisch J, Heiden SE, Junker S, Becher D, Thürmer A, Daniel R, Amann R, Schweder T. Aquatic adaptation of a laterally acquired pectin degradation pathway in marine gammaproteobacteria. Environ Microbiol. 2017. 19(6):2320-2333. PMID: 28276126.

  • Schmölders J, Manske C, Otto A, Hoffmann C, Steiner B, Welin A, Becher D, Hilbi H. Comparative proteomics of purified pathogen vacuoles correlates intracellular replication of Legionella pneumophila with the small GTPase Ras-related protein 1 (Rap1). Mol Cell Proteomics. 2017. 16(4):622-641. PMID: 28183814.

  • Loy A, Pfann C, Steinberger M, Hanson B, Herp S, Brugiroux S, Gomes Neto JC, Boekschoten MV, Schwab C, Urich T, Ramer-Tait AE, Rattei T, Stecher B, Berry D. Lifestyle and Horizontal Gene Transfer-Mediated Evolution of Mucispirillum schaedleri, a Core Member of the Murine Gut Microbiota. mSystems.2017 Jan 31;2(1). PMID: 28168224.

  • Schären M, Drong C, Kiri K, Riede S, Gardener M, Meyer U, Hummel J, Urich T, Breves G, Dänicke S. Differential effects of monensin and a blend of essential oils on rumen microbiota composition of transition dairy cows. J Dairy Sci.2017 Apr;100(4):2765-2783. PMID: 28161182.

  • Otto A, Maaß S, Bonn F, Büttner K, Becher D. An easy and fast protocol for affinity bead-based protein enrichment and storage of proteome samples. Methods Enzymol. 2017. 585:1-13. PMID: 28109424.

  • Zühlke MK, Schlüter R, Mikolasch A, Zühlke D, Giersberg M, Schindler H, Henning AK, Frenzel H, Hammer E, Lalk M, Bornscheuer UT, Riedel K, Kunze G, Schauer F. Biotransformation and reduction of estrogenicity of bisphenol A by the biphenyl-degrading Cupriavidus basilensis. Appl Microbiol Biotechnol.2017 Jan 3. PMID: 28050635.

  • Choma M, Bárta J, Šantrůčková H, Urich T. Low abundance of Archaeorhizomycetes among fungi in soil metatranscriptomes. Sci Rep.2016 Dec 23;6:38455. PMID: 28009005.
  • Bonn F, Maaß S, Becher D. Sample preparation for mass spectrometry-based absolute protein quantification in antibiotic stress research. Methods Mol Biol. 2017. 1520:281-289. PMID: 27873259.

  • Ponnudurai R, Kleiner M, Sayavedra L, Petersen JM, Moche M, Otto A, Becher D, Takeuchi T, Satoh N, Dubilier N, Schweder T, Markert S. Metabolic and physiological interdependencies in the Bathymodiolus azoricus symbiosis. ISME J. 2017. 11(2):463-477. PMID: 27801908.

  • Bonn F, Maass S, Becher D. Sample preparation for mass spectrometry-based absolute protein quantification in antibiotic stress research. Methods Mol Biol. 2017. 1520:281-289. PMID:  27873259.

  • Schlüter, R, Schauer, F, Biotransformation and detoxification of environmental pollutants with aromatic structures by yeasts.pp. 323-369 (Chapter 6) In: Prospects in Utilizing Yeast Diversity for Human Welfare (eds.: Kunze, G. and Satyanarayana, T.), Springer, New York 2017.

  • Dao T,G Guggenberger, N Gentsch, R Mikutta, L Sauheitl, O Shibistova, B Wild, J Schnecker, J Bárta, P Capek, A Gittel, N Lashchinskiy, T Urich, H Šantrůčková, A Richter. Fate of carbohydrates and lignin in north-east Siberian permafrost soils. Soil Biology and Biochemistry 116, 311-322.

  • Thompson L, et al. A communal catalogue reveals Earth’s multiscale microbial diversity. Nature 551, 2017, pages 457–463.
2016

Khairy H,, Meinert C, Wübbeler JH, Poehlein A, Daniel R, Voigt B, Riedel K, Steinbüchel A,. Genome and Proteome Analysis of Rhodococcus erythropolis MI2: Elucidation of the 4,4´-Dithiodibutyric Acid Catabolism. PLoS One.2016 Dec 15;11(12):e0167539. PMID: 27977722.

Ponnudurai R, Kleiner M, Sayavedra L, Petersen JM, Moche M, Otto A, Becher D, Takeuchi T, Satoh N, Dubilier N, Schweder T, Markert S. Metabolic and physiological interdependencies in the Bathymodiolus azoricus symbiosis. ISME J. 2016. [Epub ahead of print] PMID:27801908

Knight AM, Nobili A, van den Bergh T, Genz M, Joosten HJ, Albrecht D, Riedel K, Pavlidis IV,, Bornscheuer UT. Bioinformatic analysis of fold-type III PLP-dependent enzymes discovers multimeric racemases. Appl Microbiol Biotechnol.2016 Oct 27. PMID: 27787586.

König S, Gros O, Heiden SE, Hinzke T, Thürmer A, Poehlein A, Meyer S, Vatin M, Mbéguié-A-Mbéguié D, Tocny J, Ponnudurai R, Daniel R, Becher D, Schweder T, Markert S. Nitrogen fixation in a chemoautotrophic lucinid symbiosis. Nat Microbiol. 2016. 2:16193. PMID: 2777569

Engelmann S, Hecker M. Pathoproteomics of pathogenic microorganisms. Proteomics Clin Appl.2016 Oct;10(9-10):895-896. PMID: 27723267.

Stobernack T, Glasner C, Junker S, Gabarrini G, de Smit M, de Jong A, Otto A, Becher D, van Winkelhoff AJ, van Dijl JM. The Extracellular Proteome and Citrullinome of the Oral Pathogen Porphyromonas gingivalis. J Proteome Res. 2016. [Epub ahead of print]. PMID: 27712078

Zwicker P, Schultze N, Niehs S, Methling K, Wurster M, Albrecht D, Bernhardt J, Wachlin G, Lalk M, Lindequist U, Haertel B. A proteomic approach for the identification of immunotoxic properties of Tulipalin A. Proteomics.2016 Sep 30. PMID: 27687999.

Lappann M, Otto A, Brauer M, Becher D, Vogel U, Johswich K. Impact of moderate temperature changes on Neisseria meningitidis adhesive phenotypes and proteome. Inf ect Immun. 2016. [Epub ahead of print]. PMID: 27672084

Smirnov A, Förstner KU, Holmqvist E, Otto A, Günster R, Becher D, Reinhardt R, Vogel J. Grad-seq guides the discovery of ProQ as a major small RNA-binding protein. Proc Natl Acad Sci U S A. 2016; 113(41):11591-11596. PMID: 27671629


Mikolasch A, Reinhard A, Alimbetova A, Omirbekova A, Pasler L, Schumann P, Kabisch J, Mukasheva T, Schauer F. From oil spills to barley growth – oil-degrading soil bacteria and their promoting effects. J Basic Microbiol.2016 Sep 14. PMID:27624187.

Otto A, Biran D, Sura T, Becher D, Ron EZ. Proteomics of septicemic Escherichia coli. Proteomics Clin Appl. 2016. 10(9-10):1020-1024. PMID: 27604157

Keiblinger KM, Fuchs S, Zechmeister-Boltenstern S, Riedel K. Soil and leaf litter metaproteomics-a brief guideline from sampling to understanding. FEMS Microbiol Ecol.2016 Nov;92(11). PMID: 27549116.

Wieners M, Reinhard A, Förschler M, Scholler M. The Rare Polypore Antrodiella citrinella and Its Special Phenology in the Black Forest National Park (Germany). J Biodivers Endanger Species. 2016 Oct; 4:168. doi:10.4172/2332-2543.1000168

Otto A, Maaß S, Lassek C, Becher D, Hecker M, Riedel K, Sievers S. The protein inventory of Clostridium difficile grown in complex and minimal medium. Proteomics Clin Appl.2016 Oct;10(9-10):1068-1072. PMID: 27511832.

Zühlke D, Dörries K, Bernhardt J, Maaß S, Muntel J, Liebscher V, Pané-Farré J, Riedel K, Lalk M, Völker U, Engelmann S, Becher D, Fuchs S, Hecker M. Costs of life – Dynamics of the protein inventory of Staphylococcus aureus during anaerobiosis. Sci Rep.2016 Jun 27;6:28172. PMID: 27344979.

Vu CH, Kolata J,, Stentzel S, Beyer A, Gesell Salazar M, Steil L, Pané-Farré J, Rühmling V, Engelmann S,,, Götz F, van Dijl JM, Hecker M, Mäder U, Schmidt F, Völker U, Bröker BM. Adaptive immune response to lipoproteins of Staphylococcus aureus in healthy subjects. Proteomics.2016 Oct;16(20):2667-2677. PMID: 27324828.

Becker KW, Elling FJ, Yoshinaga MY, Söllinger A, Urich T, Hinrichs KU. Unusual butane- and pentanetriol-based tetraether lipids in Methanomassiliicoccus luminyensis, a representative of the seventh order of methanogens. Appl Environ Microbiol.2016 May 13. PMID: 27208108.

López-Mondéjar R, Zühlke D, Větrovský T, Becher D, Riedel K, Baldrian P. Decoding the complete arsenal for cellulose and hemicellulose deconstruction in the highly efficient cellulose decomposer Paenibacillus O199. Biotechnol Biofuels.2016 May 14;9:104. PMID: 27186238.

Wild B, Gentsch N, Čapek P, Diáková K, Alves RJ,, Bárta J, Gittel A,, Hugelius G, Knoltsch A,, Kuhry P, Lashchinskiy N, Mikutta R, Palmtag J, Schleper C,, Schnecker J, Shibistova O, Takriti M, Torsvik VL, Urich T, Watzka M, Šantrůčková H, Guggenberger G,, Richter A,. Plant-derived compounds stimulate the decomposition of organic matter in arctic permafrost soils. Sci Rep.2016 May 9;6:25607. PMID: 27157964.

López-Mondéjar R, Zühlke D, Becher D, Riedel K, Baldrian P. Cellulose and hemicellulose decomposition by forest soil bacteria proceeds by the action of structurally variable enzymatic systems. Sci Rep.2016 Apr 29;6:25279. PMID: 27125755.

Kasprzak J, Rauter M, Riechen J, Worch S, Baronian K, Bode R, Schauer F, Kunze G. Characterization of an Arxula adeninivorans alcohol dehydrogenase involved in the metabolism of ethanol and 1-butanol. FEMS Yeast Res.2016 May;16(3). PMID: 26912215.

Battin TJ, Besemer K, Bengtsson MM, Romani AM, Packmann AI. The ecology and biogeochemistry of stream biofilms. Nat Rev Microbiol.2016 Mar 14;14(4):251-63. PMID: 26972916.

Lassek C, Berger A, Zühlke D, Wittmann C, Riedel K. Proteome and carbon flux analysis of Pseudomonas aeruginosa clinical isolates from different infection sites. Proteomics. 2016 Mar 9. doi: 10.1002/ [Epub ahead of print] PMID: 201500228.

Noel SJ, Højberg O, Urich T, Poulsen M. Draft Genome Sequence of “Candidatus Methanomethylophilus” sp. 1R26, Enriched from Bovine Rumen, a Methanogenic Archaeon Belonging to the Methanomassiliicoccales Order. Genome Announc.2016 Feb 18;4(1).

Bonn F, Pané-Farré J, Schlüter R, Schaffer M, Fuchs S, Bernhardt J, Riedel K, Otto A, Völker U, van Dijl JM, Hecker M, Mäder U, Becher D.Global analysis of the impact of linezolid onto virulence factor production in S. aureus USA300. Int J Med Microbiol. 2016 Feb 17. pii: S1438-4221(16)30009-1. doi: 10.1016/j.ijmm.2016.02.004. [Epub ahead of print] PMID: 26996810.

Maaß S, Becher D. Methods and applications of absolute protein quantification in Microbial Systems. J Proteomics. 2016. 136:222-33. PMID: 26825536

Vanzo E, Merl-Pham J, Velikova V, Ghirardo A, Lindermayr C, Hauck SM, Bernhardt J, Riedel K, Durner J, Schnitzler JP. Modulation of protein S-nitrosylation by isoprene emission in poplar. Plant Physiol.2016 Feb 5. PMID: 26850277.

Dietz S, Lassek C, Mack SL, Ritzmann M, Stadler J, Becher D, Hoelzle K, Riedel K, Hoelzle LE. Updating the proteome of the uncultivable hemotrophic Mycoplasma suis in experimentally infected pigs. Proteomics.2016 Feb;16(4):609-13. PMID: 26678042.

Aurass P, Gerlach T, Becher D, Voigt B, Karste S, Bernhardt J, Riedel K, Hecker M, Flieger A. Life Stage-specific Proteomes of Legionella pneumophila Reveal a Highly Differential Abundance of Virulence-associated Dot/Icm effectors. Mol Cell Proteomics.2016 Jan;15(1):177-200. PMID: 26545400.

Beulig F, Urich T, Nowak M, Gleixner G, Trumbore S, Gilfillan G, Fjelland K, Küsel K. Altered carbon turnover processes and microbiomes in soils under longterm extremely high CO2 exposure. Nature Microbiology 1, 15025, AOP 27th Jan. 2016. Highlighted in accompanying “News and Views” commentary article by J. Schimel “Microbial ecology: linking omics to biogeochemistry.”

Söllinger A, Schwab C, Weinmaier T, Tveit AT, Loy A, Schleper C, Urich T. Phylogenetic and genomic analysis of Methanomassiliicoccales in wetlands and animal intestinal tracts reveals clade-specific habitat preferences. FEMS Microbiology Ecology, 2016 Jan;92(1).

Mikolasch A, Hildebrandt O, Schlüter R, Hammer E, Witt S, Lindequist U. Targeted synthesis of novel β-lactam antibiotics by laccase-catalyzed reaction of aromatic substrates selected by pre-testing for their antimicrobial and cytotoxic activity. Appl Microbiol Biotechnol.2016 Jan 18. PMID: 26780358.

Zühlke M-K, Schlüter R, Henning A-K, Lipka M, Mikolasch A, Schumann P, Giersberg M, Kunze G, Schauer F. A novel mechanism of conjugate formation of bisphenol A and its analogues by Bacillus amyloliquefaciens: Detoxification and reduction of estrogenicity of bisphenols. Int Biodeterior Biodegrad. 2016 Jan; 109:165-173.

Schlippert M, Mikolasch A, Hahn V, Schauer F. Enzymatic thiol Michael addition using laccases: Multiple C-S bond formation between p-hydroquinones and aromatic thiols. J Mol Catal B-Enzym. 2016 Jan;126: 106–114.

Wendler S, Otto A, Ortseifen V, Bonn F, Neshat A, Schneiker-Bekel S, Wolf T, Zemke T, Wehmeier UF, Hecker M, Kalinowski J, Becher D, Pühler A. Comparative proteome analysis of Actinoplanes sp. SE50/110 grown with maltose or glucose shows minor differences for acarbose biosynthesis proteins but major differences for saccharide transporters. J Proteomics. 2016. 131:140-8. PMID: 26597626

Dallinger, A; Duldhardt; I, Kabisch, J; Schlüter, R; Schauer, F, Biotransformation of cyclohexane and related alicyclic hydrocarbons by Candida maltosa and Trichosporon species, INTERNATIONAL BIODETERIORATION AND BIODEGRADATION 2016; 107: 132-139.

Kasprzak, J; Rauter, M; Denter, S; Becker, K; Baronian, K; Bode, R; Schauer, F; Piontek, M; Vorbrodt, H.-M, Kunze, G,Synthesis of ethyl (R)-mandelate using recombinant Carboxydothermus hydrogenoformans alcohol dehydrogenase produced by two yeast species, Journal of Molecular Catalysis B: Enzymatic 2016; 133: 176-186.

Hofmann, K, Kreisel, H, Kordon, K, Preuss, F, Kües, U, Schauer, F, The key role of lignin decomposing fungi in the decay of roofs thatched with water reed, MYCOLOGICAL PROGRESS 2016; 15: Article number 35 (7 pages).

Kasprzak, J., Bischoff, F., Rauter, M., Becker, K., Baronian, K., Bode, Rüdiger., Schauer, F; Vorbrodt, H.-M., Kunze, G, Synthesis of 1-(S)-phenylethanol and ethyl (R)-4-chloro-3-hydroxybutanoate using recombinant Rhodococcus erythropolis alcohol dehydrogenase produced  by two yeast species, BIOCHEM. ENGINEERING JOURNAL 2016; 106: 107-117.

2015

Berry D, Kuzyk O, Rauch I, Heider S, Schwab C, Hainzl E, Decker T, Müller M, Strobl B, Schleper C, Urich T, Wagner M, Kenner L, Loy A. Intestinal Microbiota Signatures Associated with Inflammation History in Mice Experiencing Recurring Colitis. Front Microbiol.2015 Dec 15;6:1408.

Geisen S, Hünninghaus M, Dumack K, Koller R, Urich T, Bonkowski M. The soil food web revisited: diverse and widespread mycophagous soil protists. Soil Biology and Biochemistry, 94, 10-18. AOP 27. Nov. 2015. doi:10.1016/j.soilbio.2015.11.010

Heazlewood JL,, Schrimpf SP, Becher D, Riedel K, Tholey A, Bendixen E. Multi-Organism Proteomes (iMOP): Advancing our Understanding of Human Biology. Proteomics 15, 2885-94. PMID: 26331910.

Moche M, Schlüter R, Bernhardt J, Plate K, Riedel K, Hecker M, Becher D. Time-Resolved Analysis of Cytosolic and Surface-Associated Proteins of Staphylococcus aureus HG001 under Planktonic and Biofilm Conditions. J Proteome Res.2015 Sep 4;14(9):3804-22. PMID: 26152824.

Bischoff F, Litwińska K, Cordes A, Baronian K, Bode R, Schauer F, Kunze G. Three New Cutinases from the Yeast Arxula adeninivorans That Are Suitable for Biotechnological Applications. Appl Environ Microbiol.2015 Aug 15;81(16):5497-510. PMID: 26048925.

Kaval KG, Hahn B, Tusamda N, Albrecht D, Halbedel S. The PadR-like transcriptional regulator LftR ensures efficient invasion of Listeria monocytogenes into human host cells. Front Microbiol.2015 Jul 28;6:772. PMID: 26284051.

Capek P, Diakova K, Dickopp J, Barta J, Wild B, Schnecker J, Alves R, Aiglsdorfer S, Gerg Guggenberger G, Gentsch N, Hugelius G, Lashchinsky N, Gittel A, Schleper C, Mikutta R, Palmtag J, Shibistova O, Urich T, Richter A, Santruckova H. The effect of warming on the vulnerability of subducted organic carbon in arctic soils. Soil Biology and Biochemistry. Advanced online publication 4th August 2015.

Hahn V, Mikolasch A, Kuhlisch C, Schauer F. Laccase-mediated multi-step homo- and heteromolecular reactions of ortho-dihydroxylated aromatic compounds and mono- or diaminated substances resulting in C-C, C-O and C-N bonds. J Mol Catal B-Enzym. 2015 Aug; 122: 56–63.

Geisen S,, Rosengarten J, Koller R,, Mulder C, Urich T,, Bonkowski M. Pack hunting by a common soil amoeba on nematodes. Environ Microbiol.2015 Jun 16. PMID: 26079718.

Martins ML,Pinto UM, Riedel K, Vanetti MC. Milk-deteriorating exoenzymes from Pseudomonas fluorescens 041 isolated from refrigerated raw milk. Braz J Microbiol.2015 Mar 31;46(1):207-17. PMID: 26221110.

Kohler C,, Lourenço RF, Bernhardt J, Albrecht D, Schüler J, Hecker M, Gomes SL. A comprehensive genomic, transcriptomic and proteomic analysis of a hyperosmotic stress sensitive α-proteobacterium. BMC Microbiol.2015 Mar 26;15:71. PMID: 25879753.

Stopnisek N, Zühlke D, Carlier A, Barberán A, Fierer N, Becher D, Riedel K, Eberl L, Weisskopf L.  Molecular mechanisms underlying the close association between soil Burkholderia and fungi. ISME J. 2015 May 19. doi: 10.1038/ismej.2015.73. PMID: 25989372.

Mangiapane E, Mazzoli R, Pessione A, Svensson B, Riedel K, Pessione E. Ten years of subproteome investigations in lactic acid bacteria: a key for food starter and probiotic typing. J Proteomics. 2015 May 6. pii: S1874-3919(15)00209-2. doi: 10.1016/j.jprot.2015.04.028. [Epub ahead of print] PMID: 25957532

Voigt B, Albrecht D, Sievers S, Becher D, Bongaerts J, Evers S, Schweder T, Maurer KH, Hecker M. High-resolution proteome maps of Bacillus licheniformis cells growing in minimal medium. Proteomics.2015 Apr 13. PMID: 25867794.

Geisen S, Tveit A, Clark I, Richter A, Svenning MM, Bonkowski M, Urich T. Metatranscriptomic census of active protists in soils. ISME J, AOP 27 March 2015; doi:10.1038/ismej.2015.30. PMID: 25822483.

