Publications

Year:

 

(Please note that Prof. Macek's publications prior to 2010 are not included)

2017

150. Fitzgerald JC, Zimprich, A, Carvajal Berrio DA, Schindler KM, Maurer B, Schulte C, Bus C, Hauser AK, Kübler M, Reddy Bobbili RL, Schwarz LM, Vartholomaiou E, Brockmann K, Wüst R, Madlung J, Nordheim A, Riess O, Martins LM, Glaab E, May P, Schenke-Layland K, Picard D, Sharma M, Gasser T, Krüger R. 2017. Metformin reverses TRAP1 mutation-associated alterations in mitochondrial function in Parkinson’s disease. Brain 140(9):2444–2459

 

149. Laboucarié, T., Detilleux, D., Rodriguez, R., Romeo, Y., Franz-Wachtel, M., Krug, K., Maček, B., Petersen, J., Villén J., Helmlinger, D. 2017. The TORC1 and TORC2 signaling pathways converge to regulate the SAGA transcriptional co-activator in response to nutrient availability. EMBO Reports, in press

 

148. Fabiani, F., Renault, T.T., Peters, B., Dietsche, T., Galvez, E., Guse, A., Freier, K., Charpentier, E., Strowig, T., Franz-Wachtel, M., Macek, B., Wagner, S., Hensel, M., Erhardt, M. 2017. A flagellum-specific chaperone facilitates assembly of the core type III export apparatus of the bacterial flagellum. PLOS Biology 15(8):e2002267

 

147. Murali, A., Shin, J., Yurugi, H., Krishnan, A., Akutsu, M., Carpy, A., Macek, B., Rajalingam K. 2017 Ubiquitin dependent regulation of Cdc42 by XIAP. Cell Death & Disease 8(6):e2900

 

146. Bakula, D., Müller, A.J., Takacs, Z., Franz-Wachtel, M., Thost, A., Zuleger, T., Brigger, D., Tschan, M.P., Frickey, T., Robenek, H., Macek, B., Proikas-Cezanne, T. 2017. WIPI3 and WIPI4 β-propellers act as scaffolds for LKB1-AMPK and TSC1-TSC2 in the control of autophagy. Nat Communications 8:15637

 

145. Kliza, K., Taumer, C., Pinzuti, I., Franz-Wachtel, M., Kunzelmann, S., Stieglitz, B., Macek, B., Husnjak, K. 2017. Internally tagged ubiquitin: a tool to identify linear polyubiquitin-modified proteins by mass spectrometry. Nat Methods 14(5):504-512

 

144. Cobley, D., Halova, L., Schauries, M, Franz-Wachtel, M., Du, W., Krug, K., Macek, B., Petersen, J. 2017. Ste12/Fab1 phosphatidylinositol-3-phosphate 5-kinase is required for nitrogen-regulated mitotic commitment and cell size control. PLOS One 12 (3), e0172740

 

143. Liu, X., Pichulik, T., Wolz, O.-O., Dang, T.-M., Stutz, A, Page, C., Garcia, M.D., Kraus, H., Dickhöfer, S., Daiber, E., Münzenmayer, L., Wahl, S., Rieber, N., Kümmerle-Deschner, J., Yazdi, A., Franz-Wachtel, M., Macek, B., Radsak, M., Vogel, S., Schulte, B., Stickel, J.S., Hartl, D., Latz, E., Slgenbauer, S., Grimbacher, B., Miller, L., Brunner, C., Wolz, C., Weber, A.N. 2017. Human NLRP3 inflammasome activity is regulated by and potentially targetable via BTK. Journal of Allergy and Clinical Immunology 6749(17)30232-4

 

142. Weirich, J., Bräutigam, C., Mühlenkamp, M., Franz-Wachtel, M., Macek, B., Meuskens, I., Bohn, E., Autenrieth, I., Schütz, M. 2017. Components of the OMP biogenesis machinery required for virulence – an approach to identify new targets for antivirulence therapy. Virulence 24:1-20

 

141. Derouiche, A., Petranovic, D., Macek, B., Mijakovic, I. 2017. Bacillus subtilis single-stranded DNA-binding protein SsbA is phosphorylated at threonine 38 by the serine/threonine kinase YabT. Period Biol 118 (4), 399-404

2016

140. Dietsche, T., Mebrhatu, M.T., Brunner, M.J., Abrusci, P., Yan, J., Franz-Wachtel, M., Schärfe, C., Zilkenat, S., Grin, I., Galán, J.E., Kohlbacher, O., Lea, S., Macek, B., Marlovits, T.C., Robinson, C., Wagner, S. 2016. Structural and functional characterization of the bacterial type III secretion export apparatus. PLOS Pathogens 12(12):e100607

 

139. Hendrick, J., Franz-Wachtel, M., Moeller, Y., Schmid, S., Macek, B, Olayioye, M. 2016. The polarity protein Scribble positions DLC3 at adherens junctions to regulate Rho signaling. J Cell Biol 129(19):3583-3596.