Gentsch N, Mikutta R, Shibistova O, Wild B, Schnecker J, Richter A, Urich T, Šantrůčková H, Barta J, Lashchinskiy N, Müller C, Fuß R, Guggenberger G. Properties and bioavailability of particulate and mineral-associated organic matter in Arctic permafrost soils, Lower Kolyma Region, Russia. European Journal of Soil Science, Volume 66, Issue 4, pages 722–734.

Tveit AT, Urich T, Frenzel P, Svenning MM. Metabolic and trophic interactions modulate methane production by Arctic peat microbiota in response to warming. Proc Natl Acad Sci U S A.2015 May 12;112(19):E2507-16. PMID: 25918393.

Gentsch N, Mikutta R, Alves R, Barta J, Čapek P, Gittel A, Hugelius G, Kuhry P, Lashchinskiy N, Palmtag J, Richter A, Šantrůčková H, Schnecker J, Shibistova O, Urich T, Wild B, Guggenberger G. Storage and transformation of organic matter fractions in cryoturbated permafrost soils across the Siberian Arctic. Biogeosciences Discuss. 12, 2697-2743, doi:10.5194/bgd-12-2697-2015.

Brack C, Mikolasch A, Schlueter R, Otto A, Becher D, Wegner U, Albrecht D, Riedel K, Schauer F. Antibacterial Metabolites and Bacteriolytic Enzymes Produced by Bacillus pumilus During Bacteriolysis of Arthrobacter citreusMar Biotechnol (NY). 2015 Feb 13. [Epub ahead of print] PMID: 25678259.

Barbieri G, Voigt B, Albrecht D, Hecker M, Albertini AM, Sonenshein AL, Ferrari E, Belitsky BR. CodY regulates expression of the Bacillus subtilis extracellular proteases Vpr and Mpr. J Bacteriol. 2015 Feb 9. PMID: 25666135.

Cecil A, Ohlsen K, Menzel T, François P, Schrenzel J, Fischer A, Dörries K, Selle M, Lalk M, Hantzschmann J, Dittrich M, Liang C, Bernhardt J, Ölschläger TA, Bringmann G, Bruhn H, Unger M, Ponte-Sucre A, Lehmann L, Dandekar T. Modelling antibiotic and cytotoxic isoquinoline effects in Staphylococcus aureus, Staphylococcus epidermidis and mammalian cells. Int J Med Microbiol. 2015 305:96-109. PMID: 25500547.

Lassek C, Burghartz M, Chaves-Moreno D, Otto A, Hentschker C, Fuchs S, Bernhardt J, Jauregui R, Neubauer R, Becher D, Pieper DH, Jahn M, Jahn D, Riedel K. A Metaproteomics Approach to Elucidate Host and Pathogen Protein Expression during Catheter-Associated Urinary Tract Infections. Mol Cell Proteomics. 2015 Feb 11. pii: mcp.M114.043463. PMID: 25673765.

Kierul K, Voigt B, Albrecht D, Chen XH, Carvalhais LC, Borriss R. Influence of root exudates on the extracellular proteome of the plant growth-promoting bacterium Bacillus amyloliquefaciens FZB42. Microbiology. 2015 161:131-47. PMID: 25355936.

Grube M, Cernava T, Soh J, Fuchs S, Aschenbrenner I, Lassek C, Wegner U, Becher D, Riedel K, Sensen CW, Berg G. Exploring functional contexts of symbiotic sustain within lichen-associated bacteria by comparative omics. ISME J. 2015 Feb;9(2):412-24. PMID: 25072413.

Epelde L, Lanzén A, Blanco F, Urich T, Garbisu C. Adaptation of soil microbial community structure and function to chronic metal contamination at an abandoned Pb-Zn mine. FEMS Microbiol Ecol.2015 Jan;91(1):1-11. PMID: 25764532.

Henning AK, Albrecht D, Riedel K, Mettenleiter TC, Karger A. An alternative method for serum protein depletion/enrichment by precipitation at mildly acidic pH values and low ionic strength. Proteomics. 2015 Jan 30. doi:10.1002/pmic.201400257. [Epub ahead of print] PMID: 25644273.

2014

Xing P, Hahnke RL, Unfried F, Markert S, Huang S, Barbeyron T, Harder J, Becher D, Schweder T, Glöckner FO, Amann RI, Teeling H. Niches of two polysaccharide-degrading Polaribacter isolates from the North Sea during a spring diatom bloom. ISME J. 2014 Dec 5. PMID: 25478683.

Martins ML, Pinto UM, Riedel K, Vanetti MC, Mantovani HC, de Araújo EF. Lack of AHL-based quorum sensing in Pseudomonas fluorescens isolated from milk. Braz J Microbiol. 2014 Oct 9;45(3):1039-46. PMID: 25477941.

Handtke S, Volland S, Methling K, Albrecht D, Becher D, Nehls J, Bongaerts J, Maurer KH, Lalk M, Liesegang H, Voigt B, Daniel R, Hecker M. Cell physiology of the biotechnological relevant bacterium Bacillus pumilus-An omics-based approach. J Biotechnol. 2014 Dec 20;192 Pt A:204-14. PMID: 25281541.

Kohlmann Y, Pohlmann A, Schwartz E, Zühlke D, Otto A, Albrecht D, Grimmler C, Ehrenreich A, Voigt B, Becher D, Hecker M, Friedrich B, Cramm R. Coping with anoxia: a comprehensive proteomic and transcriptomic survey of denitrification. J Proteome Res. 2014 Oct 3;13(10):4325-38. PMID: 25198380.

Huja S, Oren Y, Biran D, Meyer S, Dobrindt U, Bernhardt J, Becher D, Hecker M, Sorek R, Ron EZ. Fur is the master regulator of the extraintestinal pathogenic Escherichia coli response to serum. MBio. 2014 Aug 12;5(4). PMID: 25118243.

Müller M, Reiß S, Schlüter R, Mäder U, Beyer A, Reiß W, Marles-Wright J, Lewis RJ, Pförtner H, Völker U, Riedel K, Hecker M, Engelmann S, Pané-Farré J. Deletion of membrane-associated Asp23 leads to upregulation of cell wall stress genes in Staphylococcus aureus. Mol Microbiol. 2014 Sep;93(6):1259-68. PMID: 25074408.

Voigt B, Schroeter R, Schweder T, Jürgen B, Albrecht D, van Dijl JM, Maurer KH, Hecker M. A proteomic view of cell physiology of the industrial workhorse Bacillus licheniformis. J Biotechnol. 2014 Dec 10;191:139-49. PMID: 25011098.

Surmann K, Michalik S, Hildebrandt P, Gierok P, Depke M, Brinkmann L, Bernhardt J, Salazar MG, Sun Z, Shteynberg D, Kusebauch U, Moritz RL, Wollscheid B, Lalk M, Völker U, Schmidt F. Comparative proteome analysis reveals conserved and specific adaptation patterns of Staphylococcus aureus after internalization by different types of human non-professional phagocytic host cells. Front Microbiol.2014 Aug 1;5:392. PMID: 25136337.

Zarnowski R, Westler WM, Lacmbouh GA, Marita JM, Bothe JR, Bernhardt J, Lounes-Hadj Sahraoui A, Fontaine J, Sanchez H, Hatfield RD, Ntambi JM, Nett JE, Mitchell AP, Andes DR. Novel entries in a fungal biofilm matrix encyclopedia.MBio.2014 Aug 5;5(4):e01333-14. PMID: 25096878.

Liebermeister W, Noor E, Flamholz A, Davidi D, Bernhardt J, Milo R. Visual account of protein investment in cellular functions. Proc Natl Acad Sci U S A.2014 Jun 10;111(23):8488-93. PMID: 24889604.

Bonn F, Bartel J, Büttner K, Hecker M, Otto A, Becher D. Picking vanished proteins from the void: how to collect and ship/share extremely dilute proteins in a reproducible and highly efficient manner. Anal Chem. 2014 Aug 5;86(15):7421-7. PMID: 24987932.

Palm GJ, Sharma A, Kumari M, Panjikar S, Albrecht D, Jagannadham MV, Hinrichs W. Post-translational modification and extended glycosylation pattern of a plant latex peroxidase of native source characterized by X-ray crystallography. FEBS J. 2014 Sep;281(18):4319-33. PMID: 24980207.

Petasch J, Disch EM, Markert S, Becher D, Schweder T, Hüttel B, Reinhardt R, Harder J. The oxygen-independent metabolism of cyclic monoterpenes in Castellaniella defragrans 65Phen. BMC Microbiol. 2014 Jun 21;14:164. PMID: 24952578.

Grabe HJ, Assel H, Bahls T, Dörr M, Endlich K, Endlich N, Erdmann P, Ewert R, Felix SB, Fiene B, Fischer T, Flessa S, Friedrich N, Gadebusch-Bondio M, Salazar MG, Hammer E, Haring R, Havemann C, Hecker M, Hoffmann W, Holtfreter B, Kacprowski T, Klein K, Kocher T, Kock H, Krafczyk J, Kuhn J, Langanke M, Lendeckel U, Lerch MM, Lieb W, Lorbeer R, Mayerle J, Meissner K, zu Schwabedissen HM, Nauck M, Ott K, Rathmann W, Rettig R, Richardt C, Saljé K, Schminke U, Schulz A, Schwab M, Siegmund W, Stracke S, Suhre K, Ueffing M, Ungerer S, Völker U, Völzke H, Wallaschofski H, Werner V, Zygmunt MT, Kroemer HK. Cohort profile: Greifswald approach to individualized medicine (GANI_MED). J Transl Med. 2014 May 23;12:144. PMID: 24886498.

Maaβ S, Wachlin G, Bernhardt J, Eymann C, Fromion V, Riedel K, Becher D, Hecker M. Highly precise quantification of protein molecules per cell during stress and starvation responses in Bacillus subtilis. Mol Cell Proteomics. 2014 Sep;13(9):2260-76. PMID: 24878497.

Brandt U, Waletzko C, Voigt B, Hecker M, Steinbüchel A. Mercaptosuccinate metabolism in Variovorax paradoxus strain B4–a proteomic approach. Appl Microbiol Biotechnol. 2014 Jul;98(13):6039-50. PMID: 24839213.

Raberg M, Voigt B, Hecker M, Steinbüchel A. A closer look on the polyhydroxybutyrate- (PHB-) negative phenotype of Ralstonia eutropha PHB-4. PLoS One. 2014 May 2;9(5):e95907. PMID: 24787649.

Schröder W, Bernhardt J, Marincola G, Klein-Hitpass L, Herbig A, Krupp G, Nieselt K, Wolz C. Altering gene expression by aminocoumarins: the role of DNA supercoiling in Staphylococcus aureus. BMC Genomics. 2014 Apr 16;15:291. PMID: 24734910.

Wenzel M, Chiriac AI, Otto A, Zweytick D, May C, Schumacher C, Gust R, Albada HB, Penkova M, Krämer U, Erdmann R, Metzler-Nolte N, Straus SK, Bremer E, Becher D, Brötz-Oesterhelt H, Sahl HG, Bandow JE. Small cationic antimicrobial peptides delocalize peripheral membrane proteins. Proc Natl Acad Sci U S A. 2014 Apr 8;111(14):E1409-18. PMID: 24706874.

Muntel J, Fromion V, Goelzer A, Maaβ S, Mäder U, Büttner K, Hecker M, Becher D. Comprehensive absolute quantification of the cytosolic proteome of Bacillus subtilis by data independent, parallel fragmentation in liquid chromatography/mass spectrometry (LC/MS(E)). Mol Cell Proteomics. 2014 Apr;13(4):1008-19. PMID: 24696501.

Kohlstedt M, Sappa PK, Meyer H, Maaß S, Zaprasis A, Hoffmann T, Becker J, Steil L, Hecker M, van Dijl JM, Lalk M, Mäder U, Stülke J, Bremer E, Völker U, Wittmann C. Adaptation of Bacillus subtilis carbon core metabolism to simultaneous nutrient limitation and osmotic challenge: a multi-omics perspective. Environ Microbiol. 2014 Jun;16(6):1898-917. PMID: 24571712.

Kabisch A, Otto A, König S, Becher D, Albrecht D, Schüler M, Teeling H, Amann RI, Schweder T. Functional characterization of polysaccharide utilization loci in the marine Bacteroidetes ‘Gramella forsetii’ KT0803. ISME J. 2014 Jul;8(7):1492-502. PMID: 24522261.

Pförtner H, Burian MS, Michalik S, Depke M, Hildebrandt P, Dhople VM, Pané-Farré J, Hecker M, Schmidt F, Völker U. Activation of the alternative sigma factor SigB of Staphylococcus aureus following internalization by epithelial cells – an in vivo proteomics perspective. Int J Med Microbiol. 2014 Mar;304(2):177-87. PMID: 24480029.

Handtke S, Schroeter R, Jürgen B, Methling K, Schlüter R, Albrecht D, van Hijum SA, Bongaerts J, Maurer KH, Lalk M, Schweder T, Hecker M, Voigt B. Bacillus pumilus reveals a remarkably high resistance to hydrogen peroxide provoked oxidative stress. PLoS One. 2014 Jan 20;9(1):e85625. PMID: 24465625.

Bäsell K, Otto A, Junker S, Zühlke D, Rappen GM, Schmidt S, Hentschker C, Macek B, Ohlsen K, Hecker M, Becher D. The phosphoproteome and its physiological dynamics in Staphylococcus aureus. Int J Med Microbiol. 2014 Mar;304(2):121-32. PMID: 24457182.

Bröker B, Hecker M. Pathophysiology of staphylococci in the post-genomic era. Int J Med Microbiol.2014 Mar;304(2):101-2. PMID: 24440359.

Otto A, van Dijl JM, Hecker M, Becher D. The Staphylococcus aureus proteome. Int J Med Microbiol.2014 Mar;304(2):110-20. PMID: 24439828.

Runde S, Molière N, Heinz A, Maisonneuve E, Janczikowski A, Elsholz AK, Gerth U, Hecker M, Turgay K. The role of thiol oxidative stress response in heat-induced protein aggregate formation during thermotolerance in Bacillus subtilis. Mol Microbiol. 2014 Mar;91(5):1036-52. PMID: 24417481.

Pribyl T, Moche M, Dreisbach A, Bijlsma JJ, Saleh M, Abdullah MR, Hecker M, van Dijl JM, Becher D, Hammerschmidt S. Influence of impaired lipoprotein biogenesis on surface and exoproteome of Streptococcus pneumoniae. J Proteome Res. 2014 Feb 7;13(2):650-67. PMID: 24387739.

Otto A, Becher D, Schmidt F. Quantitative proteomics in the field of microbiology. 2014 Mar;14(4-5):547-65. PMID: 24376008.

Hoffmann C, Finsel I, Otto A, Pfaffinger G, Rothmeier E, Hecker M, Becher D, Hilbi H. Functional analysis of novel Rab GTPases identified in the proteome of purified Legionella-containing vacuoles from macrophages. Cell Microbiol. 2014 Jul;16(7):1034-52. PMID: 24373249.

Heichel J, Wilhelm F, Kunert KS, Schlueter R, Stuhltraeger U, Hammer T. Influence of microkeratome parameters on the stromal bed and flap edge quality in laser in situ keratomileusis. Clin Ophthalmol. 2014;8:61-9. PMID: 24368878.

Gaballa A, Chi BK, Roberts AA, Becher D, Hamilton CJ, Antelmann H, Helmann JD. Redox regulation in Bacillus subtilis: The bacilliredoxins BrxA(YphP) and BrxB(YqiW) function in de-bacillithiolation of S-bacillithiolated OhrR and MetE. Antioxid Redox Signal.2014 Jul 20;21(3):357-67. PMID: 24313874.

Noone D, Salzberg LI, Botella E, Bäsell K, Becher D, Antelmann H, Devine KM. A highly unstable transcript makes CwlO D,L-endopeptidase expression responsive to growth conditions in Bacillus subtilis. J Bacteriol. 2014 Jan;196(2):237-47. PMID: 24163346.

Schlueter R, Röder A, Czekalski N, Gliesche D, Mikolasch A, Schauer F. Novel mechanisms of biotransformation of p-tert-amylphenol by bacteria and fungi with special degradation abilities and simultaneous detoxification of the disinfectant. Appl Microbiol Biotechnol. 2014 Jan;98(1):373-84. PMID: 24158734.

Miranda HV, Antelmann H, Hepowit N, Chavarria NE, Krause DJ, Pritz JR, Bäsell K, Becher D, Humbard MA, Brocchieri L, Maupin-Furlow JA. Archaeal ubiquitin-like SAMP3 is isopeptide-linked to proteins via a UbaA-dependent mechanism. Mol Cell Proteomics. 2014 Jan;13(1):220-39. PMID: 24097257.

Chi BK, Busche T, Van Laer K, Bäsell K, Becher D, Clermont L, Seibold GM, Persicke M, Kalinowski J, Messens J, Antelmann H. Protein S-mycothiolation functions as redox-switch and thiol protection mechanism in Corynebacterium glutamicum under hypochlorite stress. Antioxid Redox Signal. 2014 Feb 1;20(4):589-605. PMID: 23886307.

2013

Schroeter R, Hoffmann T, Voigt B, Meyer H, Bleisteiner M, Muntel J, Jürgen B, Albrecht D, Becher D, Lalk M, Evers S, Bongaerts J, Maurer KH, Putzer H, Hecker M, Schweder T, Bremer E. Stress responses of the industrial workhorse Bacillus licheniformis to osmotic challenges. PLoS One. 2013 Nov 15;8(11):e80956. PMID: 24348917.

Wiegand S, Voigt B, Albrecht D, Bongaerts J, Evers S, Hecker M, Daniel R, Liesegang H. Fermentation stage-dependent adaptations of Bacillus licheniformis during enzyme production. Microb Cell Fact. 2013 Dec 6;12:120. PMID: 24313996.

Hessling B, Bonn F, Otto A, Herbst FA, Rappen GM, Bernhardt J, Hecker M, Becher D. Global proteome analysis of vancomycin stress in Staphylococcus aureus. Int J Med Microbiol. 2013 Dec;303(8):624-34. PMID: 24161710.

Fraunholz M, Bernhardt J, Schuldes J, Daniel R, Hecker M, Sinha B. Complete Genome Sequence of Staphylococcus aureus 6850, a Highly Cytotoxic and Clinically Virulent Methicillin-Sensitive Strain with Distant Relatedness to Prototype Strains. Genome Announc. 2013 Sep 26;1(5). PMID: 24072870.

Wollenhaupt K, Brüssow KP, Albrecht D, Tomek W. The Akt/mTor signaling cascade is modified during placentation in the porcine uterine tissue. Reprod Biol. 2013 Sep;13(3):184-94. PMID: 24011189.

Fuchs S, Zühlke D, Pané-Farré J, Kusch H, Wolf C, Reiß S, Binh le TN, Albrecht D, Riedel K, Hecker M, Engelmann S. Aureolib – a proteome signature library: towards an understanding of staphylococcus aureus pathophysiology. PLoS One. 2013 Aug 13;8(8):e70669. PMID: 23967085.

Krishnappa L, Dreisbach A, Otto A, Goosens VJ, Cranenburgh RM, Harwood CR, Becher D, van Dijl JM. Extracytoplasmic proteases determining the cleavage and release of secreted proteins, lipoproteins, and membrane proteins in Bacillus subtilis. J Proteome Res. 2013 Sep 6;12(9):4101-10. PMID: 23937099.

Mehlan H, Schmidt F, Weiss S, Schüler J, Fuchs S, Riedel K, Bernhardt J. Data visualization in environmental proteomics. 2013 Oct;13(18-19):2805-21. PMID: 23913834.

Dangel A, Ackermann N, Abdel-Hadi O, Maier R, Önder K, Francois P, Müller CW, Pané-Farré J, Engelmann S, Schrenzel J, Heesemann J, Lindermayr C. A de novo-designed antimicrobial peptide with activity against multiresistant Staphylococcus aureus acting on RsbW kinase. FASEB J. 2013 Nov;27(11):4476-88. PMID: 23901070.

Matthes R, Bender C, Schlüter R, Koban I, Bussiahn R, Reuter S, Lademann J, Weltmann KD, Kramer A. Antimicrobial efficacy of two surface barrier discharges with air plasma against in vitro biofilms. PLoS One. 2013 Jul 24;8(7):e70462. PMID: 23894661.

Becher D, Bernhardt J, Fuchs S, Riedel K. Metaproteomics to unravel major microbial players in leaf litter and soil environments: challenges and perspectives. 2013 Oct;13(18-19):2895-909. PMID: 23894095.

Lappann M, Otto A, Becher D, Vogel U. Comparative proteome analysis of spontaneous outer membrane vesicles and purified outer membranes of Neisseria meningitidis. J Bacteriol. 2013 Oct;195(19):4425-35. PMID: 23893116.

Kabisch J, Pratzka I, Meyer H, Albrecht D, Lalk M, Ehrenreich A, Schweder T. Metabolic engineering of Bacillus subtilis for growth on overflow metabolites. Microb Cell Fact. 2013 Jul 25;12:72. PMID: 23886069.

Hu LI, Chi BK, Kuhn ML, Filippova EV, Walker-Peddakotla AJ, Bäsell K, Becher D, Anderson WF, Antelmann H, Wolfe AJ. Acetylation of the response regulator RcsB controls transcription from a small RNA promoter. J Bacteriol. 2013 Sep;195(18):4174-86. PMID: 23852870.