 

138. Amin, R., Franz-Wachtel, M., Tiffert, Y., Heberer, M., Meky, M., Ahmed, Y., Matthews, A., Krysenko, S., Jakobi, M., Hinder, M., Moore, J., Okoniewski, N., Macek, B., Wohlleben, W., Bera, A. 2016. Post-translational serine/threonine phosphorylation and lysine acetylation: a novel regulatory aspect of the global nitrogen response regulator GlnR in S. coelicolor M145. Frontiers in Molecular Biosciences 3:38.

 

137. Hoseini, H., Pandey, S., Jores, T., Schmitt, A., Franz-Wachtel, M., Macek, B., Buchner, J., Dimmer, K., Rapaport, D. 2016. The cytosolic co-chaperone Sti1 is involved in mitochondrial biogenesis. FEBS J 283(18):3338-52.

 

136. Hanzelmann, D., Joo, H., Franz-Wachtel, M., Hertlein, T., Stevanovic, S., Macek, B., Wolz, C., Götz, F., Otto, M., Kretschmer, D., Peschel, A. 2016. Toll-like receptor 2 activation depends on lipopeptide shedding by bacterial surfactants. Nat Communications 7:12304.

 

135. Cvetesic, N., Semanjski, M., Soufi, B., Krug, K., Gruic-Sovulj, I., Macek, B. 2016. Proteome-wide measurement of non-canonical bacterial mistranslation by quantitative mass spectrometry of protein modifications. Sci Reports 6:28631.

 

134. Marei, H., Carpy, A., Macek, B., Malliri, A. 2016. Proteomic Analysis of Rac1 Signalling Regulation by Guanine Nucleotide Exchange Factors. Cell Cycle 15(15):1961-74.

 

133. Baker, K., Kirkham, S., Halova, L., Atkin, J., Franz-Wachtel, M., Cobley, D., Krug, K., Macek, B., Mulvihill, D., Petersen, J. 2016. TOR Complex 2 localises to the Cytokinetic Actomyosin ring and controls the fidelity of cytokinesis. J Cell Sci 129(13):2613-24.

 

132. Sinnberg, T., Makino, E, Krueger, M.A., Velic, A., Macek, B., Rothbauer, U., Groll, N., Pötz, O., Czemmel, S., Niessner, H., Meier, F., Schittek, B. 2016. A novel nexus consisting of beta-catenin and Stat3 attenuates BRAF inhibitor efficacy and mediates secondary resistance to vemurafenib. EBioMedicine 8:132-49.

 

131. Shi, L., Ravikumar, V., Derouiche, A., Kalantari, A., Macek, B., Mijakovic, I. 2016. Tyrosine 601 of Bacillus subtilis DnaK Undergoes Phosphorylation and Is Crucial for Chaperone Activity and Heat Shock Survival. Frontiers in Microbiology 7:533.

 

130. Dreer, M., Fertey, J., van de Poel, S., Straub, E., Madlung, J., Macek, B., Iftner, T., Stubenrauch, F. 2016. Interaction of NCOR/SMRT repressor complexes with papillomavirus E8^E2C proteins 1 inhibits viral replication. PLOS Pathogens 12(4):e1005556.

 

129. Zilkenat, S., Franz-Wachtel, M., Stierhof, Y., Galán, J.E., Macek, B., Wagner, S. 2016. Determination of the stoichiometry of the complete bacterial type III secretion needle complex using a combined quantitative proteomic approach. Mol Cell Proteomics 15(5):1598-609.

 

128. Marei, H., Carpy, A., Woroniuk, A., Vennin, C., White, G., Timpson, P., Macek, B., Malliri A. 2016. Differential Rac1 signalling by guanine nucleotide exchange factors implicates FLII in regulating Rac1-driven cell migration. Nat Communications 7:10664.

 

127. Bekiesch, P., Franz-Wachtel, M., Forchhammer, K., Kulik, A., Brocker, M., Gust, B., Apel A.K. 2016. DNA affinity capturing identifies new regulators of the heterologously expressed novobiocin gene cluster in Streptomyces coelicolor M512. Appl Microbiol Biotechnol 100(10):4495-509.

 

126. Semanjski, M., Macek, B. 2016. Shotgun proteomics of bacterial pathogens: Advances, challenges and clinical implications. Exp Rev Proteomics 13(2):139-56.