Winter T, Bernhardt J, Winter J, Mäder U, Schlüter R, Weltmann KD, Hecker M, Kusch H. Common versus noble Bacillus subtilis differentially responds to air and argon gas plasma. 2013 Sep;13(17):2608-21. PMID: 23794223.

Musa YR, Bäsell K, Schatschneider S, Vorhölter FJ, Becher D, Niehaus K. Dynamic protein phosphorylation during the growth of Xanthomonas campestris pv. campestris B100 revealed by a gel-based proteomics approach. J Biotechnol. 2013 Aug 20;167(2):111-22. PMID: 23792782.

Hessling B, Büttner K, Hecker M, Becher D. Global relative quantification with liquid chromatography-matrix-assisted laser desorption ionization time-of-flight (LC-MALDI-TOF)–cross-validation with LTQ-Orbitrap proves reliability and reveals complementary ionization preferences. Mol Cell Proteomics. 2013 Oct;12(10):2911-20. PMID: 23788530.

Skovager A, Larsen MH, Castro-Mejia JL, Hecker M, Albrecht D, Gerth U, Arneborg N, Ingmer H. Initial adhesion of Listeria monocytogenes to fine polished stainless steel under flow conditions is determined by prior growth conditions. Int J Food Microbiol.2013 Jul 1;165(1):35-42. PMID: 23685728.

Greiner R, Pálinkás Z, Bäsell K, Becher D, Antelmann H, Nagy P, Dick TP. Polysulfides link H2S to protein thiol oxidation. Antioxid Redox Signal. 2013 Nov 20;19(15):1749-65. PMID: 23646934.

Pförtner H, Wagner J, Surmann K, Hildebrandt P, Ernst S, Bernhardt J, Schurmann C, Gutjahr M, Depke M, Jehmlich U, Dhople V, Hammer E, Steil L, Völker U, Schmidt F. A proteomics workflow for quantitative and time-resolved analysis of adaptation reactions of internalized bacteria. 2013 Jun 15;61(3):244-50. PMID: 23643866.

Voigt B, Schroeter R, Jürgen B, Albrecht D, Evers S, Bongaerts J, Maurer KH, Schweder T, Hecker M. The response of Bacillus licheniformis to heat and ethanol stress and the role of the SigB regulon. 2013 Jul;13(14):2140-61. PMID: 23592518.

Pöther DC, Gierok P, Harms M, Mostertz J, Hochgräfe F, Antelmann H, Hamilton CJ, Borovok I, Lalk M, Aharonowitz Y, Hecker M. Distribution and infection-related functions of bacillithiol in Staphylococcus aureus. Int J Med Microbiol. 2013 Apr;303(3):114-23. PMID: 23517692.

Moche M, Albrecht D, Maaß S, Hecker M, Westermeier R, Büttner K. The new horizon in 2D electrophoresis: new technology to increase resolution and sensitivity. 2013 Jun;34(11):1510-8. PMID: 23494680.

Celik H, Blouzard JC, Voigt B, Becher D, Trotter V, Fierobe HP, Tardif C, Pagès S, de Philip P. A two-component system (XydS/R) controls the expression of genes encoding CBM6-containing proteins in response to straw in Clostridium cellulolyticum. PLoS One. 2013;8(2):e56063. PMID: 23418511.

Schlüter R, Lippmann R, Hammer E, Gesell Salazar M, Schauer F. Novel insights into the fungal oxidation of monoaromatic and biarylic environmental pollutants by characterization of two new ring cleavage enzymes. Appl Microbiol Biotechnol. 2013 Jun;97(11):5043-53. PMID: 23400446.

Brack C, Mikolasch A, Pukall R, Schumann P, Köster M, Schauer F. Bacteriolytic Bacillus species isolated from brackish waters of the Southern Baltic Sea. Mar Biol. 2013 May; 160:2699–2709 DOI 10.1007/s00227-013-2263-z.

Chi BK, Roberts AA, Huyen TT, Bäsell K, Becher D, Albrecht D, Hamilton CJ, Antelmann H. S-bacillithiolation protects conserved and essential proteins against hypochlorite stress in firmicutes bacteria. Antioxid Redox Signal. 2013 Apr 10;18(11):1273-95. PMID: 22938038.

Golec P, Karczewska-Golec J, Voigt B, Albrecht D, Schweder T, Hecker M, Wegrzyn G, Łos M. Proteomic profiles and kinetics of development of bacteriophage T4 and its rI and rIII mutants in slowly growing Escherichia coli. J Gen Virol. 2013 Apr;94(Pt 4):896-905. PMID: 23239571.

Zhou X, Szeker K, Janocha B, Böhme T, Albrecht D, Mikhailopulo IA, Neubauer P. Recombinant purine nucleoside phosphorylases from thermophiles: preparation, properties and activity towards purine and pyrimidine nucleosides. FEBS J. 2013 Mar;280(6):1475-90. PMID: 23332162.

Goosens VJ, Otto A, Glasner C, Monteferrante CC, van der Ploeg R, Hecker M, Becher D, van Dijl JM. Novel twin-arginine translocation pathway-dependent phenotypes of Bacillus subtilis unveiled by quantitative proteomics. J Proteome Res. 2013 Feb 1;12(2):796-807. PMID: 23256564.

Feng J, Michalik S, Varming AN, Andersen JH, Albrecht D, Jelsbak L, Krieger S, Ohlsen K, Hecker M, Gerth U, Ingmer H, Frees D. Trapping and proteomic identification of cellular substrates of the ClpP protease in Staphylococcus aureus. J Proteome Res. 2013 Feb 1;12(2):547-58. PMID: 23253041.

Tsompanidou E, Denham EL, Becher D, de Jong A, Buist G, van Oosten M, Manson WL, Back JW, van Dijl JM, Dreisbach A. Distinct roles of phenol-soluble modulins in spreading of Staphylococcus aureus on wet surfaces. Appl Environ Microbiol. 2013 Feb;79(3):886-95. PMID: 23183971.

Herter S, Michalik D, Mikolasch A, Schmidt M, Wohlgemuth R, Bornscheuer U, Schauer F. Laccase-mediated synthesis of 2-methoxy-3-methyl-5-(alkylamino)- and 3-methyl-2,5-bis(alkylamino)-[1,4]-benzoquinones. J Mol Catal B-Enzym. 2013 Feb; 90:91– 97.

Bernhardt J, Michalik S, Wollscheid B, Völker U, Schmidt F. Proteomics approaches for the analysis of enriched microbial subpopulations and visualization of complex functional information. Curr Opin Biotechnol. 2013 Feb;24(1):112-9. PMID: 23141770.

van Dijl JM, Hecker M. Bacillus subtilis: from soil bacterium to super-secreting cell factory. Microb Cell Fact. 2013 Jan 14;12:3. PMID: 23311580.

2012

Mikolasch A, Manda K, Schlüter R, Lalk M, Witt S, Seefeldt S, Hammer E, Schauer F, Jülich WD, Lindequist U. Comparative analyses of laccase-catalyzed amination reactions for production of novel β-lactam antibiotics. Biotechnol Appl Biochem. 2012 Jul-Aug;59(4):295-306. PMID: 23586863.

Heinz E, Williams TA, Nakjang S, Noël CJ, Swan DC, Goldberg AV, Harris SR, Weinmaier T, Markert S, Becher D, Bernhardt J, Dagan T, Hacker C, Lucocq JM, Schweder T, Rattei T, Hall N, Hirt RP, Embley TM. The genome of the obligate intracellular parasite Trachipleistophora hominis: new insights into microsporidian genome dynamics and reductive evolution. PLoS Pathog. 2012;8(10):e1002979. PMID: 23133373.

Keiblinger KM, Wilhartitz IC, Schneider T, Roschitzki B, Schmid E, Eberl L, Riedel K, Zechmeister-Boltenstern S. Soil metaproteomics – Comparative evaluation of protein extraction protocols. Soil Biol Biochem. 2012 Nov;54(15-10):14-24. PMID: 23125465.

Antelmann H, Hamilton CJ. Bacterial mechanisms of reversible protein S-thiolation: structural and mechanistic insights into mycoredoxins. Mol Microbiol. 2012 Nov;86(4):759-64. PMID: 22998128.

Wollenhaupt K, Brüssow KP, Albrecht D, Tomek W. The eIF4E repressor protein 4E-BP2 is merely truncated, despite 4E-BP1 degradation in the porcine uterine tissue during implantation. Mol Reprod Dev. 2012 Nov;79(11):767-76. PMID: 22968905.

Inhülsen S, Aguilar C, Schmid N, Suppiger A, Riedel K, Eberl L. Identification of functions linking quorum sensing with biofilm formation in Burkholderia cenocepacia H111. 2012 Jun;1(2):225-42. PMID: 22950027.

Sibbald MJ, Yang XM, Tsompanidou E, Qu D, Hecker M, Becher D, Buist G, van Dijl JM. Partially overlapping substrate specificities of staphylococcal group A sortases. 2012 Oct;12(19-20):3049-62. PMID: 22930668.

Lima BP, Thanh Huyen TT, Bäsell K, Becher D, Antelmann H, Wolfe AJ. Inhibition of acetyl phosphate-dependent transcription by an acetylatable lysine on RNA polymerase. J Biol Chem. 2012 Sep 14;287(38):32147-60. PMID: 22829598.

Reder A, Pöther DC, Gerth U, Hecker M. The modulator of the general stress response, MgsR, of Bacillus subtilis is subject to multiple and complex control mechanisms. Environ Microbiol.2012 Oct;14(10):2838-50. PMID: 22812682.

Marincola G, Schäfer T, Behler J, Bernhardt J, Ohlsen K, Goerke C, Wolz C. RNase Y of Staphylococcus aureus and its role in the activation of virulence genes. Mol Microbiol. 2012 Sep;85(5):817-32. PMID: 22780584.

Kaddor C, Voigt B, Hecker M, Steinbüchel A. Impact of the core components of the phosphoenolpyruvate-carbohydrate phosphotransferase system, HPr and EI, on differential protein expression in Ralstonia eutropha H16. J Proteome Res. 2012 Jul 6;11(7):3624-36. PMID: 22630130.

Voigt B, Hieu CX, Hempel K, Becher D, Schlüter R, Teeling H, Glöckner FO, Amann R, Hecker M, Schweder T. Cell surface proteome of the marine planctomycete Rhodopirellula baltica. 2012 Jun;12(11):1781-91. PMID: 22623273.

Krueger B, Friedrich T, Förster F, Bernhardt J, Gross R, Dandekar T. Different evolutionary modifications as a guide to rewire two-component systems. Bioinform Biol Insights. 2012;6:97-128. PMID: 22586357.

Reder A, Höper D, Gerth U, Hecker M. Contributions of individual σB-dependent general stress genes to oxidative stress resistance of Bacillus subtilis. J Bacteriol. 2012 Jul;194(14):3601-10. PMID: 22582280.

Michalik S, Bernhardt J, Otto A, Moche M, Becher D, Meyer H, Lalk M, Schurmann C, Schlüter R, Kock H, Gerth U, Hecker M. Life and death of proteins: a case study of glucose-starved Staphylococcus aureus. Mol Cell Proteomics.2012 Sep;11(9):558-70. PMID: 22556279.

Teeling H, Fuchs BM, Becher D, Klockow C, Gardebrecht A, Bennke CM, Kassabgy M, Huang S, Mann AJ, Waldmann J, Weber M, Klindworth A, Otto A, Lange J, Bernhardt J, Reinsch C, Hecker M, Peplies J, Bockelmann FD, Callies U, Gerdts G, Wichels A, Wiltshire KH, Glöckner FO, Schweder T, Amann R. Substrate-controlled succession of marine bacterioplankton populations induced by a phytoplankton bloom. Science 2012 May 4;336(6081):608-11. PMID: 22556258.

Reder A, Albrecht D, Gerth U, Hecker M. Cross-talk between the general stress response and sporulation initiation in Bacillus subtilis – the σ(B) promoter of spo0E represents an AND-gate. Environ Microbiol. 2012 Oct;14(10):2741-56. PMID: 22524514.

Kleiner M, Wentrup C, Lott C, Teeling H, Wetzel S, Young J, Chang YJ, Shah M, VerBerkmoes NC, Zarzycki J, Fuchs G, Markert S, Hempel K, Voigt B, Becher D, Liebeke M, Lalk M, Albrecht D, Hecker M, Schweder T, Dubilier N. Metaproteomics of a gutless marine worm and its symbiotic microbial community reveal unusual pathways for carbon and energy use. Proc Natl Acad Sci U S A. 2012 May 8;109(19):E1173-82. PMID: 22517752.

Elsholz AK, Turgay K, Michalik S, Hessling B, Gronau K, Oertel D, Mäder U, Bernhardt J, Becher D, Hecker M, Gerth U. Global impact of protein arginine phosphorylation on the physiology of Bacillus subtilis. Proc Natl Acad Sci U S A.2012 May 8;109(19):7451-6. PMID: 22517742.

Lama A, Pané-Farré J, Chon T, Wiersma AM, Sit CS, Vederas JC, Hecker M, Nakano MM. Response of methicillin-resistant Staphylococcus aureus to amicoumacin A. PLoS One.2012;7(3):e34037. PMID: 22479511.

Poehlein A, Schmidt S, Kaster AK, Goenrich M, Vollmers J, Thürmer A, Bertsch J, Schuchmann K, Voigt B, Hecker M, Daniel R, Thauer RK, Gottschalk G, Müller V. An ancient pathway combining carbon dioxide fixation with the generation and utilization of a sodium ion gradient for ATP synthesis. PLoS One. 2012;7(3):e33439. PMID: 22479398.

Otto A, Bernhardt J, Hecker M, Becher D. Global relative and absolute quantitation in microbial proteomics. Curr Opin Microbiol.2012 Jun;15(3):364-72. PMID: 22445110.

Schneider T, Keiblinger KM, Schmid E, Sterflinger-Gleixner K, Ellersdorfer G, Roschitzki B, Richter A, Eberl L, Zechmeister-Boltenstern S, Riedel K. Who is who in litter decomposition? Metaproteomics reveals major microbial players and their biogeochemical functions. ISME J.2012 Sep;6(9):1749-62. PMID: 22402400.

Nicolas P, Mäder U, Dervyn E, Rochat T, Leduc A, Pigeonneau N, Bidnenko E, Marchadier E, Hoebeke M, Aymerich S, Becher D, Bisicchia P, Botella E, Delumeau O, Doherty G, Denham EL, Fogg MJ, Fromion V, Goelzer A, Hansen A, Härtig E, Harwood CR, Homuth G, Jarmer H, Jules M, Klipp E, Le Chat L, Lecointe F, Lewis P, Liebermeister W, March A, Mars RA, Nannapaneni P, Noone D, Pohl S, Rinn B, Rügheimer F, Sappa PK, Samson F, Schaffer M, Schwikowski B, Steil L, Stülke J, Wiegert T, Devine KM, Wilkinson AJ, van Dijl JM, Hecker M, Völker U, Bessières P, Noirot P. Condition-dependent transcriptome reveals high-level regulatory architecture in Bacillus subtilis. Science 2012 Mar 2;335(6072):1103-6. PMID: 22383849.

Buescher JM, Liebermeister W, Jules M, Uhr M, Muntel J, Botella E, Hessling B, Kleijn RJ, Le Chat L, Lecointe F, Mäder U, Nicolas P, Piersma S, Rügheimer F, Becher D, Bessieres P, Bidnenko E, Denham EL, Dervyn E, Devine KM, Doherty G, Drulhe S, Felicori L, Fogg MJ, Goelzer A, Hansen A, Harwood CR, Hecker M, Hubner S, Hultschig C, Jarmer H, Klipp E, Leduc A, Lewis P, Molina F, Noirot P, Peres S, Pigeonneau N, Pohl S, Rasmussen S, Rinn B, Schaffer M, Schnidder J, Schwikowski B, Van Dijl JM, Veiga P, Walsh S, Wilkinson AJ, Stelling J, Aymerich S, Sauer U. Global network reorganization during dynamic adaptations of Bacillus subtilis metabolism. Science 2012 Mar 2;335(6072):1099-103. PMID: 22383848.

Moretti M, Minerdi D, Gehrig P, Garibaldi A, Gullino ML, Riedel K. A bacterial-fungal metaproteomic analysis enlightens an intriguing multicomponent interaction in the rhizosphere of Lactuca sativa. J Proteome Res. 2012 Apr 6;11(4):2061-77. PMID: 22360353.

Hall EK, Besemer K, Kohl L, Preiler C, Riedel K, Schneider T, Wanek W, Battin TJ. Effects of resource chemistry on the composition and function of stream hyporheic biofilms. Front Microbiol. 2012 Feb 14;3:35. PMID: 22347877.

Blumenthal A, Giebel J, Ummanni R, Schlüter R, Endlich K, Endlich N. Morphology and migration of podocytes are affected by CD151 levels. Am J Physiol Renal Physiol. 2012 May 15;302(10):F1265-77. PMID: 22338088.

Muntel J, Hecker M, Becher D. An exclusion list based label-free proteome quantification approach using an LTQ Orbitrap. Rapid Commun Mass Spectrom. 2012 Mar 30;26(6):701-9. PMID: 22328225.

Brandt U, Raberg M, Voigt B, Hecker M, Steinbüchel A. Elevated poly(3-hydroxybutyrate) synthesis in mutants of Ralstonia eutropha H16 defective in lipopolysaccharide biosynthesis. Appl Microbiol Biotechnol.2012 Jul;95(2):471-83. PMID: 22314517.

Felder KM, Carranza PM, Gehrig PM, Roschitzki B, Barkow-Oesterreicher S, Hoelzle K, Riedel K, Kube M, Hoelzle LE. Insights into the gene expression profile of uncultivable hemotrophic Mycoplasma suis during acute infection, obtained using proteome analysis. J Bacteriol. 2012 Mar;194(6):1505-14. PMID: 22267506.

Palm GJ, Khanh Chi B, Waack P, Gronau K, Becher D, Albrecht D, Hinrichs W, Read RJ, Antelmann H. Structural insights into the redox-switch mechanism of the MarR/DUF24-type regulator HypR. Nucleic Acids Res.2012 May;40(9):4178-92. PMID: 22238377.

Liedert C, Peltola M, Bernhardt J, Neubauer P, Salkinoja-Salonen M. Physiology of resistant Deinococcus geothermalis bacterium aerobically cultivated in low-manganese medium. J Bacteriol. 2012 Mar;194(6):1552-61. PMID: 22228732.

Pessione A, Lamberti C, Cocolin L, Campolongo S, Grunau A, Giubergia S, Eberl L, Riedel K, Pessione E. Different protein expression profiles in cheese and clinical isolates of Enterococcus faecalis revealed by proteomic analysis. 2012 Feb;12(3):431-47. PMID: 22213736.

Reder A, Gerth U, Hecker M. Integration of σB activity into the decision-making process of sporulation initiation in Bacillus subtilis. J Bacteriol. 2012 Mar;194(5):1065-74. PMID: 22210769.

Nannapaneni P, Hertwig F, Depke M, Hecker M, Mäder U, Völker U, Steil L, van Hijum SA. Defining the structure of the general stress regulon of Bacillus subtilis using targeted microarray analysis and random forest classification. Microbiology 2012 Mar;158(Pt 3):696-707. PMID: 22174379.

Reiss S, Pané-Farré J, Fuchs S, François P, Liebeke M, Schrenzel J, Lindequist U, Lalk M, Wolz C, Hecker M, Engelmann S. Global analysis of the Staphylococcus aureus response to mupirocin. Antimicrob Agents Chemother. 2012 Feb;56(2):787-804. PMID: 22106209.

Gardebrecht A, Markert S, Sievert SM, Felbeck H, Thürmer A, Albrecht D, Wollherr A, Kabisch J, Le Bris N, Lehmann R, Daniel R, Liesegang H, Hecker M, Schweder T. Physiological homogeneity among the endosymbionts of Riftia pachyptila and Tevnia jerichonana revealed by proteogenomics. ISME J. 2012 Apr;6(4):766-76. PMID: 22011719.

2011

Thürmer A, Voigt B, Angelov A, Albrecht D, Hecker M, Liebl W. Proteomic analysis of the extremely thermoacidophilic archaeon Picrophilus torridus at pH and temperature values close to its growth limit. 2011 Dec;11(23):4559-68. PMID: 22114103.

Lohsse A, Ullrich S, Katzmann E, Borg S, Wanner G, Richter M, Voigt B, Schweder T, Schüler D. Functional analysis of the magnetosome island in Magnetospirillum gryphiswaldense: the mamAB operon is sufficient for magnetite biomineralization. PLoS One. 2011;6(10):e25561. PMID: 22043287.

Schmidl SR, Otto A, Lluch-Senar M, Piñol J, Busse J, Becher D, Stülke J. A trigger enzyme in Mycoplasma pneumoniae: impact of the glycerophosphodiesterase GlpQ on virulence and gene expression. PLoS Pathog. 2011 Sep;7(9):e1002263. PMID: 21966272.

Kolata J, Bode LG, Holtfreter S, Steil L, Kusch H, Holtfreter B, Albrecht D, Hecker M, Engelmann S, van Belkum A, Völker U, Bröker BM. Distinctive patterns in the human antibody response to Staphylococcus aureus bacteremia in carriers and non-carriers. 2011 Oct;11(19):3914-27. PMID: 21805632.

Fasehee H, Westers H, Bolhuis A, Antelmann H, Hecker M, Quax WJ, Mirlohi AF, van Dijl JM, Ahmadian G. Functional analysis of the sortase YhcS in Bacillus subtilis. 2011 Oct;11(19):3905-13. PMID: 21800427.

Kuhla B, Nürnberg G, Albrecht D, Görs S, Hammon HM, Metges CC. Involvement of skeletal muscle protein, glycogen, and fat metabolism in the adaptation on early lactation of dairy cows. J Proteome Res. 2011 Sep 2;10(9):4252-62. PMID: 21774562.

Winter T, Winter J, Polak M, Kusch K, Mäder U, Sietmann R, Ehlbeck J, van Hijum S, Weltmann KD, Hecker M, Kusch H. Characterization of the global impact of low temperature gas plasma on vegetative microorganisms. 2011 Sep;11(17):3518-30. PMID: 21751354.

Chi BK, Gronau K, Mäder U, Hessling B, Becher D, Antelmann H. S-bacillithiolation protects against hypochlorite stress in Bacillus subtilis as revealed by transcriptomics and redox proteomics. Mol Cell Proteomics. 2011 Nov;10(11):M111. PMID: 21749987.

Miller M, Dreisbach A, Otto A, Becher D, Bernhardt J, Hecker M, Peppelenbosch MP, van Dijl JM. Mapping of interactions between human macrophages and Staphylococcus aureus reveals an involvement of MAP kinase signaling in the host defense. J Proteome Res. 2011 Sep 2;10(9):4018-32. PMID: 21736355.

Markert S, Gardebrecht A, Felbeck H, Sievert SM, Klose J, Becher D, Albrecht D, Thürmer A, Daniel R, Kleiner M, Hecker M, Schweder T. Status quo in physiological proteomics of the uncultured Riftia pachyptila endosymbiont. 2011 Aug;11(15):3106-17. PMID: 21710568.

Delumeau O, Lecointe F, Muntel J, Guillot A, Guédon E, Monnet V, Hecker M, Becher D, Polard P, Noirot P. The dynamic protein partnership of RNA polymerase in Bacillus subtilis. 2011 Aug;11(15):2992-3001. PMID: 21710567.

Becher D, Büttner K, Moche M, Hessling B, Hecker M. From the genome sequence to the protein inventory of Bacillus subtilis. 2011 Aug;11(15):2971-80. PMID: 21710564.

Hecker M. Microbial proteomics. 2011 Aug;11(15):2941-2. PMID: 21766457.

Lima BP, Antelmann H, Gronau K, Chi BK, Becher D, Brinsmade SR, Wolfe AJ. Involvement of protein acetylation in glucose-induced transcription of a stress-responsive promoter. Mol Microbiol. 2011 Sep;81(5):1190-204. PMID: 21696463.

Dreisbach A, van der Kooi-Pol MM, Otto A, Gronau K, Bonarius HP, Westra H, Groen H, Becher D, Hecker M, van Dijl JM. Surface shaving as a versatile tool to profile global interactions between human serum proteins and the Staphylococcus aureus cell surface. 2011 Jul;11(14):2921-30. PMID: 21674804.

Schroeter R, Voigt B, Jürgen B, Methling K, Pöther DC, Schäfer H, Albrecht D, Mostertz J, Mäder U, Evers S, Maurer KH, Lalk M, Mascher T, Hecker M, Schweder T. The peroxide stress response of Bacillus licheniformis. 2011 Jul;11(14):2851-66. PMID: 21674797.

Albaum SP, Hahne H, Otto A, Haußmann U, Becher D, Poetsch A, Goesmann A, Nattkemper TW. A guide through the computational analysis of isotope-labeled mass spectrometry-based quantitative proteomics data: an application study. Proteome Sci. 2011 Jun 11;9:30. PMID: 21663690.

Elsholz AK, Hempel K, Michalik S, Gronau K, Becher D, Hecker M, Gerth U. Activity control of the ClpC adaptor McsB in Bacillus subtilis. J Bacteriol. 2011 Aug;193(15):3887-93. PMID: 21622759.

Schneider T, Schmid E, de Castro JV Jr, Cardinale M, Eberl L, Grube M, Berg G, Riedel K. Structure and function of the symbiosis partners of the lung lichen (Lobaria pulmonaria L. Hoffm.) analyzed by metaproteomics. 2011 Jul;11(13):2752-6. PMID: 21604374.

Wolf C, Kusch H, Monecke S, Albrecht D, Holtfreter S, von Eiff C, Petzl W, Rainard P, Bröker BM, Engelmann S. Genomic and proteomic characterization of Staphylococcus aureus mastitis isolates of bovine origin. 2011 Jun;11(12):2491-502. PMID: 21595036.

Kohlmann Y, Pohlmann A, Otto A, Becher D, Cramm R, Lütte S, Schwartz E, Hecker M, Friedrich B. Analyses of soluble and membrane proteomes of Ralstonia eutropha H16 reveal major changes in the protein complement in adaptation to lithoautotrophy. J Proteome Res. 2011 Jun 3;10(6):2767-76. PMID: 21561103.

Eberl L, Riedel K. Mining quorum sensing regulated proteins – Role of bacterial cell-to-cell communication in global gene regulation as assessed by proteomics. 2011 Aug;11(15):3070-85. PMID: 21548094.

Borgmeier C, Voigt B, Hecker M, Meinhardt F. Functional analysis of the response regulator DegU in Bacillus megaterium DSM319 and comparative secretome analysis of degSU mutants. Appl Microbiol Biotechnol. 2011 Aug;91(3):699-711. PMID: 21538108.

van der Ploeg R, Mäder U, Homuth G, Schaffer M, Denham EL, Monteferrante CG, Miethke M, Marahiel MA, Harwood CR, Winter T, Hecker M, Antelmann H, van Dijl JM. Environmental salinity determines the specificity and need for Tat-dependent secretion of the YwbN protein in Bacillus subtilis. PLoS One. 2011 Mar 30;6(3):e18140. PMID: 21479178.

Liang C, Liebeke M, Schwarz R, Zühlke D, Fuchs S, Menschner L, Engelmann S, Wolz C, Jaglitz S, Bernhardt J, Hecker M, Lalk M, Dandekar T. Staphylococcus aureus physiological growth limitations: insights from flux calculations built on proteomics and external metabolite data. 2011 May;11(10):1915-35. PMID: 21472852.

Kusch K, Hanke K, Holtfreter S, Schmudde M, Kohler C, Erck C, Wehland J, Hecker M, Ohlsen K, Bröker B, Engelmann S. The influence of SaeRS and σ(B) on the expression of superantigens in different Staphylococcus aureus isolates. Int J Med Microbiol. 2011 Aug;301(6):488-99. PMID: 21470910.

Cecil A, Rikanović C, Ohlsen K, Liang C, Bernhardt J, Oelschlaeger TA, Gulder T, Bringmann G, Holzgrabe U, Unger M, Dandekar T. Modeling antibiotic and cytotoxic effects of the dimeric isoquinoline IQ-143 on metabolism and its regulation in Staphylococcus aureus, Staphylococcus epidermidis and human cells. Genome Biol. 2011;12(3):R24. PMID: 21418624.

Tefon BE, Maass S, Ozcengiz E, Becher D, Hecker M, Ozcengiz G. A comprehensive analysis of Bordetella pertussis surface proteome and identification of new immunogenic proteins. 2011 Apr 27;29(19):3583-95. PMID: 21397717.

Maass S, Sievers S, Zühlke D, Kuzinski J, Sappa PK, Muntel J, Hessling B, Bernhardt J, Sietmann R, Völker U, Hecker M, Becher D. Efficient, global-scale quantification of absolute protein amounts by integration of targeted mass spectrometry and two-dimensional gel-based proteomics. Anal Chem.2011 Apr 1;83(7):2677-84. PMID: 21395229.

Yıldırım V, Ozcan S, Becher D, Büttner K, Hecker M, Ozcengiz G. Characterization of proteome alterations in Phanerochaete chrysosporium in response to lead exposure. Proteome Sci. 2011 Mar 9;9:12. PMID: 21388532.

Eymann C, Schulz S, Gronau K, Becher D, Hecker M, Price CW. In vivo phosphorylation patterns of key stressosome proteins define a second feedback loop that limits activation of Bacillus subtilis σB. Mol Microbiol. 2011 May;80(3):798-810. PMID: 21362065.

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, Lalk M. A metabolomics and proteomics study of the adaptation of Staphylococcus aureus to glucose starvation. Mol Biosyst. 2011 Apr;7(4):1241-53. PMID: 21327190.

Hempel K, Herbst FA, Moche M, Hecker M, Becher D. Quantitative proteomic view on secreted, cell surface-associated, and cytoplasmic proteins of the methicillin-resistant human pathogen Staphylococcus aureus under iron-limited conditions. J Proteome Res. 2011 Apr 1;10(4):1657-66. PMID: 21323324.

Heichel J, Blum M, Duncker GI, Sietmann R, Kunert KS. Surface quality of porcine corneal lenticules after Femtosecond Lenticule Extraction. Ophthalmic Res. 2011;46(2):107-12. PMID: 21311205.

Raberg M, Bechmann J, Brandt U, Schlüter J, Uischner B, Voigt B, Hecker M, 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. 2011 Apr;77(7):2254-63. PMID: 21296938.

Evguenieva-Hackenberg E, Roppelt V, Lassek C, Klug G. Subcellular localization of RNA degrading proteins and protein complexes in prokaryotes. RNA Biol. 2011 Jan-Feb;8(1):49-54. PMID: 21289488.

Raberg M, Peplinski K, Heiss S, Ehrenreich A, Voigt B, Döring C, Bömeke M, Hecker M, Steinbüchel A. Proteomic and transcriptomic elucidation of the mutant ralstonia eutropha G+1 with regard to glucose utilization. Appl Environ Microbiol. 2011 Mar;77(6):2058-70. PMID: 21278273.

Otto A, Bernhardt J, Meyer H, Schaffer M, Herbst FA, Siebourg J, Mäder U, Lalk M, Hecker M, Becher D. Systems-wide temporal proteomic profiling in glucose-starved Bacillus subtilis. Nat Commun. 2010;1:137. PMID: 21266987.

Kunert KS, Blum M, Duncker GI, Sietmann R, Heichel J. Surface quality of human corneal lenticules after femtosecond laser surgery for myopia comparing different laser parameters. Graefes Arch Clin Exp Ophthalmol. 2011 Sep;249(9):1417-24. PMID: 21240524.

Elsholz AK, Hempel K, Pöther DC, Becher D, Hecker M, Gerth U. CtsR inactivation during thiol-specific stress in low GC, Gram+ bacteria. Mol Microbiol. 2011 Feb;79(3):772-85. PMID: 21208299.

Saller MJ, Otto A, Berrelkamp-Lahpor GA, Becher D, Hecker M, Driessen AJ. Bacillus subtilis YqjG is required for genetic competence development. 2011 Jan;11(2):270-82. PMID: 21204254.

Wilmes B, Kock H, Glagla S, Albrecht D, Voigt B, Markert S, Gardebrecht A, Bode R, Danchin A, Feller G, Hecker M, Schweder T. Cytoplasmic and periplasmic proteomic signatures of exponentially growing cells of the psychrophilic bacterium Pseudoalteromonas haloplanktis TAC125. Appl Environ Microbiol. 2011 Feb;77(4):1276-83. PMID: 21183643.

2010

Kuhla B, Albrecht D, Bruckmaier R, Viergutz T, Nürnberg G, Metges CC. Proteome and radioimmunoassay analyses of pituitary hormones and proteins in response to feed restriction of dairy cows. 2010 Dec;10(24):4491-500. PMID: 21136601.

Elsholz AK, Gerth U, Hecker M. Regulation of CtsR activity in low GC, Gram+ bacteria. Adv Microb Physiol. 2010;57:119-44. PMID: 21078442.

Rändler C, Matthes R, McBain AJ, Giese B, Fraunholz M, Sietmann R, Kohlmann T, Hübner NO, Kramer A. A three-phase in-vitro system for studying Pseudomonas aeruginosa adhesion and biofilm formation upon hydrogel contact lenses. BMC Microbiol.2010 Nov 9;10:282. PMID: 21062489.

Zdziarski J, Brzuszkiewicz E, Wullt B, Liesegang H, Biran D, Voigt B, Grönberg-Hernandez J, Ragnarsdottir B, Hecker M, Ron EZ, Daniel R, Gottschalk G, Hacker J, Svanborg C, Dobrindt U. Host imprints on bacterial genomes–rapid, divergent evolution in individual patients. PLoS Pathog. 2010 Aug 26;6(8):e1001078. PMID: 20865122.

Wollenhaupt K, Reinke K, Brüssow KP, Albrecht D, Tiemann U, Seyfert HM, Tomek W. Natural occurrence and physiological role of a truncated eIF4E in the porcine endometrium during implantation. Biochem J. 2010 Dec 1;432(2):353-63. PMID: 20854261.

Elsholz AK, Michalik S, Zühlke D, Hecker M, Gerth U. CtsR, the Gram-positive master regulator of protein quality control, feels the heat. EMBO J. 2010 Nov 3;29(21):3621-9. PMID: 20852588.

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.2010 Oct;45(7):666-75. PMID: 20818520.

Carranza P, Grunau A, Schneider T, Hartmann I, Lehner A, Stephan R, Gehrig P, Grossmann J, Groebel K, Hoelzle LE, Eberl L, Riedel K. A gel-free quantitative proteomics approach to investigate temperature adaptation of the food-borne pathogen Cronobacter turicensis 3032. 2010 Sep;10(18):3248-61. PMID: 20718006.

Moretti M, Grunau A, Minerdi D, Gehrig P, Roschitzki B, Eberl L, Garibaldi A, Gullino ML, Riedel K. A proteomics approach to study synergistic and antagonistic interactions of the fungal-bacterial consortium Fusarium oxysporum wild-type MSA 35. 2010 Sep;10(18):3292-320. PMID: 20707000.

Price CE, Otto A, Fusetti F, Becher D, Hecker M, Driessen AJ. Differential effect of YidC depletion on the membrane proteome of Escherichia coli under aerobic and anaerobic growth conditions. 2010 Sep;10(18):3235-47. PMID: 20706981.

Lumjiaktase P, Aguilar C, Battin T, Riedel K, Eberl L. Construction of self-transmissible green fluorescent protein-based biosensor plasmids and their use for identification of N-acyl homoserine-producing bacteria in lake sediments. Appl Environ Microbiol. 2010 Sep;76(18):6119-27. PMID: 20675456.

Dreisbach A, Hempel K, Buist G, Hecker M, Becher D, van Dijl JM. Profiling the surfacome of Staphylococcus aureus. 2010 Sep;10(17):3082-96. PMID: 20662103.

Fuchs S, Mehlan H, Kusch H, Teumer A, Zühlke D, Berth M, Wolf C, Dandekar T, Hecker M, Engelmann S, Bernhardt J. Protecs, a comprehensive and powerful storage and analysis system for OMICS data, applied for profiling the anaerobiosis response of Staphylococcus aureus COL. 2010 Aug;10(16):2982-3000. PMID: 20662099.

Chi BK, Albrecht D, Gronau K, Becher D, Hecker M, Antelmann H. The redox-sensing regulator YodB senses quinones and diamide via a thiol-disulfide switch in Bacillus subtilis. 2010 Sep;10(17):3155-64. PMID: 20652907.

Wolf D, Kalamorz F, Wecke T, Juszczak A, Mäder U, Homuth G, Jordan S, Kirstein J, Hoppert M, Voigt B, Hecker M, Mascher T. In-depth profiling of the LiaR response of Bacillus subtilis. J Bacteriol. 2010 Sep;192(18):4680-93. PMID: 20639339.

Chi BK, Kobayashi K, Albrecht D, Hecker M, Antelmann H. The paralogous MarR/DUF24-family repressors YodB and CatR control expression of the catechol dioxygenase CatE in Bacillus subtilis. J Bacteriol. 2010 Sep;192(18):4571-81. PMID: 20639328.

Antelmann H, Helmann JD. Thiol-based redox switches and gene regulation. Antioxid Redox Signal. 2011 Mar 15;14(6):1049-63. PMID: 20626317.

Janssen H, Döring C, Ehrenreich A, Voigt B, Hecker M, Bahl H, Fischer RJ. A proteomic and transcriptional view of acidogenic and solventogenic steady-state cells of Clostridium acetobutylicum in a chemostat culture. Appl Microbiol Biotechnol. 2010 Aug;87(6):2209-26. PMID: 20617312.

Schmarr HG, Bernhardt J, Fischer U, Stephan A, Müller P, Durner D. Two-dimensional gas chromatographic profiling as a tool for a rapid screening of the changes in volatile composition occurring due to microoxygenation of red wines. Anal Chim Acta. 2010 Jul 5;672(1-2):114-23. PMID: 20579499.

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. 2010 Aug;192(16):4192-204. PMID: 20562310.

Bosshard F, Riedel K, Schneider T, Geiser C, Bucheli M, Egli T. Protein oxidation and aggregation in UVA-irradiated Escherichia coli cells as signs of accelerated cellular senescence. Environ Microbiol. 2010 Nov;12(11):2931-45. PMID: 20545749.

Lâm TT, Giese B, Chikkaballi D, Kühn A, Wolber W, Pané-Farré J, Schäfer D, Engelmann S, Fraunholz M, Sinha B. Phagolysosomal integrity is generally maintained after Staphylococcus aureus invasion of nonprofessional phagocytes but is modulated by strain 6850. Infect Immun. 2010 Aug;78(8):3392-403. PMID: 20530231.

Thanh TN, Jürgen B, Bauch M, Liebeke M, Lalk M, Ehrenreich A, Evers S, Maurer KH, Antelmann H, Ernst F, Homuth G, Hecker M, Schweder T. Regulation of acetoin and 2,3-butanediol utilization in Bacillus licheniformis. Appl Microbiol Biotechnol. 2010 Aug;87(6):2227-35. PMID: 20524112.

Schmidt F, Scharf SS, Hildebrandt P, Burian M, Bernhardt J, Dhople V, Kalinka J, Gutjahr M, Hammer E, Völker U. Time-resolved quantitative proteome profiling of host-pathogen interactions: the response of Staphylococcus aureus RN1HG to internalisation by human airway epithelial cells. 2010 Aug;10(15):2801-11. PMID: 20518028.

Jürgen B, Breitenstein A, Urlacher V, Büttner K, Lin H, Hecker M, Schweder T, Neubauer P. Quality control of inclusion bodies in Escherichia coli. Microb Cell Fact. 2010 May 28;9:41. PMID: 20509924.

Joshi MV, Mann SG, Antelmann H, Widdick DA, Fyans JK, Chandra G, Hutchings MI, Toth I, Hecker M, Loria R, Palmer T. The twin arginine protein transport pathway exports multiple virulence proteins in the plant pathogen Streptomyces scabies. Mol Microbiol. 2010 Jul 1;77(1):252-71. PMID: 20487278.

Hyyryläinen HL, Marciniak BC, Dahncke K, Pietiäinen M, Courtin P, Vitikainen M, Seppala R, Otto A, Becher D, Chapot-Chartier MP, Kuipers OP, Kontinen VP. Penicillin-binding protein folding is dependent on the PrsA peptidyl-prolyl cis-trans isomerase in Bacillus subtilis. Mol Microbiol. 2010 Jul 1;77(1):108-27. PMID: 20487272.

Möbius K, Arias-Cartin R, Breckau D, Hännig AL, Riedmann K, Biedendieck R, Schröder S, Becher D, Magalon A, Moser J, Jahn M, Jahn D. Heme biosynthesis is coupled to electron transport chains for energy generation. Proc Natl Acad Sci U S A. 2010 Jun 8;107(23):10436-41. PMID: 20484676.

Sibbald MJ, Winter T, van der Kooi-Pol MM, Buist G, Tsompanidou E, Bosma T, Schäfer T, Ohlsen K, Hecker M, Antelmann H, Engelmann S, van Dijl JM. Synthetic effects of secG and secY2 mutations on exoproteome biogenesis in Staphylococcus aureus. J Bacteriol. 2010 Jul;192(14):3788-800. PMID: 20472795.

Kuhla B, Kucia M, Görs S, Albrecht D, Langhammer M, Kuhla S, Metges CC. Effect of a high-protein diet on food intake and liver metabolism during pregnancy, lactation and after weaning in mice. 2010 Jul;10(14):2573-88. PMID: 20422639.

Pietack N, Becher D, Schmidl SR, Saier MH, Hecker M, Commichau FM, 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.2010;18(3):129-40. PMID: 20389117.

Pagels M, Fuchs S, Pané-Farré J, Kohler C, Menschner L, Hecker M, McNamarra PJ, Bauer MC, von Wachenfeldt C, Liebeke M, Lalk M, Sander G, von Eiff C, Proctor RA, Engelmann S. Redox sensing by a Rex-family repressor is involved in the regulation of anaerobic gene expression in Staphylococcus aureus. Mol Microbiol. 2010 Jun 1;76(5):1142-61. PMID: 20374494.

Hammer E, Phong TQ, Steil L, Klingel K, Salazar MG, Bernhardt J, Kandolf R, Kroemer HK, Felix SB, Völker U. Viral myocarditis induced by Coxsackievirus B3 in A.BY/SnJ mice: analysis of changes in the myocardial proteome. 2010 May;10(9):1802-18. PMID: 20213679.