 

125. Meyer zu Reckendorf, C., Anastasiadou, S., Bachhuber, F., Franz-Wachtel, M., Macek, B., Knöll, B. 2016. Proteomic analysis of SRF associated transcription complexes identified TFII-I as modulator of SRF function in neurons. Eur J Cell Biol 95(1):42-56.

 

124. Ravikumar, V.,Macek, B., Mijakovic, I. 2016. Resources for assignment of phosphorylation sites on peptides and proteins. Meth Mol Biol, 1355:293-306.

 

123. Carpy, A., Koch, A., Bicho, C.C., Borek, W.E., Hauf, S., Sawin, K.E., Macek, B. 2016. Stable Isotope Labeling by Amino Acids in Cell Culture (SILAC)-Based Quantitative Proteomics and Phosphoproteomics in Fission Yeast. Cold Spring Harbor Protocols, doi:10.1101/pdb.prot091686

 

122. Macek, B., Carpy, A., Koch, A., Bicho, C.C, Borek, W.E, Hauf, S., Sawin, K.E.2016. Stable Isotope Labeling by Amino Acids in Cell Culture (SILAC) Technology in Fission Yeast. Cold Spring Harbor Protocols, doi:10.1101/pdb.top079814

 

121. Koch, A., Bicho, C.C., Borek, W.E., Carpy, A., Macek, B., Hauf, S., Sawin. K.E. 2016. Construction, Growth, and Harvesting of Fission Yeast SILAC Strains. Cold Spring Harbor Protocols, doi:10.1101/pdb.prot091678

2015

120. Rosenberg, A., Soufi, B., Ravikumar, V., Soares, N.C., Krug, K., Smith, Y, Macek, B., Ben-Yehuda, S. 2015. Phosphoproteome Dynamics Mediate Revival of Bacterial Spores. BMC Biology 13:76.

 

119. Cavignac Y, Lieber D, Laib Sampaio K, Madlung J, Lamkemeyer T, Jahn G, Nordheim A, Sinzger C. 2015. The Cellular Proteins Grb2 and DDX3 Are Increased upon Human Cytomegalovirus Infection and Act in a Proviral Fashion. PLoS One, 10(6):e0131614.

 

118. Derouiche A, Shi L, Bidnenko V, Ventroux M, Pigonneau N, Franz-Wachtel M, Kalantari A, Nessler S, Noirot-Gros MF, Mijakovic I. 2015. Bacillus subtilis SalA is a phosphorylation-dependent transcription regulator which represses scoC and activates the production of the exoprotease AprE. Mol Microbiol, 97(6):1195-208.

 

117. Walker B, Schmid E, Russo A, Schmidt EM, Burk O, Münzer P, Velic A, Macek B, Schaller M, Schwab M, Seabra MC, Gawaz M, Lang F, Borst O. 2015. Impact of the Serum- & Glucocorticoid-inducible Kinase 1 (SGK1) on platelet dense granule biogenesis and secretion. J Thromb Haemost, 13(7):1325-34.

 

116. Ladwig, N., Franz-Wachtel, M., Hezel, F., Soufi, B., Macek, B., Wohlleben, W., Muth, G. 2015. The serine/threonine protein kinase PkaI (SCO4778) phosphorylates MreC and PBP2 during morphological differentiation of Streptomyces coelicolor A3(2). PLOS One, accepted

 

115. Spät, P., Macek, B., Forchhammer, K. 2015. Phosphoproteome of the cyanobacterium Synechocystis sp. PCC 6803 and its dynamics during nitrogen starvation. Frontiers in Microbiology 6:248.

 

114. Soufi, B., Krug, K., Harst, A.,Macek, B. 2015. Characterization of the E.coli proteome and its modifications during growth and ethanol stress. Frontiers in Microbiology 6:103.

 

113. Burian, M., Velic, A., Matic, K., Günther, S., Kraft, B., Gonser, L., Forchhammer, S., Tiffert, Y., Naumer, C., Krohn, M., Berneburg, M., Yazdi, A.S., Macek, B., Schittek, B. 2015. Quantitative Proteomics of the Human Skin Secretome reveals a Reduction of Immune Defense Mediators in Ectodermal Dysplasia Patients. J Invest Dermatol  135(3):759-67.

 

112. Umbach, A.T., Zhang, B., Daniel, C., Fajol, A., Velic, A., Hosseinzadeh, Z., Bhavsar, S.K., Bock, C.T., Kandolf, R., Pichler, B.J., Amann, K.U., Föller, M., Lang, F. 2015. Janus kinase 3 regulates renal 25-hydroxyvitamin D 1α-hydroxylase expression, calcitriol formation, and phosphate metabolism. Kidney Int 87(4):728-37.

 

111. Soufi, B., Macek, B. 2015. Global analysis of bacterial membrane proteins and their modifications. Int J Med Microbiol 305(2):203-8.