Herbert S, Ziebandt AK, Ohlsen K, Schäfer T, Hecker M, Albrecht D, Novick R, Götz F. Repair of global regulators in Staphylococcus aureus 8325 and comparative analysis with other clinical isolates. Infect Immun. 2010 Jun;78(6):2877-89. PMID: 20212089.

Schneider T, Gerrits B, Gassmann R, Schmid E, Gessner MO, Richter A, Battin T, Eberl L, Riedel K. Proteome analysis of fungal and bacterial involvement in leaf litter decomposition. 2010 May;10(9):1819-30. PMID: 20198641.

Ziebandt AK, Kusch H, Degner M, Jaglitz S, Sibbald MJ, Arends JP, Chlebowicz MA, Albrecht D, Pantucek R, Doskar J, Ziebuhr W, Bröker BM, Hecker M, van Dijl JM, Engelmann S. Proteomics uncovers extreme heterogeneity in the Staphylococcus aureus exoproteome due to genomic plasticity and variant gene regulation. 2010 Apr;10(8):1634-44. PMID: 20186749.

Srinivas N, Jetter P, Ueberbacher BJ, Werneburg M, Zerbe K, Steinmann J, Van der Meijden B, Bernardini F, Lederer A, Dias RL, Misson PE, Henze H, Zumbrunn J, Gombert FO, Obrecht D, Hunziker P, Schauer S, Ziegler U, Käch A, Eberl L, Riedel K, DeMarco SJ, Robinson JA. Peptidomimetic antibiotics target outer-membrane biogenesis in Pseudomonas aeruginosa. 2010 Feb 19;327(5968):1010-3. PMID: 20167788.

Sievers S, Ernst CM, Geiger T, Hecker M, Wolz C, Becher D, Peschel A. Changing the phospholipid composition of Staphylococcus aureus causes distinct changes in membrane proteome and membrane-sensory regulators. 2010 Apr;10(8):1685-93. PMID: 20162562.

Miller M, Donat S, Rakette S, Stehle T, Kouwen TR, Diks SH, Dreisbach A, Reilman E, Gronau K, Becher D, Peppelenbosch MP, van Dijl JM, Ohlsen K. Staphylococcal PknB as the first prokaryotic representative of the proline-directed kinases. PLoS One. 2010 Feb 4;5(2):e9057. PMID: 20140229.

Hartmann I, Carranza P, Lehner A, Stephan R, Eberl L, Riedel K. Genes involved in Cronobacter sakazakii biofilm formation. Appl Environ Microbiol. 2010 Apr;76(7):2251-61. PMID: 20118366.

Hempel K, Pané-Farré J, Otto A, Sievers S, Hecker M, Becher D. Quantitative cell surface proteome profiling for SigB-dependent protein expression in the human pathogen Staphylococcus aureus via biotinylation approach. J Proteome Res. 2010 Mar 5;9(3):1579-90. PMID: 20108986.

Schmidl SR, Gronau K, Pietack N, Hecker M, Becher D, 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. 2010 Jun;9(6):1228-42. PMID: 20097688.

Schmarr HG, Bernhardt J. Profiling analysis of volatile compounds from fruits using comprehensive two-dimensional gas chromatography and image processing techniques. J Chromatogr A. 2010 Jan 22;1217(4):565-74. PMID: 20015502.

Hecker M, Becher D, Fuchs S, Engelmann S. A proteomic view of cell physiology and virulence of Staphylococcus aureus. Int J Med Microbiol. 2010 Feb;300(2-3):76-87. PMID: 20005169.

Quiel A, Jürgen B, Piechotta G, Le Foll AP, Ziebandt AK, Kohler C, Köster D, Engelmann S, Erck C, Hintsche R, Wehland J, Hecker M, Schweder T. Electrical protein array chips for the detection of staphylococcal virulence factors. Appl Microbiol Biotechnol.2010 Feb;85(5):1619-27. PMID: 19957082.

Schneider T, Riedel K. Environmental proteomics: analysis of structure and function of microbial communities. 2010 Feb;10(4):785-98. PMID: 19953545.

Hahne H, Mäder U, Otto A, Bonn F, Steil L, Bremer E, Hecker M, Becher D. A comprehensive proteomics and transcriptomics analysis of Bacillus subtilis salt stress adaptation. J Bacteriol.2010 Feb;192(3):870-82. PMID: 19948795.

Liang C, Schmid A, López-Sánchez MJ, Moya A, Gross R, Bernhardt J, Dandekar T. JANE: efficient mapping of prokaryotic ESTs and variable length sequence reads on related template genomes. BMC Bioinformatics.2009 Nov 29;10:391. PMID: 19943962.

Liedert C, Bernhardt J, Albrecht D, Voigt B, Hecker M, Salkinoja-Salonen M, Neubauer P. Two-dimensional proteome reference map for the radiation-resistant bacterium Deinococcus geothermalis. 2010 Feb;10(3):555-63. PMID: 19941306.

Schmidl SR, Gronau K, Hames C, Busse J, Becher D, Hecker M, Stülke J. The stability of cytadherence proteins in Mycoplasma pneumoniae requires activity of the protein kinase PrkC. Infect Immun.2010 Jan;78(1):184-92. PMID: 19858294.

Sietmann R, Uebe R, Böer E, Bode R, Kunze G, Schauer F. Novel metabolic routes during the oxidation of hydroxylated aromatic acids by the yeast Arxula adeninivorans. J Appl Microbiol.2010 Mar;108(3):789-99. PMID: 19702859.

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 JM, Hecker M. A proteomic view of an important human pathogen–towards the quantification of the entire Staphylococcus aureus proteome. PLoS One.2009 Dec 4;4(12):e8176. PMID: 19997597.

Pöther DC, Liebeke M, Hochgräfe F, Antelmann H, Becher D, Lalk M, Lindequist U, Borovok I, Cohen G, Aharonowitz Y, Hecker M. Diamide triggers mainly S Thiolations in the cytoplasmic proteomes of Bacillus subtilis and Staphylococcus aureus. J Bacteriol.2009 Dec;191(24):7520-30. PMID: 19837798.

Götz F, Hacker J, Hecker M. Pathophysiology of staphylococci in the post-genomic era. Int J Med Microbiol.2010 Feb;300(2-3):75. PMID: 19836996.

Schwartz E, Voigt B, Zühlke D, Pohlmann A, Lenz O, Albrecht D, Schwarze A, Kohlmann Y, Krause C, Hecker M, Friedrich B. A proteomic view of the facultatively chemolithoautotrophic lifestyle of Ralstonia eutropha H16. 2009 Nov;9(22):5132-42. PMID: 19798673.

Holtfreter S, Nguyen TT, Wertheim H, Steil L, Kusch H, Truong QP, Engelmann S, Hecker M, Völker U, van Belkum A, Bröker BM. Human immune proteome in experimental colonization with Staphylococcus aureus. Clin Vaccine Immunol.2009 Nov;16(11):1607-14. PMID: 19759252.

Schmid M, Iversen C, Gontia I, Stephan R, Hofmann A, Hartmann A, Jha B, Eberl L, Riedel K, Lehner A. Evidence for a plant-associated natural habitat for Cronobacter spp. Res Microbiol.2009 Oct;160(8):608-14. PMID: 19748571.

Michalik S, Liebeke M, Zühlke D, Lalk M, Bernhardt J, Gerth U, Hecker M. Proteolysis during long-term glucose starvation in Staphylococcus aureus COL. 2009 Oct;9(19):4468-77. PMID: 19743422.

Engelmann S, Hecker M. A Proteomics View of Virulence Factors of Staphylococcus aureus. Genome Dyn.2009;6:187-97. PMID: 19696502.

Carranza P, Hartmann I, Lehner A, Stephan R, Gehrig P, Grossmann J, Barkow-Oesterreicher S, Roschitzki B, Eberl L, Riedel K. Proteomic profiling of Cronobacter turicensis 3032, a food-borne opportunistic pathogen. 2009 Jul;9(13):3564-79. PMID: 19609963.

Uehlinger S, Schwager S, Bernier SP, Riedel K, Nguyen DT, Sokol PA, Eberl L. Identification of specific and universal virulence factors in Burkholderia cenocepacia strains by using multiple infection hosts. Infect Immun.2009 Sep;77(9):4102-10. PMID: 19528212.

Shevchuk O, Batzilla C, Hägele S, Kusch H, Engelmann S, Hecker M, Haas A, Heuner K, Glöckner G, Steinert M. Proteomic analysis of Legionella-containing phagosomes isolated from Dictyostelium. Int J Med Microbiol.2009 Nov;299(7):489-508. PMID: 19482547.

Pessione E, Pessione A, Lamberti C, Coïsson DJ, Riedel K, Mazzoli R, Bonetta S, Eberl L, Giunta C. First evidence of a membrane-bound, tyramine and beta-phenylethylamine producing, tyrosine decarboxylase in Enterococcus faecalis: a two-dimensional electrophoresis proteomic study. 2009 May;9(10):2695-710. PMID: 19405032.

Hecker M, Reder A, Fuchs S, Pagels M, Engelmann S. Physiological proteomics and stress/starvation responses in Bacillus subtilis and Staphylococcus aureus. Res Microbiol.2009 May;160(4):245-58. PMID: 19403106.

Schneider T, Schellenberg M, Meyer S, Keller F, Gehrig P, Riedel K, Lee Y, Eberl L, Martinoia E. Quantitative detection of changes in the leaf-mesophyll tonoplast proteome in dependency of a cadmium exposure of barley (Hordeum vulgare L.) plants. 2009 May;9(10):2668-77. PMID: 19391183.

Eberhardt C, Engelmann S, Kusch H, Albrecht D, Hecker M, Autenrieth IB, Kempf VA. Proteomic analysis of the bacterial pathogen Bartonella henselae and identification of immunogenic proteins for serodiagnosis. 2009 Apr;9(7):1967-81. PMID: 19333998.

Liebeke M, Brözel VS, Hecker M, Lalk M. Chemical characterization of soil extract as growth media for the ecophysiological study of bacteria. Appl Microbiol Biotechnol.2009 May;83(1):161-73. PMID: 19308401.

Chatterjee I, Schmitt S, Batzilla CF, Engelmann S, Keller A, Ring MW, Kautenburger R, Ziebuhr W, Hecker M, Preissner KT, Bischoff M, Proctor RA, Beck HP, Lenhof HP, Somerville GA, Herrmann M. Staphylococcus aureus ClpC ATPase is a late growth phase effector of metabolism and persistence. 2009 Mar;9(5):1152-76. PMID: 19253280.

Kuhla B, Albrecht D, Kuhla S, Metges CC. Proteome analysis of fatty liver in feed-deprived dairy cows reveals interaction of fuel sensing, calcium, fatty acid, and glycogen metabolism. Physiol Genomics.2009 Apr 10;37(2):88-98. PMID: 19240300.

Müller H, Westendorf C, Leitner E, Chernin L, Riedel K, Schmidt S, Eberl L, Berg G. Quorum-sensing effects in the antagonistic rhizosphere bacterium Serratia plymuthica HRO-C48. FEMS Microbiol Ecol.2009 Mar;67(3):468-78. PMID: 19220861.

Pané-Farré J, Jonas B, Hardwick SW, Gronau K, Lewis RJ, Hecker M, Engelmann S. Role of RsbU in controlling SigB activity in Staphylococcus aureus following alkaline stress. J Bacteriol.2009 Apr;191(8):2561-73. PMID: 19201800.

Kouwen TR, van der Ploeg R, Antelmann H, Hecker M, Homuth G, Mäder U, van Dijl JM. Overflow of a hyper-produced secretory protein from the Bacillus Sec pathway into the Tat pathway for protein secretion as revealed by proteogenomics. 2009 Feb;9(4):1018-32. PMID: 19180538.

Nguyen TT, Eiamphungporn W, Mäder U, Liebeke M, Lalk M, Hecker M, Helmann JD, 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.2009 Feb;71(4):876-94. PMID: 19170879.

Wecke T, Zühlke D, Mäder U, Jordan S, Voigt B, Pelzer S, Labischinski H, Homuth G, Hecker M, Mascher T. Daptomycin versus Friulimicin B: in-depth profiling of Bacillus subtilis cell envelope stress responses. Antimicrob Agents Chemother.2009 Apr;53(4):1619-23. PMID: 19164157.

Kouwen TR, Antelmann H, van der Ploeg R, Denham EL, Hecker M, van Dijl JM. MscL of Bacillus subtilis prevents selective release of cytoplasmic proteins in a hypotonic environment. 2009 Feb;9(4):1033-43. PMID: 19160392.

Schönhusen U, Kuhla S, Rudolph PE, Zitnan R, Albrecht D, Huber K, Voigt J, Flöter A, Hammon HM, Metges CC. Alterations in the jejunum of young goats caused by feeding soy protein-based diets. J Anim Physiol Anim Nutr (Berl).2010 Feb 1;94(1):1-14. PMID: 19138348.

Hempel K, Rosen R, Becher D, Büttner K, Hecker M, Ron EZ. Analysis of ultra acidic proteins by the use of anodic acidic gels. Anal Biochem.2009 Feb 15;385(2):208-14. PMID: 19084495.

Bohn YS, Brandes G, Rakhimova E, Horatzek S, Salunkhe P, Munder A, van Barneveld A, Jordan D, Bredenbruch F, Häussler S, Riedel K, Eberl L, Jensen PØ, Bjarnsholt T, Moser C, Hoiby N, Tümmler B, Wiehlmann L. Multiple roles of Pseudomonas aeruginosa TBCF10839 PilY1 in motility, transport and infection. Mol Microbiol.2009 Feb;71(3):730-47. PMID: 19054330.

Altindiş E, Tefon BE, Yildirim V, Ozcengiz E, Becher D, Hecker M, Ozcengiz G. Immunoproteomic analysis of Bordetella pertussis and identification of new immunogenic proteins. 2009 Jan 22;27(4):542-8. PMID: 19028538.

Hecker M, Antelmann H, Büttner K, Bernhardt J. Gel-based proteomics of Gram-positive bacteria: a powerful tool to address physiological questions. 2008 Dec;8(23-24):4958-75. PMID: 19003856.

Voigt B, Antelmann H, Albrecht D, Ehrenreich A, Maurer KH, Evers S, Gottschalk G, van Dijl JM, Schweder T, Hecker M. Cell physiology and protein secretion of Bacillus licheniformis compared to Bacillus subtilis. J Mol Microbiol Biotechnol.2009;16(1-2):53-68. PMID: 18957862.

Soini J, Falschlehner C, Liedert C, Bernhardt J, Vuoristo J, Neubauer P. Norvaline is accumulated after a down-shift of oxygen in Escherichia coli W3110. Microb Cell Fact.2008 Oct 21;7:30. PMID: 18940002.

Eichstaedt S, Gäbler K, Below S, Müller C, Kohler C, Engelmann S, Hildebrandt P, Völker U, Hecker M, Hildebrandt JP. Effects of Staphylococcus aureus-hemolysin A on calcium signalling in immortalized human airway epithelial cells. Cell Calcium.2009 Feb;45(2):165-76. PMID: 18922576.

2008

Nagy G, Palkovics T, Otto A, Kusch H, Kocsis B, Dobrindt U, Engelmann S, Hecker M, Emödy L, Pál T, Hacker J. “Gently rough”: the vaccine potential of a Salmonella enterica regulatory lipopolysaccharide mutant. J Infect Dis.2008 Dec 1;198(11):1699-706. PMID: 18922095.

Schlag S, Fuchs S, Nerz C, Gaupp R, Engelmann S, Liebeke M, Lalk M, Hecker M, Götz F. Characterization of the oxygen-responsive NreABC regulon of Staphylococcus aureus. J Bacteriol.2008 Dec;190(23):7847-58. PMID: 18820014.

Tiaden A, Spirig T, Carranza P, Brüggemann H, Riedel K, Eberl L, Buchrieser C, Hilbi H. Synergistic contribution of the Legionella pneumophila lqs genes to pathogen-host interactions. J Bacteriol.2008 Nov;190(22):7532-47. PMID: 18805977.

Liu Y, Harnisch F, Fricke K, Sietmann R, Schröder U. Improvement of the anodic bioelectrocatalytic activity of mixed culture biofilms by a simple consecutive electrochemical selection procedure. Biosens Bioelectron.2008 Dec 1;24(4):1012-7. PMID: 18804995.

Grumann D, Scharf SS, Holtfreter S, Kohler C, Steil L, Engelmann S, Hecker M, Völker U, Bröker BM. Immune cell activation by enterotoxin gene cluster (egc)-encoded and non-egc superantigens from Staphylococcus aureus. J Immunol.2008 Oct 1;181(7):5054-61. PMID: 18802109.

Hahne H, Wolff S, Hecker M, Becher D. From complementarity to comprehensiveness–targeting the membrane proteome of growing Bacillus subtilis by divergent approaches. 2008 Oct;8(19):4123-36. PMID: 18763711.

García-Aljaro C, Eberl L, Riedel K, Blanch AR. Detection of quorum-sensing-related molecules in Vibrio scophthalmi. BMC Microbiol.2008 Aug 13;8:138. PMID: 18700048.

Kohler C, von Eiff C, Liebeke M, McNamara PJ, Lalk M, Proctor RA, Hecker M, Engelmann S. A defect in menadione biosynthesis induces global changes in gene expression in Staphylococcus aureus. J Bacteriol.2008 Oct;190(19):6351-64. PMID: 18676673.

Liebeke M, Pöther DC, van Duy N, Albrecht D, Becher D, Hochgräfe F, Lalk M, Hecker M, Antelmann H. Depletion of thiol-containing proteins in response to quinones in Bacillus subtilis. Mol Microbiol.2008 Sep;69(6):1513-29. PMID: 18673455.

Reder A, Höper D, Weinberg C, Gerth U, Fraunholz M, Hecker M. The Spx paralogue MgsR (YqgZ) controls a subregulon within the general stress response of Bacillus subtilis. Mol Microbiol.2008 Sep;69(5):1104-20. PMID: 18643936.

Wolf C, Hochgräfe F, Kusch H, Albrecht D, Hecker M, Engelmann S. Proteomic analysis of antioxidant strategies of Staphylococcus aureus: diverse responses to different oxidants. 2008 Aug;8(15):3139-53. PMID: 18604844.

Mostertz J, Hochgräfe F, Jürgen B, Schweder T, Hecker M. The role of thioredoxin TrxA in Bacillus subtilis: a proteomics and transcriptomics approach. 2008 Jul;8(13):2676-90. PMID: 18601268.

Westers L, Westers H, Zanen G, Antelmann H, Hecker M, Noone D, Devine KM, van Dijl JM, Quax WJ. Genetic or chemical protease inhibition causes significant changes in the Bacillus subtilis exoproteome. 2008 Jul;8(13):2704-13. PMID: 18546160.

Raberg M, Reinecke F, Reichelt R, Malkus U, König S, Pötter M, Fricke WF, Pohlmann A, Voigt B, Hecker M, Friedrich B, Bowien B, Steinbüchel A. Ralstonia eutropha H16 flagellation changes according to nutrient supply and state of poly(3-hydroxybutyrate) accumulation. Appl Environ Microbiol.2008 Jul;74(14):4477-90. PMID: 18502919.

Schweder T, Markert S, Hecker M. Proteomics of marine bacteria. 2008 Jun;29(12):2603-16. PMID: 18494036.

Dreisbach A, Otto A, Becher D, Hammer E, Teumer A, Gouw JW, Hecker M, Völker U. Monitoring of changes in the membrane proteome during stationary phase adaptation of Bacillus subtilis using in vivo labeling techniques. 2008 May;8(10):2062-76. PMID: 18491319.

Hochgräfe F, Wolf C, Fuchs S, Liebeke M, Lalk M, Engelmann S, Hecker M. Nitric oxide stress induces different responses but mediates comparable protein thiol protection in Bacillus subtilis and Staphylococcus aureus. J Bacteriol.2008 Jul;190(14):4997-5008. PMID: 18487332.

Wolff S, Hahne H, Hecker M, Becher D. Complementary analysis of the vegetative membrane proteome of the human pathogen Staphylococcus aureus. Mol Cell Proteomics.2008 Aug;7(8):1460-8. PMID: 18460691.

Raddatz K, Albrecht D, Hochgräfe F, Hecker M, Gotthardt M. A proteome map of murine heart and skeletal muscle. 2008 May;8(9):1885-97. PMID: 18398877.

Zweers JC, Barák I, Becher D, Driessen AJ, Hecker M, Kontinen VP, Saller MJ, Vavrová L, van Dijl JM. Towards the development of Bacillus subtilis as a cell factory for membrane proteins and protein complexes. Microb Cell Fact.2008 Apr 4;7:10. PMID: 18394159.

Hieu CX, Voigt B, Albrecht D, Becher D, Lombardot T, Glöckner FO, Amann R, Hecker M, Schweder T. Detailed proteome analysis of growing cells of the planctomycete Rhodopirellula baltica SH1T. 2008 Apr;8(8):1608-23. PMID: 18340632.

Lorenz U, Hüttinger C, Schäfer T, Ziebuhr W, Thiede A, Hacker J, Engelmann S, Hecker M, Ohlsen K. The alternative sigma factor sigma B of Staphylococcus aureus modulates virulence in experimental central venous catheter-related infections. Microbes Infect.2008 Mar;10(3):217-23. PMID: 18328762.

Engelmann S, Hecker M. Proteomic analysis to investigate regulatory networks in Staphylococcus aureus. Methods Mol Biol.2008;431:25-45. PMID: 18287745.

Antelmann H, Hecker M, Zuber P. Proteomic signatures uncover thiol-specific electrophile resistance mechanisms in Bacillus subtilis. Expert Rev Proteomics.2008 Feb;5(1):77-90. PMID: 18282125.

Galka F, Wai SN, Kusch H, Engelmann S, Hecker M, Schmeck B, Hippenstiel S, Uhlin BE, Steinert M. Proteomic characterization of the whole secretome of Legionella pneumophila and functional analysis of outer membrane vesicles. Infect Immun.2008 May;76(5):1825-36. PMID: 18250176.

Grimm M, Stephan R, Iversen C, Manzardo GG, Rattei T, Riedel K, Ruepp A, Frishman D, Lehner A. Cellulose as an extracellular matrix component present in Enterobacter sakazakii biofilms. J Food Prot.2008 Jan;71(1):13-8. PMID: 18236657.

Hain T, Hossain H, Chatterjee SS, Machata S, Volk U, Wagner S, Brors B, Haas S, Kuenne CT, Billion A, Otten S, Pane-Farre J, Engelmann S, Chakraborty T. Temporal transcriptomic analysis of the Listeria monocytogenes EGD-e sigmaB regulon. BMC Microbiol.2008 Jan 28;8:20. PMID: 18226246.

Pioch D, Jürgen B, Evers S, Maurer KH, Hecker M, Schweder T. Improved sandwich-hybridization assay for an electrical DNA-chip-based monitoring of bioprocess-relevant marker genes. Appl Microbiol Biotechnol.2008 Mar;78(4):719-28. PMID: 18214470.

Leelakriangsak M, Huyen NT, Töwe S, van Duy N, Becher D, Hecker M, Antelmann H, Zuber P. Regulation of quinone detoxification by the thiol stress sensing DUF24/MarR-like repressor, YodB in Bacillus subtilis. Mol Microbiol.2008 Mar;67(5):1108-24. PMID: 18208493.

Hecker M, Pané-Farré J, Völker U. SigB-dependent general stress response in Bacillus subtilis and related gram-positive bacteria. Annu Rev Microbiol.2007;61:215-36. PMID: 18035607.

Gerth U, Kock H, Kusters I, Michalik S, Switzer RL, Hecker M. Clp-dependent proteolysis down-regulates central metabolic pathways in glucose-starved Bacillus subtilis. J Bacteriol.2008 Jan;190(1):321-31. PMID: 17981983.

De Buck E, Höper D, Lammertyn E, Hecker M, Anné J. Differential 2-D protein gel electrophoresis analysis of Legionella pneumophila wild type and Tat secretion mutants. Int J Med Microbiol.2008 Jul;298(5-6):449-61. PMID: 17723319.

Kusch H, Engelmann S, Bode R, Albrecht D, Morschhäuser J, Hecker M. A proteomic view of Candida albicans yeast cell metabolism in exponential and stationary growth phases. Int J Med Microbiol.2008 Apr;298(3-4):291-318. PMID: 17588813.

2007

Sokol PA, Malott RJ, Riedel K, Eberl L. Communication systems in the genus Burkholderia: global regulators and targets for novel antipathogenic drugs. Future Microbiol.2007 Oct;2(5):555-63. PMID: 17927476.

Eymann C, Becher D, Bernhardt J, Gronau K, Klutzny A, Hecker M. Dynamics of protein phosphorylation on Ser/Thr/Tyr in Bacillus subtilis. 2007 Oct;7(19):3509-26. PMID: 17726680.

Schwarz R, Liang C, Kaleta C, Kühnel M, Hoffmann E, Kuznetsov S, Hecker M, Griffiths G, Schuster S, Dandekar T. Integrated network reconstruction, visualization and analysis using YANAsquare. BMC Bioinformatics.2007 Aug 28;8:313. PMID: 17725829.

Töwe S, Leelakriangsak M, Kobayashi K, Van Duy N, Hecker M, Zuber P, Antelmann H. 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.2007 Oct;66(1):40-54. PMID: 17725564.

Berth M, Moser FM, Kolbe M, Bernhardt J. The state of the art in the analysis of two-dimensional gel electrophoresis images. Appl Microbiol Biotechnol.2007 Oct;76(6):1223-43. PMID: 17713763.

Hochgräfe F, Mostertz J, Pöther DC, Becher D, Helmann JD, Hecker M. S-cysteinylation is a general mechanism for thiol protection of Bacillus subtilis proteins after oxidative stress. J Biol Chem.2007 Sep 7;282(36):25981-5. PMID: 17611193.

Hyyryläinen HL, Pietiäinen M, Lundén T, Ekman A, Gardemeister M, Murtomäki-Repo S, Antelmann H, Hecker M, Valmu L, Sarvas M, Kontinen VP. The density of negative charge in the cell wall influences two-component signal transduction in Bacillus subtilis. 2007 Jul;153(Pt 7):2126-36. PMID: 17600057.

Brüsehaber E, Böttcher D, Musidlowska-Persson A, Albrecht D, Hecker M, Doderer K, Bornscheuer UT. Identification of pig liver esterase variants by tandem mass spectroscopy analysis and their characterization. Appl Microbiol Biotechnol.2007 Sep;76(4):853-9. PMID: 17593363.

Reeves A, Gerth U, Völker U, Haldenwang WG. ClpP modulates the activity of the Bacillus subtilis stress response transcription factor, sigmaB. J Bacteriol.2007 Sep;189(17):6168-75. PMID: 17586624.

Halbedel S, Eilers H, Jonas B, Busse J, Hecker M, Engelmann S, Stülke J. Transcription in Mycoplasma pneumoniae: analysis of the promoters of the ackA and ldh genes. J Mol Biol.2007 Aug 17;371(3):596-607. PMID: 17586527.

Becker K, Bierbaum G, von Eiff C, Engelmann S, Götz F, Hacker J, Hecker M, Peters G, Rosenstein R, Ziebuhr W. Understanding the physiology and adaptation of staphylococci: a post-genomic approach. Int J Med Microbiol.2007 Nov;297(7-8):483-501. PMID: 17581783.

Nguyen VD, Wolf C, Mäder U, Lalk M, Langer P, Lindequist U, Hecker M, 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. 2007 May;7(9):1391-408. PMID: 17407181.

Krick A, Kehraus S, Eberl L, Riedel K, Anke H, Kaesler I, Graeber I, Szewzyk U, König GM. A marine Mesorhizobium sp. produces structurally novel long-chain N-acyl-L-homoserine lactones. Appl Environ Microbiol.2007 Jun;73(11):3587-94. PMID: 17400774.

Luo Y, Vilain S, Voigt B, Albrecht D, Hecker M, Brözel VS. Proteomic analysis of Bacillus cereus growing in liquid soil organic matter. FEMS Microbiol Lett.2007 Jun;271(1):40-7. PMID: 17391366.

Fuchs S, Pané-Farré J, Kohler C, Hecker M, Engelmann S. Anaerobic gene expression in Staphylococcus aureus. J Bacteriol.2007 Jun;189(11):4275-89. PMID: 17384184.

Riedel K, Lehner A. Identification of proteins involved in osmotic stress response in Enterobacter sakazakii by proteomics. 2007 Apr;7(8):1217-31. PMID: 17380534.

Kirstein J, Dougan DA, Gerth U, Hecker M, Turgay K. The tyrosine kinase McsB is a regulated adaptor protein for ClpCP. EMBO J.2007 Apr 18;26(8):2061-70. PMID: 17380125.

Ozcan S, Yildirim V, Kaya L, Albrecht D, Becher D, Hecker M, Ozcengiz G. Phanerochaete chrysosporium soluble proteome as a prelude for the analysis of heavy metal stress response. 2007 Apr;7(8):1249-60. PMID: 17366474.

Hardwick SW, Pané-Farré J, Delumeau O, Marles-Wright J, Murray JW, Hecker M, Lewis RJ. Structural and functional characterization of partner switching regulating the environmental stress response in Bacillus subtilis. J Biol Chem.2007 Apr 13;282(15):11562-72. PMID: 17303566.

Duy NV, Mäder U, Tran NP, Cavin JF, Tam le T, Albrecht D, Hecker M, Antelmann H. The proteome and transcriptome analysis of Bacillus subtilis in response to salicylic acid. 2007 Mar;7(5):698-710. PMID: 17295427.

Kusch H, Engelmann S, Albrecht D, Morschhäuser J, Hecker M. Proteomic analysis of the oxidative stress response in Candida albicans. 2007 Mar;7(5):686-97. PMID: 17285563.

Voigt B, Hoi le T, Jürgen B, Albrecht D, Ehrenreich A, Veith B, Evers S, Maurer KH, Hecker M, Schweder T. The glucose and nitrogen starvation response of Bacillus licheniformis. 2007 Feb;7(3):413-23. PMID: 17274076.

Antelmann H, Töwe S, Albrecht D, Hecker M. The phosphorus source phytate changes the composition of the cell wall proteome in Bacillus subtilis. J Proteome Res.2007 Feb;6(2):897-903. PMID: 17269748.

Markert S, Arndt C, Felbeck H, Becher D, Sievert SM, Hügler M, Albrecht D, Robidart J, Bench S, Feldman RA, Hecker M, Schweder T. Physiological proteomics of the uncultured endosymbiont of Riftia pachyptila. 2007 Jan 12;315(5809):247-50. PMID: 17218528.

Bandow JE, Hecker M. Proteomic profiling of cellular stresses in Bacillus subtilis reveals cellular networks and assists in elucidating antibiotic mechanisms of action. Prog Drug Res.2007;64:79, 81-101. PMID: 17195472.

Tam le T, Eymann C, Antelmann H, Albrecht D, 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.2007;12(1-2):121-30. PMID: 17183219.

Darmon E, Dorenbos R, Meens J, Freudl R, Antelmann H, Hecker M, Kuipers OP, Bron S, Quax WJ, Dubois JY, van Dijl JM. A disulfide bond-containing alkaline phosphatase triggers a BdbC-dependent secretion stress response in Bacillus subtilis. Appl Environ Microbiol.2006 Nov;72(11):6876-85. PMID: 17088376.

Rogasch K, Rühmling V, Pané-Farré J, Höper D, Weinberg C, Fuchs S, Schmudde M, Bröker BM, Wolz C, Hecker M, Engelmann S. Influence of the two-component system SaeRS on global gene expression in two different Staphylococcus aureus strains. J Bacteriol.2006 Nov;188(22):7742-58. PMID: 17079681.

Wolff S, Antelmann H, Albrecht D, Becher D, Bernhardt J, Bron S, Büttner K, van Dijl JM, Eymann C, Otto A, Tam le T, Hecker M. Towards the entire proteome of the model bacterium Bacillus subtilis by gel-based and gel-free approaches. J Chromatogr B Analyt Technol Biomed Life Sci.2007 Apr 15;849(1-2):129-40. PMID: 17055787.

Borriss M, Lombardot T, Glöckner FO, Becher D, Albrecht D, Schweder T. Genome and proteome characterization of the psychrophilic Flavobacterium bacteriophage 11b. Extremophiles.2007 Jan;11(1):95-104. PMID: 16932843.

2006

Sibbald MJ, Ziebandt AK, Engelmann S, Hecker M, de Jong A, Harmsen HJ, Raangs GC, Stokroos I, Arends JP, Dubois JY, van Dijl JM. Mapping the pathways to staphylococcal pathogenesis by comparative secretomics. Microbiol Mol Biol Rev.2006 Sep;70(3):755-88. PMID: 16959968.

Silbersack J, Jürgen B, Hecker M, Schneidinger B, Schmuck R, Schweder T. An acetoin-regulated expression system of Bacillus subtilis. Appl Microbiol Biotechnol.2006 Dec;73(4):895-903. PMID: 16944132.

Antelmann H, Van Dijl JM, Bron S, Hecker M. Proteomic survey through secretome of Bacillus subtilis. Methods Biochem Anal.2006;49:179-208. PMID: 16929680.

Kay E, Humair B, Dénervaud V, Riedel K, Spahr S, Eberl L, Valverde C, Haas D. Two GacA-dependent small RNAs modulate the quorum-sensing response in Pseudomonas aeruginosa. J Bacteriol.2006 Aug;188(16):6026-33. PMID: 16885472.

Tam le T, Eymann C, Albrecht D, Sietmann R, Schauer F, Hecker M, Antelmann H. Differential gene expression in response to phenol and catechol reveals different metabolic activities for the degradation of aromatic compounds in Bacillus subtilis. Environ Microbiol.2006 Aug;8(8):1408-27. PMID: 16872404.

Lioy VS, Martín MT, Camacho AG, Lurz R, Antelmann H, Hecker M, Hitchin E, Ridge Y, Wells JM, Alonso JC. pSM19035-encoded zeta toxin induces stasis followed by death in a subpopulation of cells. 2006 Aug;152(Pt 8):2365-79. PMID: 16849801.

Tam le T, Antelmann H, Eymann C, Albrecht D, Bernhardt J, Hecker M. Proteome signatures for stress and starvation in Bacillus subtilis as revealed by a 2-D gel image color coding approach. 2006 Aug;6(16):4565-85. PMID: 16847875.

Linsen L, Löcherbach J, Berth M, Becher D, Bernhardt J. Visual analysis of gel-free proteome data. IEEE Trans Vis Comput Graph.2006 Jul-Aug;12(4):497-508. PMID: 16805259.

Pamp SJ, Frees D, Engelmann S, Hecker M, Ingmer H. Spx is a global effector impacting stress tolerance and biofilm formation in Staphylococcus aureus. J Bacteriol.2006 Jul;188(13):4861-70. PMID: 16788195.

Miethke M, Hecker M, Gerth U. Involvement of Bacillus subtilis ClpE in CtsR degradation and protein quality control. J Bacteriol.2006 Jul;188(13):4610-9. PMID: 16788169.

Meyer zu Schwabedissen HE, Dreisbach A, Hammer E, Fusch C, Hecker M, Völker U, Kroemer HK. 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.2006 Jun;16(6):385-9. PMID: 16708047.

Hoi le T, Voigt B, Jürgen B, Ehrenreich A, Gottschalk G, Evers S, Feesche J, Maurer KH, Hecker M, Schweder T. The phosphate-starvation response of Bacillus licheniformis. 2006 Jun;6(12):3582-601. PMID: 16705752.

Zanen G, Antelmann H, Meima R, Jongbloed JD, Kolkman M, Hecker M, van Dijl JM, Quax WJ. Proteomic dissection of potential signal recognition particle dependence in protein secretion by Bacillus subtilis. 2006 Jun;6(12):3636-48. PMID: 16705751.

Batzilla CF, Rachid S, Engelmann S, Hecker M, Hacker J, Ziebuhr W. Impact of the accessory gene regulatory system (Agr) on extracellular proteins, codY expression and amino acid metabolism in Staphylococcus epidermidis. 2006 Jun;6(12):3602-13. PMID: 16691552.

Ollinger J, Song KB, Antelmann H, Hecker M, Helmann JD. Role of the Fur regulon in iron transport in Bacillus subtilis. J Bacteriol.2006 May;188(10):3664-73. PMID: 16672620.

Pané-Farré J, Jonas B, Förstner K, Engelmann S, Hecker M. The sigmaB regulon in Staphylococcus aureus and its regulation. Int J Med Microbiol.2006 Aug;296(4-5):237-58. PMID: 16644280.

Holtfreter S, Roschack K, Eichler P, Eske K, Holtfreter B, Kohler C, Engelmann S, Hecker M, Greinacher A, Broker BM. Staphylococcus aureus carriers neutralize superantigens by antibodies specific for their colonizing strain: a potential explanation for their improved prognosis in severe sepsis. J Infect Dis.2006 May 1;193(9):1275-8. PMID: 16586365.

Lehner A, Riedel K, Rattei T, Ruepp A, Frishman D, Breeuwer P, Diep B, Eberl L, Stephan R. Molecular characterization of the alpha-glucosidase activity in Enterobacter sakazakii reveals the presence of a putative gene cluster for palatinose metabolism. Syst Appl Microbiol.2006 Dec;29(8):609-25. PMID: 16563686.

Wolff S, Otto A, Albrecht D, Zeng JS, Büttner K, Glückmann M, Hecker M, Becher D. Gel-free and gel-based proteomics in Bacillus subtilis: a comparative study. Mol Cell Proteomics.2006 Jul;5(7):1183-92. PMID: 16552027.

Mattow J, Siejak F, Hagens K, Becher D, Albrecht D, Krah A, Schmidt F, Jungblut PR, Kaufmann SH, Schaible UE. Proteins unique to intraphagosomally grown Mycobacterium tuberculosis. 2006 Apr;6(8):2485-94. PMID: 16548060.

Höper D, Bernhardt J, Hecker M. Salt stress adaptation of Bacillus subtilis: a physiological proteomics approach. 2006 Mar;6(5):1550-62. PMID: 16440371.

Riedel K, Köthe M, Kramer B, Saeb W, Gotschlich A, Ammendola A, Eberl L. Computer-aided design of agents that inhibit the cep quorum-sensing system of Burkholderia cenocepacia. Antimicrob Agents Chemother.2006 Jan;50(1):318-23. PMID: 16377703.

Bernhardt J. Defining the proteome. Genome Biol.2005;6(12):360. PMID: 16356278.

Sietmann R, Gesell M, Hammer E, Schauer F. Oxidative ring cleavage of low chlorinated biphenyl derivatives by fungi leads to the formation of chlorinated lactone derivatives. 2006 Jul;64(4):672-85. PMID: 16352329.

Voigt B, Schweder T, Sibbald MJ, Albrecht D, Ehrenreich A, Bernhardt J, Feesche J, Maurer KH, Gottschalk G, van Dijl JM, Hecker M. The extracellular proteome of Bacillus licheniformis grown in different media and under different nutrient starvation conditions. Proteomics.2006 Jan;6(1):268-81. PMID: 16317772.

2005 and before

Kohler C, Wolff S, Albrecht D, Fuchs S, Becher D, Büttner K, Engelmann S, Hecker M. Proteome analyses of Staphylococcus aureus in growing and non-growing cells: a physiological approach. Int J Med Microbiol.2005 Dec;295(8):547-65. PMID: 16325551.

Pané-Farré J, Lewis RJ, Stülke J. The RsbRST stress module in bacteria: a signalling system that may interact with different output modules. J Mol Microbiol Biotechnol.2005;9(2):65-76. PMID: 16319496.

Lehner A, Riedel K, Eberl L, Breeuwer P, Diep B, Stephan R. Biofilm formation, extracellular polysaccharide production, and cell-to-cell signaling in various Enterobacter sakazakii strains: aspects promoting environmental persistence. J Food Prot.2005 Nov;68(11):2287-94. PMID: 16300064.

Riedel K, Carranza P, Gehrig P, Potthast F, Eberl L. Towards the proteome of Burkholderia cenocepacia H111: setting up a 2-DE reference map. 2006 Jan;6(1):207-16. PMID: 16294309.

Hochgräfe F, Mostertz J, Albrecht D, Hecker M. Fluorescence thiol modification assay: oxidatively modified proteins in Bacillus subtilis. Mol Microbiol.2005 Oct;58(2):409-25. PMID: 16194229.

Jürgen B, Barken KB, Tobisch S, Pioch D, Wümpelmann M, Hecker M, Schweder T. Application of an electric DNA-chip for the expression analysis of bioprocess-relevant marker genes of Bacillus subtilis. Biotechnol Bioeng.2005 Nov 5;92(3):299-307. PMID: 16180240.

Jürgen B, Tobisch S, Wümpelmann M, Gördes D, Koch A, Thurow K, Albrecht D, Hecker M, Schweder T. Global expression profiling of Bacillus subtilis cells during industrial-close fed-batch fermentations with different nitrogen sources. Biotechnol Bioeng.2005 Nov 5;92(3):277-98. PMID: 16178035.

Kirstein J, Zühlke D, Gerth U, Turgay K, Hecker M. A tyrosine kinase and its activator control the activity of the CtsR heat shock repressor in B. subtilis. EMBO J.2005 Oct 5;24(19):3435-45. PMID: 16163393.

Antelmann H, Williams RC, Miethke M, Wipat A, Albrecht D, Harwood CR, Hecker M. The extracellular and cytoplasmic proteomes of the non-virulent Bacillus anthracis strain UM23C1-2. 2005 Sep;5(14):3684-95. PMID: 16121336.

Völker U, Hecker M. From genomics via proteomics to cellular physiology of the Gram-positive model organism Bacillus subtilis. Cell Microbiol.2005 Aug;7(8):1077-85. PMID: 16008575.

Arevalo-Ferro C, Reil G, Görg A, Eberl L, Riedel K. Biofilm formation of Pseudomonas putida IsoF: the role of quorum sensing as assessed by proteomics. Syst Appl Microbiol.2005 Mar;28(2):87-114. PMID: 15830802.

Westers H, Braun PG, Westers L, Antelmann H, Hecker M, Jongbloed JD, Yoshikawa H, Tanaka T, van Dijl JM, Quax WJ. Genes involved in SkfA killing factor production protect a Bacillus subtilis lipase against proteolysis. Appl Environ Microbiol.2005 Apr;71(4):1899-908. PMID: 15812018.

Koburger T, Weibezahn J, Bernhardt J, Homuth G, Hecker M. Genome-wide mRNA profiling in glucose starved Bacillus subtilis cells. Mol Genet Genomics.2005 Aug;274(1):1-12. PMID: 15809868.

Höper D, Völker U, Hecker M. Comprehensive characterization of the contribution of individual SigB-dependent general stress genes to stress resistance of Bacillus subtilis. J Bacteriol.2005 Apr;187(8):2810-26. PMID: 15805528.

Wesche J, Hammer E, Becher D, Burchhardt G, Schauer F. The bphC gene-encoded 2,3-dihydroxybiphenyl-1,2-dioxygenase is involved in complete degradation of dibenzofuran by the biphenyl-degrading bacterium Ralstonia sp. SBUG 290. J Appl Microbiol.2005;98(3):635-45. PMID: 15715866.

Augstein P, Bahr J, Wachlin G, Heinke P, Berg S, Salzsieder E, Harrison LC. Cytokines activate caspase-3 in insulinoma cells of diabetes-prone NOD mice directly and via upregulation of Fas. J Autoimmun.2004 Dec;23(4):301-9. PMID: 15571924.

Huber B, Feldmann F, Köthe M, Vandamme P, Wopperer J, Riedel K, Eberl L. Identification of a novel virulence factor in Burkholderia cenocepacia H111 required for efficient slow killing of Caenorhabditis elegans. Infect Immun.2004 Dec;72(12):7220-30. PMID: 15557647.

Rosen R, Becher D, Büttner K, Biran D, Hecker M, Ron EZ. Probing the active site of homoserine trans-succinylase. FEBS Lett.2004 Nov 19;577(3):386-92. PMID: 15556615.

Jongbloed JD, Grieger U, Antelmann H, Hecker M, Nijland R, Bron S, van Dijl JM. Two minimal Tat translocases in Bacillus. Mol Microbiol.2004 Dec;54(5):1319-25. PMID: 15554971.

Hecker M, Völker U. Towards a comprehensive understanding of Bacillus subtilis cell physiology by physiological proteomics. 2004 Dec;4(12):3727-50. PMID: 15540212.

Rosen R, Becher D, Büttner K, Biran D, Hecker M, Ron EZ. Highly phosphorylated bacterial proteins. 2004 Oct;4(10):3068-77. PMID: 15378765.

Eymann C, Dreisbach A, Albrecht D, Bernhardt J, Becher D, Gentner S, Tam le T, Büttner K, Buurman G, Scharf C, Venz S, Völker U, Hecker M. A comprehensive proteome map of growing Bacillus subtilis cells. 2004 Oct;4(10):2849-76. PMID: 15378759.

Ziebandt AK, Becher D, Ohlsen K, Hacker J, Hecker M, Engelmann S. The influence of agr and sigmaB in growth phase dependent regulation of virulence factors in Staphylococcus aureus. 2004 Oct;4(10):3034-47. PMID: 15378746.

Zanen G, Antelmann H, Westers H, Hecker M, van Dijl JM, Quax WJ. FlhF, the third signal recognition particle-GTPase of Bacillus subtilis, is dispensable for protein secretion. J Bacteriol.2004 Sep;186(17):5956-60. PMID: 15317803.

Kock H, Gerth U, Hecker M. The ClpP peptidase is the major determinant of bulk protein turnover in Bacillus subtilis. J Bacteriol.2004 Sep;186(17):5856-64. PMID: 15317791.

Allenby NE, O’Connor N, Prágai Z, Carter NM, Miethke M, Engelmann S, Hecker M, Wipat A, Ward AC, Harwood CR. Post-transcriptional regulation of the Bacillus subtilis pst operon encoding a phosphate-specific ABC transporter. 2004 Aug;150(Pt 8):2619-28. PMID: 15289558.

Antelmann H, Sapolsky R, Miller B, Ferrari E, Chotani G, Weyler W, Gaertner A, Hecker M. Quantitative proteome profiling during the fermentation process of pleiotropic Bacillus subtilis mutants. 2004 Aug;4(8):2408-24. PMID: 15274136.

Schweder T, Hecker M. Monitoring of stress responses. Adv Biochem Eng Biotechnol.2004;89:47-71. PMID: 15217155.

Rasch M, Buch C, Austin B, Slierendrecht WJ, Ekmann KS, Larsen JL, Johansen C, Riedel K, Eberl L, Givskov M, Gram L. An inhibitor of bacterial quorum sensing reduces mortalities caused by Vibriosis in rainbow trout (Oncorhynchus mykiss, Walbaum). Syst Appl Microbiol.2004 May;27(3):350-9. PMID: 15214641.

Voigt B, Schweder T, Becher D, Ehrenreich A, Gottschalk G, Feesche J, Maurer KH, Hecker M. A proteomic view of cell physiology of Bacillus licheniformis. 2004 May;4(5):1465-90. PMID: 15188415.

Arevalo-Ferro C, Buschmann J, Reil G, Görg A, Wiehlmann L, Tümmler B, Eberl L, Riedel K. Proteome analysis of intraclonal diversity of two Pseudomonas aeruginosa TB clone isolates. 2004 May;4(5):1241-6. PMID: 15188392.

Tjalsma H, Antelmann H, Jongbloed JD, Braun PG, Darmon E, Dorenbos R, Dubois JY, Westers H, Zanen G, Quax WJ, Kuipers OP, Bron S, Hecker M, van Dijl JM. Proteomics of protein secretion by Bacillus subtilis: separating the “secrets” of the secretome. Microbiol Mol Biol Rev.2004 Jun;68(2):207-33. PMID: 15187182.

Kusch H, Biswas K, Schwanfelder S, Engelmann S, Rogers PD, Hecker M, Morschhäuser J. A proteomic approach to understanding the development of multidrug-resistant Candida albicans strains. Mol Genet Genomics.2004 Jun;271(5):554-65. PMID: 15114480.

Mäder U, Hennig S, Hecker M, Homuth G. Transcriptional organization and posttranscriptional regulation of the Bacillus subtilis branched-chain amino acid biosynthesis genes. J Bacteriol.2004 Apr;186(8):2240-52. PMID: 15060025.

Weber H, Engelmann S, Becher D, Hecker M. Oxidative stress triggers thiol oxidation in the glyceraldehyde-3-phosphate dehydrogenase of Staphylococcus aureus. Mol Microbiol.2004 Apr;52(1):133-40. PMID: 15049816.

Rosen R, Sacher A, Shechter N, Becher D, Büttner K, Biran D, Hecker M, Ron EZ. Two-dimensional reference map of Agrobacterium tumefaciens proteins. 2004 Apr;4(4):1061-73. PMID: 15048987.

Vitikainen M, Lappalainen I, Seppala R, Antelmann H, Boer H, Taira S, Savilahti H, Hecker M, Vihinen M, Sarvas M, Kontinen VP. 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.2004 Apr 30;279(18):19302-14. PMID: 14976191.

Sender U, Bandow J, Engelmann S, Lindequist U, Hecker M. Proteomic signatures for daunomycin and adriamycin in Bacillus subtilis. 2004 Jan;59(1):65-70. PMID: 14964425.

Mostertz J, Scharf C, Hecker M, Homuth G. Transcriptome and proteome analysis of Bacillus subtilis gene expression in response to superoxide and peroxide stress. 2004 Feb;150(Pt 2):497-512. PMID: 14766928.

Kock H, Gerth U, Hecker M. MurAA, catalysing the first committed step in peptidoglycan biosynthesis, is a target of Clp-dependent proteolysis in Bacillus subtilis. Mol Microbiol.2004 Feb;51(4):1087-102. PMID: 14763982.

Brandt R, 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.2004 Jan 22;1670(2):132-6. PMID: 14738996.

Gerth U, Kirstein J, Mostertz J, Waldminghaus T, Miethke M, Kock H, Hecker M. Fine-tuning in regulation of Clp protein content in Bacillus subtilis. J Bacteriol.2004 Jan;186(1):179-91. PMID: 14679237.

Arevalo-Ferro C, Hentzer M, Reil G, Görg A, Kjelleberg S, Givskov M, Riedel K, Eberl L. Identification of quorum-sensing regulated proteins in the opportunistic pathogen Pseudomonas aeruginosa by proteomics. Environ Microbiol.2003 Dec;5(12):1350-69. PMID: 14641579.

Kohler C, von Eiff C, Peters G, Proctor RA, Hecker M, Engelmann S. Physiological characterization of a heme-deficient mutant of Staphylococcus aureus by a proteomic approach. J Bacteriol.2003 Dec;185(23):6928-37. PMID: 14617657.

Schröder D, Wachlin G, Klöting I, Schmidt S. Cytokine sensitivity of Langerhans’ islets of diabetes-prone BB/OK rats under hypoglycemic conditions. 2003 Jun;36(4):211-9. PMID: 14563014.

Krah A, Schmidt F, Becher D, Schmid M, Albrecht D, Rack A, Büttner K, Jungblut PR. Analysis of automatically generated peptide mass fingerprints of cellular proteins and antigens from Helicobacter pylori 26695 separated by two-dimensional electrophoresis. Mol Cell Proteomics.2003 Dec;2(12):1271-83. PMID: 14519719.

Westers H, Dorenbos R, van Dijl JM, Kabel J, Flanagan T, Devine KM, Jude F, Seror SJ, Beekman AC, Darmon E, Eschevins C, de Jong A, Bron S, Kuipers OP, Albertini AM, Antelmann H, Hecker M, Zamboni N, Sauer U, Bruand C, Ehrlich DS, Alonso JC, Salas M, Quax WJ. Genome engineering reveals large dispensable regions in Bacillus subtilis. Mol Biol Evol.2003 Dec;20(12):2076-90. PMID: 12949151.

Hecker M. A proteomic view of cell physiology of Bacillus subtilis–bringing the genome sequence to life. Adv Biochem Eng Biotechnol.2003;83:57-92. PMID: 12934926.

Hentzer M, Wu H, Andersen JB, Riedel K, Rasmussen TB, Bagge N, Kumar N, Schembri MA, Song Z, Kristoffersen P, Manefield M, Costerton JW, Molin S, Eberl L, Steinberg P, Kjelleberg S, Høiby N, Givskov M. Attenuation of Pseudomonas aeruginosa virulence by quorum sensing inhibitors. EMBO J.2003 Aug 1;22(15):3803-15. PMID: 12881415.

Luhn S, Berth M, Hecker M, Bernhardt J. Using standard positions and image fusion to create proteome maps from collections of two-dimensional gel electrophoresis images. 2003 Jul;3(7):1117-27. PMID: 12872213.

Blencke HM, Homuth G, Ludwig H, Mäder U, Hecker M, Stülke J. Transcriptional profiling of gene expression in response to glucose in Bacillus subtilis: regulation of the central metabolic pathways. Metab Eng.2003 Apr;5(2):133-49. PMID: 12850135.

Mostertz J, Hecker M. Patterns of protein carbonylation following oxidative stress in wild-type and sigB Bacillus subtilis cells. Mol Genet Genomics.2003 Aug;269(5):640-8. PMID: 12845527.

Antelmann H, Darmon E, Noone D, Veening JW, Westers H, Bron S, Kuipers OP, Devine KM, Hecker M, van Dijl JM. The extracellular proteome of Bacillus subtilis under secretion stress conditions. Mol Microbiol.2003 Jul;49(1):143-56. PMID: 12823817.

Wachlin G, Augstein P, Schröder D, Kuttler B, Klöting I, Heinke P, Schmidt S. IL-1beta, IFN-gamma and TNF-alpha increase vulnerability of pancreatic beta cells to autoimmune destruction. J Autoimmun.2003 Jun;20(4):303-12. PMID: 12791316.

Rosen R, Matthysse AG, Becher D, Biran D, Yura T, Hecker M, Ron EZ. Proteome analysis of plant-induced proteins of Agrobacterium tumefaciens. FEMS Microbiol Ecol.2003 Jun 1;44(3):355-60. PMID: 19719616.

Augstein P, Dunger A, Heinke P, Wachlin G, Berg S, Hehmke B, Salzsieder E. Prevention of autoimmune diabetes in NOD mice by troglitazone is associated with modulation of ICAM-1 expression on pancreatic islet cells and IFN-gamma expression in splenic T cells. Biochem Biophys Res Commun.2003 May 2;304(2):378-84. PMID: 12711326.

Kobayashi K, Ehrlich SD, Albertini A, Amati G, Andersen KK, Arnaud M, Asai K, Ashikaga S, Aymerich S, Bessieres P, Boland F, Brignell SC, Bron S, Bunai K, Chapuis J, Christiansen LC, Danchin A, Débarbouille M, Dervyn E, Deuerling E, Devine K, Devine SK, Dreesen O, Errington J, Fillinger S, Foster SJ, Fujita Y, Galizzi A, Gardan R, Eschevins C, Fukushima T, Haga K, Harwood CR, Hecker M, Hosoya D, Hullo MF, Kakeshita H, Karamata D, Kasahara Y, Kawamura F, Koga K, Koski P, Kuwana R, Imamura D, Ishimaru M, Ishikawa S, Ishio I, Le Coq D, Masson A, Mauël C, Meima R, Mellado RP, Moir A, Moriya S, Nagakawa E, Nanamiya H, Nakai S, Nygaard P, Ogura M, Ohanan T, O’Reilly M, O’Rourke M, Pragai Z, Pooley HM, Rapoport G, Rawlins JP, Rivas LA, Rivolta C, Sadaie A, Sadaie Y, Sarvas M, Sato T, Saxild HH, Scanlan E, Schumann W, Seegers JF, Sekiguchi J, Sekowska A, Séror SJ, Simon M, Stragier P, Studer R, Takamatsu H, Tanaka T, Takeuchi M, Thomaides HB, Vagner V, van Dijl JM, Watabe K, Wipat A, Yamamoto H, Yamamoto M, Yamamoto Y, Yamane K, Yata K, Yoshida K, Yoshikawa H, Zuber U, Ogasawara N. Essential Bacillus subtilis genes. Proc Natl Acad Sci U S A.2003 Apr 15;100(8):4678-83. PMID: 12682299.

Augstein P, Wachlin G, Berg S, Bahr J, Salzsieder C, Hehmke B, Heinke P, Salzsieder E. Surface and intracellular Fas expression associated with cytokine-induced apoptosis in rodent islet and insulinoma cells. J Mol Endocrinol.2003 Apr;30(2):163-71. PMID: 12683940.

Hecker M, Engelmann S, Cordwell SJ. Proteomics of Staphylococcus aureus–current state and future challenges. J Chromatogr B Analyt Technol Biomed Life Sci.2003 Apr 5;787(1):179-95. PMID: 12659740.

Bandow JE, Becher D, Büttner K, Hochgräfe F, Freiberg C, Brötz H, Hecker M. The role of peptide deformylase in protein biosynthesis: a proteomic study. 2003 Mar;3(3):299-306. PMID: 12627383.

Christensen AB, Riedel K, Eberl L, Flodgaard LR, Molin S, Gram L, Givskov M. Quorum-sensing-directed protein expression in Serratia proteamaculans B5a. 2003 Feb;149(Pt 2):471-83. PMID: 12624209.

Leichert LI, Scharf C, Hecker M. Global characterization of disulfide stress in Bacillus subtilis. J Bacteriol.2003 Mar;185(6):1967-75. PMID: 12618461.

Bandow JE, Brötz H, Leichert LI, Labischinski H, Hecker M. Proteomic approach to understanding antibiotic action. Antimicrob Agents Chemother.2003 Mar;47(3):948-55. PMID: 12604526.

Riedel K, Arevalo-Ferro C, Reil G, Görg A, Lottspeich F, Eberl L. Analysis of the quorum-sensing regulon of the opportunistic pathogen Burkholderia cepacia H111 by proteomics. 2003 Feb;24(4):740-50. PMID: 12601746.

Wachlin G, Heine L, Klöting I, Dunger A, Hahn HJ, Schmidt S. Stress response of pancreatic islets from diabetes prone BB rats of different age. 2002 Sep;35(6):389-95. PMID: 12568119.

Bernhardt J, Weibezahn J, Scharf C, Hecker M. Bacillus subtilis during feast and famine: visualization of the overall regulation of protein synthesis during glucose starvation by proteome analysis. Genome Res.2003 Feb;13(2):224-37. PMID: 12566400.

Rollenhagen C, Antelmann H, Kirstein J, Delumeau O, Hecker M, Yudkin MD. Binding of sigma(A) and sigma(B) to core RNA polymerase after environmental stress in Bacillus subtilis. J Bacteriol.2003 Jan;185(1):35-40. PMID: 12486038.

Mäder U, Antelmann H, Buder T, Dahl MK, Hecker M, Homuth G. Bacillus subtilis functional genomics: genome-wide analysis of the DegS-DegU regulon by transcriptomics and proteomics. Mol Genet Genomics.2002 Dec;268(4):455-67. PMID: 12471443.

Steidle A, Allesen-Holm M, Riedel K, Berg G, Givskov M, Molin S, Eberl L. Identification and characterization of an N-acylhomoserine lactone-dependent quorum-sensing system in Pseudomonas putida strain IsoF. Appl Environ Microbiol.2002 Dec;68(12):6371-82. PMID: 12450862.

Sietmann R, Hammer E, Schauer F. Biotransformation of biarylic compounds by yeasts of the genus trichosporon. Syst Appl Microbiol.2002 Oct;25(3):332-9. PMID: 12421071.

Huber B, Riedel K, Köthe M, Givskov M, Molin S, Eberl L. Genetic analysis of functions involved in the late stages of biofilm development in Burkholderia cepacia H111. Mol Microbiol.2002 Oct;46(2):411-26. PMID: 12406218.

Jongbloed JD, Antelmann H, Hecker M, Nijland R, Bron S, Airaksinen U, Pries F, Quax WJ, van Dijl JM, Braun PG. Selective contribution of the twin-arginine translocation pathway to protein secretion in Bacillus subtilis. J Biol Chem.2002 Nov 15;277(46):44068-78. PMID: 12218047.

Lindner C, Hecker M, Le Coq D, Deutscher J. Bacillus subtilis mutant LicT antiterminators exhibiting enzyme I- and HPr-independent antitermination affect catabolite repression of the bglPH operon. J Bacteriol.2002 Sep;184(17):4819-28. PMID: 12169607.

van Dijl JM, Braun PG, Robinson C, Quax WJ, Antelmann H, Hecker M, Müller J, Tjalsma H, Bron S, Jongbloed JD. Functional genomic analysis of the Bacillus subtilis Tat pathway for protein secretion. J Biotechnol.2002 Sep 25;98(2-3):243-54. PMID: 12141990.

Mäder U, Homuth G, Scharf C, Büttner K, Bode R, Hecker M. Transcriptome and proteome analysis of Bacillus subtilis gene expression modulated by amino acid availability. J Bacteriol.2002 Aug;184(15):4288-95. PMID: 12107147.

Stope MB, Becher D, Hammer E, Schauer F. Cometabolic ring fission of dibenzofuran by Gram-negative and Gram-positive biphenyl-utilizing bacteria. Appl Microbiol Biotechnol.2002 Jun;59(1):62-7. PMID: 12073133.

Antelmann H, Yamamoto H, Sekiguchi J, Hecker M. Stabilization of cell wall proteins in Bacillus subtilis: a proteomic approach. 2002 May;2(5):591-602. PMID: 11987133.

Eymann C, Homuth G, Scharf C, Hecker M. Bacillus subtilis functional genomics: global characterization of the stringent response by proteome and transcriptome analysis. J Bacteriol.2002 May;184(9):2500-20. PMID: 11948165.

Dobrindt U, Piechaczek K, Schierhorn A, Fischer G, Hecker M, Hacker J. Influence of the leuX-encoded tRNA5(Leu) on the regulation of gene expression in pathogenic Escherichia coli. J Mol Microbiol Biotechnol.2002 May;4(3):205-9. PMID: 11931548.

Rosen R, Biran D, Gur E, Becher D, Hecker M, Ron EZ. Protein aggregation in Escherichia coli: role of proteases. FEMS Microbiol Lett.2002 Jan 22;207(1):9-12. PMID: 11886743.

Rosen R, Büttner K, Becher D, Nakahigashi K, Yura T, Hecker M, Ron EZ. Heat shock proteome of Agrobacterium tumefaciens: evidence for new control systems. J Bacteriol.2002 Mar;184(6):1772-8. PMID: 11872730.

Pummi T, Leskelä S, Wahlström E, Gerth U, Tjalsma H, Hecker M, Sarvas M, Kontinen VP. ClpXP protease regulates the signal peptide cleavage of secretory preproteins in Bacillus subtilis with a mechanism distinct from that of the Ecs ABC transporter. J Bacteriol.2002 Feb;184(4):1010-8. PMID: 11807061.

Hentzer M, Riedel K, Rasmussen TB, Heydorn A, Andersen JB, Parsek MR, Rice SA, Eberl L, Molin S, Høiby N, Kjelleberg S, Givskov M. Inhibition of quorum sensing in Pseudomonas aeruginosa biofilm bacteria by a halogenated furanone compound. 2002 Jan;148(Pt 1):87-102. PMID: 11782502.

Bandow JE, Brötz H, Hecker M. Bacillus subtilis tolerance of moderate concentrations of rifampin involves the sigma(B)-dependent general and multiple stress response. J Bacteriol.2002 Jan;184(2):459-67. PMID: 11751823.

Riedel K, Hentzer M, Geisenberger O, Huber B, Steidle A, Wu H, Høiby N, Givskov M, Molin S, Eberl L. N-acylhomoserine-lactone-mediated communication between Pseudomonas aeruginosa and Burkholderia cepacia in mixed biofilms. 2001 Dec;147(Pt 12):3249-62. PMID: 11739757.

Ziebandt AK, Weber H, Rudolph J, Schmid R, Höper D, Engelmann S, Hecker M. Extracellular proteins of Staphylococcus aureus and the role of SarA and sigma B. 2001 Apr;1(4):480-93. PMID: 11681202.

Büttner K, Bernhardt J, Scharf C, Schmid R, Mäder U, Eymann C, Antelmann H, Völker A, Völker U, Hecker M. A comprehensive two-dimensional map of cytosolic proteins of Bacillus subtilis. 2001 Aug;22(14):2908-35. PMID: 11565787.

Petersohn A, Brigulla M, Haas S, Hoheisel JD, Völker U, Hecker M. Global analysis of the general stress response of Bacillus subtilis. J Bacteriol.2001 Oct;183(19):5617-31. PMID: 11544224.

Antelmann H, Tjalsma H, Voigt B, Ohlmeier S, Bron S, van Dijl JM, Hecker M. A proteomic view on genome-based signal peptide predictions. Genome Res.2001 Sep;11(9):1484-502. PMID: 11544192.

Huber B, Riedel K, Hentzer M, Heydorn A, Gotschlich A, Givskov M, Molin S, Eberl L. The cep quorum-sensing system of Burkholderia cepacia H111 controls biofilm formation and swarming motility. 2001 Sep;147(Pt 9):2517-28. PMID: 11535791.

Sietmann R, Hammer E, Specht M, Cerniglia CE, Schauer F. Novel ring cleavage products in the biotransformation of biphenyl by the yeast Trichosporon mucoides. Appl Environ Microbiol.2001 Sep;67(9):4158-65. PMID: 11526019.

Ludwig H, Homuth G, Schmalisch M, Dyka FM, Hecker M, Stülke J. Transcription of glycolytic genes and operons in Bacillus subtilis: evidence for the presence of multiple levels of control of the gapA operon. Mol Microbiol.2001 Jul;41(2):409-22. PMID: 11489127.

Hecker M, Völker U. General stress response of Bacillus subtilis and other bacteria. Adv Microb Physiol.2001;44:35-91. PMID: 11407115.

Gotschlich A, Huber B, Geisenberger O, Tögl A, Steidle A, Riedel K, Hill P, Tümmler B, Vandamme P, Middleton B, Camara M, Williams P, Hardman A, Eberl L. Synthesis of multiple N-acylhomoserine lactones is wide-spread among the members of the Burkholderia cepacia complex. Syst Appl Microbiol.2001 Apr;24(1):1-14. PMID: 11403388.

Eymann C, Hecker M. Induction of sigma(B)-dependent general stress genes by amino acid starvation in a spo0H mutant of Bacillus subtilis. FEMS Microbiol Lett.2001 May 30;199(2):221-7. PMID: 11377871.

Jürgen B, Hanschke R, Sarvas M, Hecker M, Schweder T. Proteome and transcriptome based analysis of Bacillus subtilis cells overproducing an insoluble heterologous protein. Appl Microbiol Biotechnol.2001 Apr;55(3):326-32. PMID: 11341315.

Rosen R, Büttner K, Schmid R, Hecker M, Ron EZ. Stress-induced proteins of Agrobacterium tumefaciens. FEMS Microbiol Ecol.2001 May;35(3):277-285. PMID: 11311438.

Ohlmeier S, Scharf C, Hecker M. Alkaline proteins of Bacillus subtilis: first steps towards a two-dimensional alkaline master gel. 2000 Nov;21(17):3701-9. PMID: 11271489.

Eymann C, Mittenhuber G, Hecker M. The stringent response, sigmaH-dependent gene expression and sporulation in Bacillus subtilis. Mol Gen Genet.2001 Feb;264(6):913-23. PMID: 11254139.

Krüger E, Zühlke D, Witt E, Ludwig H, Hecker M. Clp-mediated proteolysis in Gram-positive bacteria is autoregulated by the stability of a repressor. EMBO J.2001 Feb 15;20(4):852-63. PMID: 11179229.

Enfors SO, Jahic M, Rozkov A, Xu B, Hecker M, Jürgen B, Krüger E, Schweder T, Hamer G, O’Beirne D, Noisommit-Rizzi N, Reuss M, Boone L, Hewitt C, McFarlane C, Nienow A, Kovacs T, Trägårdh C, Fuchs L, Revstedt J, Friberg PC, Hjertager B, Blomsten G, Skogman H, Hjort S, Hoeks F, Lin HY, Neubauer P, van der Lans R, Luyben K, Vrabel P, Manelius A. Physiological responses to mixing in large scale bioreactors. J Biotechnol.2001 Feb 13;85(2):175-85. PMID: 11165362.

Riedel K, Ohnesorg T, Krogfelt KA, Hansen TS, Omori K, Givskov M, Eberl L. N-acyl-L-homoserine lactone-mediated regulation of the lip secretion system in Serratia liquefaciens MG1. J Bacteriol.2001 Mar;183(5):1805-9. PMID: 11160117.

Zuber U, Drzewiecki K, Hecker M. Putative sigma factor SigI (YkoZ) of Bacillus subtilis is induced by heat shock. J Bacteriol.2001 Feb;183(4):1472-5. PMID: 11157964.

Dobrindt U, Janke B, Piechaczek K, Nagy G, Ziebuhr W, Fischer G, Schierhorn A, Hecker M, Blum-Oehler G, Hacker J. Toxin genes on pathogenicity islands: impact for microbial evolution. Int J Med Microbiol.2000 Oct;290(4-5):307-11. PMID: 11111903.

Gertz S, Engelmann S, Schmid R, Ziebandt AK, Tischer K, Scharf C, Hacker J, Hecker M. Characterization of the sigma(B) regulon in Staphylococcus aureus. J Bacteriol.2000 Dec;182(24):6983-91. PMID: 11092859.

Rachid S, Ohlsen K, Wallner U, Hacker J, Hecker M, Ziebuhr W. Alternative transcription factor sigma(B) is involved in regulation of biofilm expression in a Staphylococcus aureus mucosal isolate. J Bacteriol.2000 Dec;182(23):6824-6. PMID: 11073930.

Hecker M, Engelmann S. Proteomics, DNA arrays and the analysis of still unknown regulons and unknown proteins of Bacillus subtilis and pathogenic gram-positive bacteria. Int J Med Microbiol.2000 May;290(2):123-34. PMID: 11045917.

Piechaczek K, Dobrindt U, Schierhorn A, Fischer GS, Hecker M, Hacker J. Influence of pathogenicity islands and the minor leuX-encoded tRNA5Leu on the proteome pattern of the uropathogenic Escherichia coli strain 536. Int J Med Microbiol.2000 Mar;290(1):75-84. PMID: 11043984.

Lorenz U, Ohlsen K, Karch H, Hecker M, Thiede A, Hacker J. Human antibody response during sepsis against targets expressed by methicillin resistant Staphylococcus aureus. FEMS Immunol Med Microbiol.2000 Oct;29(2):145-53. PMID: 11024354.

Becher D, Specht M, Hammer E, Francke W, Schauer F. Cometabolic degradation of dibenzofuran by biphenyl-cultivated Ralstonia sp. strain SBUG 290. Appl Environ Microbiol.2000 Oct;66(10):4528-31. PMID: 11010910.

Jongbloed JD, Martin U, Antelmann H, Hecker M, Tjalsma H, Venema G, Bron S, van Dijl JM, Müller J. TatC is a specificity determinant for protein secretion via the twin-arginine translocation pathway. J Biol Chem.2000 Dec 29;275(52):41350-7. PMID: 11007775.

Jürgen B, Lin HY, Riemschneider S, Scharf C, Neubauer P, Schmid R, Hecker M, Schweder T. Monitoring of genes that respond to overproduction of an insoluble recombinant protein in Escherichia coli glucose-limited fed-batch fermentations. Biotechnol Bioeng.2000 Oct 20;70(2):217-24. PMID: 10972933.

Faires N, Tobisch S, Bachem S, Martin-Verstraete I, Hecker M, Stülke J. The catabolite control protein CcpA controls ammonium assimilation in Bacillus subtilis. J Mol Microbiol Biotechnol.1999 Aug;1(1):141-8. PMID: 10941796.

Antelmann H, Scharf C, Hecker M. Phosphate starvation-inducible proteins of Bacillus subtilis: proteomics and transcriptional analysis. J Bacteriol.2000 Aug;182(16):4478-90. PMID: 10913081.

Krüger E, Witt E, Ohlmeier S, Hanschke R, Hecker M. The clp proteases of Bacillus subtilis are directly involved in degradation of misfolded proteins. J Bacteriol.2000 Jun;182(11):3259-65. PMID: 10809708.

Geisenberger O, Givskov M, Riedel K, Høiby N, Tümmler B, Eberl L. Production of N-acyl-L-homoserine lactones by P. aeruginosa isolates from chronic lung infections associated with cystic fibrosis. FEMS Microbiol Lett.2000 Mar 15;184(2):273-8. PMID: 10713433.

Sietmann R, Hammer E, Moody J, Cerniglia CE, Schauer F. Hydroxylation of biphenyl by the yeast Trichosporon mucoides. Arch Microbiol.2000 Nov;174(5):353-61. PMID: 11131026.

Tobisch S, Zühlke D, Bernhardt J, Stülke J, Hecker M. Role of CcpA in regulation of the central pathways of carbon catabolism in Bacillus subtilis. J Bacteriol.1999 Nov;181(22):6996-7004. PMID: 10559165.

Petersohn A, Engelmann S, Setlow P, Hecker M. The katX gene of Bacillus subtilis is under dual control of sigmaB and sigmaF. Mol Gen Genet.1999 Aug;262(1):173-9. PMID: 10503549.

Bernhardt J, Büttner K, Scharf C, Hecker M. Dual channel imaging of two-dimensional electropherograms in Bacillus subtilis. 1999 Aug;20(11):2225-40. PMID: 10493127.

Petersohn A, Bernhardt J, Gerth U, Höper D, Koburger T, Völker U, Hecker M. Identification of sigma(B)-dependent genes in Bacillus subtilis using a promoter consensus-directed search and oligonucleotide hybridization. J Bacteriol.1999 Sep;181(18):5718-24. PMID: 10482513.

Schweder T, Krüger E, Xu B, Jürgen B, Blomsten G, Enfors SO, Hecker M. Monitoring of genes that respond to process-related stress in large-scale bioprocesses. Biotechnol Bioeng.1999 Oct 20;65(2):151-9. PMID: 10458735.

Tobisch S, Stülke J, Hecker M. Regulation of the lic operon of Bacillus subtilis and characterization of potential phosphorylation sites of the LicR regulator protein by site-directed mutagenesis. J Bacteriol.1999 Aug;181(16):4995-5003. PMID: 10438772.

Völker U, Maul B, Hecker M. Expression of the sigmaB-dependent general stress regulon confers multiple stress resistance in Bacillus subtilis. J Bacteriol.1999 Jul;181(13):3942-8. PMID: 10383961.

Schweder T, Kolyschkow A, Völker U, Hecker M. Analysis of the expression and function of the sigmaB-dependent general stress regulon of Bacillus subtilis during slow growth. Arch Microbiol.1999 May-Jun;171(6):439-43. PMID: 10369900.

Gertz S, Engelmann S, Schmid R, Ohlsen K, Hacker J, Hecker M. Regulation of sigmaB-dependent transcription of sigB and asp23 in two different Staphylococcus aureus strains. Mol Gen Genet.1999 Apr;261(3):558-66. PMID: 10323238.

Riedel K, Bronnenmeier K. Active-site mutations which change the substrate specificity of the Clostridium stercorarium cellulase CelZ implications for synergism. Eur J Biochem.1999 May;262(1):218-23. PMID: 10231384.

Petersohn A, Antelmann H, Gerth U, Hecker M. Identification and transcriptional analysis of new members of the sigmaB regulon in Bacillus subtilis. 1999 Apr;145 ( Pt 4):869-80. PMID: 10220166.

Lindner C, Galinier A, Hecker M, Deutscher J. Regulation of the activity of the Bacillus subtilis antiterminator LicT by multiple PEP-dependent, enzyme I- and HPr-catalysed phosphorylation. Mol Microbiol.1999 Feb;31(3):995-1006. PMID: 10048041.

Krüger E, Hecker M. The first gene of the Bacillus subtilis clpC operon, ctsR, encodes a negative regulator of its own operon and other class III heat shock genes. J Bacteriol.1998 Dec;180(24):6681-8. PMID: 9852015.

Drzewiecki K, Eymann C, Mittenhuber G, Hecker M. The yvyD gene of Bacillus subtilis is under dual control of sigmaB and sigmaH. J Bacteriol.1998 Dec;180(24):6674-80. PMID: 9852014.

Scheller U, Zimmer T, Becher D, Schauer F, Schunck WH. Oxygenation cascade in conversion of n-alkanes to alpha,omega-dioic acids catalyzed by cytochrome P450 52A3. J Biol Chem.1998 Dec 4;273(49):32528-34. PMID: 9829987.

Hecker M, Völker U. Non-specific, general and multiple stress resistance of growth-restricted Bacillus subtilis cells by the expression of the sigmaB regulon. Mol Microbiol.1998 Sep;29(5):1129-36. PMID: 9767581.

Völker U, Andersen KK, Antelmann H, Devine KM, Hecker M. One of two osmC homologs in Bacillus subtilis is part of the sigmaB-dependent general stress regulon. J Bacteriol.1998 Aug;180(16):4212-8. PMID: 9696771.

Riedel K, Ritter J, Bauer S, Bronnenmeier K. The modular cellulase CelZ of the thermophilic bacterium Clostridium stercorarium contains a thermostabilizing domain. FEMS Microbiol Lett.1998 Jul 15;164(2):261-7. PMID: 9682475.

Jürgen B, Schweder T, Hecker M. The stability of mRNA from the gsiB gene of Bacillus subtilis is dependent on the presence of a strong ribosome binding site. Mol Gen Genet.1998 Jun;258(5):538-45. PMID: 9669336.

Gerth U, Krüger E, Derré I, Msadek T, Hecker M. Stress induction of the Bacillus subtilis clpP gene encoding a homologue of the proteolytic component of the Clp protease and the involvement of ClpP and ClpX in stress tolerance. Mol Microbiol.1998 May;28(4):787-802. PMID: 9643546.

Riedel K, Bronnenmeier K. Intramolecular synergism in an engineered exo-endo-1,4-beta-glucanase fusion protein. Mol Microbiol.1998 May;28(4):767-75. PMID: 9643544.

Mogk A, Völker A, Engelmann S, Hecker M, Schumann W, Völker U. Nonnative proteins induce expression of the Bacillus subtilis CIRCE regulon. J Bacteriol.1998 Jun;180(11):2895-900. PMID: 9603878.

Scharf C, Riethdorf S, Ernst H, Engelmann S, Völker U, Hecker M. Thioredoxin is an essential protein induced by multiple stresses in Bacillus subtilis. J Bacteriol.1998 Apr;180(7):1869-77. PMID: 9537387.

Zverlov V, Mahr S, Riedel K, Bronnenmeier K. Properties and gene structure of a bifunctional cellulolytic enzyme (CelA) from the extreme thermophile ‘Anaerocellum thermophilum’ with separate glycosyl hydrolase family 9 and 48 catalytic domains. 1998 Feb;144 ( Pt 2):457-65. PMID: 9493383.

Antelmann H, Engelmann S, Schmid R, Sorokin A, Lapidus A, Hecker M. Expression of a stress- and starvation-induced dps/pexB-homologous gene is controlled by the alternative sigma factor sigmaB in Bacillus subtilis. J Bacteriol.1997 Dec;179(23):7251-6. PMID: 9393687.

Antelmann H, Schmid R, Hecker M. The NAD synthetase NadE (OutB) of Bacillus subtilis is a sigma B-dependent general stress protein. FEMS Microbiol Lett.1997 Aug 15;153(2):405-9. PMID: 9271869.

Antelmann H, Bernhardt J, Schmid R, Mach H, Völker U, Hecker M. First steps from a two-dimensional protein index towards a response-regulation map for Bacillus subtilis. 1997 Aug;18(8):1451-63. PMID: 9298659.

Krüger E, Msadek T, Ohlmeier S, Hecker M. The Bacillus subtilis clpC operon encodes DNA repair and competence proteins. 1997 Apr;143 ( Pt 4):1309-16. PMID: 9141693.

Bernhardt J, Völker U, Völker A, Antelmann H, Schmid R, Mach H, Hecker M. Specific and general stress proteins in Bacillus subtilis–a two-deimensional protein electrophoresis study. 1997 Mar;143(Pt 3):999-1017. PMID: 9296790.

Schmid R, Bernhardt J, Antelmann H, Völker A, Mach H, Völker U, Hecker M. Identification of vegetative proteins for a two-dimensional protein index of Bacillus subtilis. 1997 Mar;143 ( Pt 3):991-8. PMID: 9084183.

Bronnenmeier K, Kundt K, Riedel K, Schwarz WH, Staudenbauer WL. Structure of the Clostridium stercorarium gene celY encoding the exo-1,4-beta-glucanase Avicelase II. 1997 Mar;143 ( Pt 3):891-8. PMID: 9084173.

Büttner K, Pich A, Neubauer P, Schmid R, Bahl H, Hecker M. Copurification of ribosomal protein S2 and DNA-dependent RNA polymerase from heat-shocked cells of Bacillus subtilis. J Basic Microbiol.1997;37(1):3-9. PMID: 9090122.

Tobisch S, Glaser P, Krüger S, Hecker M. Identification and characterization of a new beta-glucoside utilization system in Bacillus subtilis. J Bacteriol.1997 Jan;179(2):496-506. PMID: 8990303.

Gerth U, Wipat A, Harwood CR, Carter N, Emmerson PT, Hecker M. Sequence and transcriptional analysis of clpX, a class-III heat-shock gene of Bacillus subtilis. 1996 Nov 28;181(1-2):77-83. PMID: 8973311.

Engelmann S, Hecker M. Impaired oxidative stress resistance of Bacillus subtilis sigB mutants and the role of katA and katE. FEMS Microbiol Lett.1996 Nov 15;145(1):63-9. PMID: 8931328.

Eymann C, Mach H, Harwood CR, Hecker M. Phosphate-starvation-inducible proteins in Bacillus subtilis: a two-dimensional gel electrophoresis study. 1996 Nov;142 ( Pt 11):3163-70. PMID: 8969513.

Antelmann H, Engelmann S, Schmid R, Hecker M. General and oxidative stress responses in Bacillus subtilis: cloning, expression, and mutation of the alkyl hydroperoxide reductase operon. J Bacteriol.1996 Nov;178(22):6571-8. PMID: 8932314.

Krüger E, Msadek T, Hecker M. Alternate promoters direct stress-induced transcription of the Bacillus subtilis clpC operon. Mol Microbiol.1996 May;20(4):713-23. PMID: 8793870.

Krüger S, Gertz S, Hecker M. Transcriptional analysis of bglPH expression in Bacillus subtilis: evidence for two distinct pathways mediating carbon catabolite repression. J Bacteriol.1996 May;178(9):2637-44. PMID: 8626332.

Schnetz K, Stülke J, Gertz S, Krüger S, Krieg M, Hecker M, Rak B. LicT, a Bacillus subtilis transcriptional antiterminator protein of the BglG family. J Bacteriol.1996 Apr;178(7):1971-9. PMID: 8606172.

Hecker M, Schumann W, Völker U. Heat-shock and general stress response in Bacillus subtilis. Mol Microbiol.1996 Feb;19(3):417-28. PMID: 8830234.

Dunger A, Schröder D, Augstein P, Witstruck T, Wachlin G, Vogt L, Ziegler B, Schmidt S. Impact of metabolic activity of beta cells on cytokine-induced damage and recovery of rat pancreatic islets. Acta Diabetol.1995 Dec;32(4):217-24. PMID: 8750759.

Engelmann S, Lindner C, Hecker M. Cloning, nucleotide sequence, and regulation of katE encoding a sigma B-dependent catalase in Bacillus subtilis. J Bacteriol.1995 Oct;177(19):5598-605. PMID: 7559348.

Krüger S, Hecker M. Regulation of the putative bglPH operon for aryl-beta-glucoside utilization in Bacillus subtilis. J Bacteriol.1995 Oct;177(19):5590-7. PMID: 7559347.

Maul B, Völker U, Riethdorf S, Engelmann S, Hecker M. sigma B-dependent regulation of gsiB in response to multiple stimuli in Bacillus subtilis. Mol Gen Genet.1995 Jul 22;248(1):114-20. PMID: 7651322.

Voelker U, Voelker A, Maul B, Hecker M, Dufour A, Haldenwang WG. Separate mechanisms activate sigma B of Bacillus subtilis in response to environmental and metabolic stresses. J Bacteriol.1995 Jul;177(13):3771-80. PMID: 7601843.

Antelmann H, Bernhardt J, Schmid R, Hecker M. A gene at 333 degrees on the Bacillus subtilis chromosome encodes the newly identified sigma B-dependent general stress protein GspA. J Bacteriol.1995 Jun;177(12):3540-5. PMID: 7768864.

Schweder T, Hofmann K, Hecker M. Escherichia coli K12 relA strains as safe hosts for expression of recombinant DNA. Appl Microbiol Biotechnol.1995 Jan;42(5):718-23. PMID: 7765912.