 

110. McEwan, D.G., Richter, B., Claudi, B., Wigge, C., Wild, P., Farhan, H., McGourty, K., Coxon, F.P., Franz-Wachtel, M., Perdu, B., Akutsu, M., Habermann, A., Kirchof, A., Helfrich, M.H., Odgren, P.R., Van Hul, W., Frangakis, A.S., Rajalingam, K., Macek, B., Holden, D.W., Bumann, D., Dikic, I. 2015. PLEKHM1 Regulates Salmonella-Containing Vacuole Biogenesis and Infection. Cell Host Microbe 17(1):58-71.

 

109. Carpy, A., Patel, A., Krug, K., Hagan, I., Macek, B. 2015.  Nic1 Inactivation Enables Stable Isotope Labeling with 13C615N4-Arginine in Schizosaccharomyces pombe. Mol Cell Proteomics 14(1):243-50.

Nach oben

2014

108. Magalska A, Schellhaus AK, Moreno-Andres D, Zanini F, Schooley A, Sachdev R, Schwarz H, Madlung J, Antonin W. 2014.  RuvB-like ATPases Function in Chromatin Decondensation at the End of Mitosis. Dev Cell. 31(3):305-318

 

107. Fleurie, A., Lesterlin, C., Manuse, S., Zhao, C., Cluzel, C., Lavergne, J-P., Franz-Wachtel, M., Macek, B., Combet, C., Kuru, E., VanNieuwenhze, M.S., Brun, Y.V., Sherratt, D., Grangeasse, C. 2014. MapZ marks the division sites and positions FtsZ rings in Streptococcus pneumaniae. Nature 516(7530):259-62.

 

106. Krug, K., Popic, S., Carpy, A., Täumer, C.,Macek, B. 2014. Construction and assessment of individualized proteogenomic databases for large-scale analysis of non-synonymous single nucleotide variants. Proteomics 14(23-24):2699-708

 

105. Shi, L., Pigonneau, N., Ravikumar, V., Dobrinic, P., Macek, B., Franjevic, D., Noirot-Gros, M., Mijakovic, I. 2014.Cross-phosphorylation of bacterial serine/threonine and tyrosine protein kinases on key regulatory residues. Frontiers in Microbiology17;5:495.

 

104. Matic, K., Eninger, T., Bardoni, B., Davidovic, L., Macek, B. 2014. Quantitative Phosphoproteomics of Murine Fmr1-KO Cell Lines Provides New Insights into FMRP-Dependent Signal Transduction Mechanisms. J Prot Res 13(10):4388-97.

 

103. Liu X, Grabherr HM, Willmann R, Kolb D, Brunner F, Bertsche U, Kühner D, Franz-Wachtel  M, Amin B, Felix G, Ongena M, Nürnberger T, Gust AA. 2014. Host-induced bacterial cell wall decomposition mediates pattern-triggered immunity in Arabidopsis. Elife 3. doi: 10.7554/eLife.01990.

 

102. Takeda, A., Oberoi-Khanuja, T.K., Glatz, G., Peter-Scholz, R., Carpy, A., Macek, B., Remenyi, A., Rajalingam, K. 2014. Ubiquitin dependent regulation of MEKK2/3-MEK5-ERK5 signaling module by IAPs. EMBO J33(16):1784-801.

 

101. Carpy, A., Krug, K., Graf, S., Koch, A., Popic, S., Hauf, S., Macek,B. 2014. Absolute proteome and phosphoproteome dynamics during the cell cycle of fission yeast. Mol Cell Proteomics13(8):1925-36.

 

100. Utrobicic, I., Novak, I., Marinovic-Terzic, I., Matic, K., Salamunic, I.,Saraga Babic, M., Kunac, N., Kostic Mesin, A., Macek, B., Terzic, J. 2014. Idiopathic carpal tunnel syndrome associated with elevated plasma fibrinogen and fibrinogen deposits at the transverse carpal ligament. Neurosurgery 75(3):276-85.

 

99. Blaum, B.S., Mazzotta, S., Nöldeke, E.R., Halter, T., Madlung, J., Kemmerling, B., Stehle, T. 2014. Structure of the pseudokinase domain of BIR2, a regulator of BAK1-mediated immune signaling in Arabidopsis. J Struct Biol 186(1):112-21.

  

98. Fleurie, A., Manuse, S., Zhao, C., Campo, N., Cluzel, C., Lavergne, J.-P., Freton, C., Combet, C., Guiral, S., Soufi, B., Macek, B., Di Guilmi, A., Claverys, J.-P., Galinier, A., Grangeasse, C. 2014. Interplay of the serine/threonine-kinase StkP and the paralogs DivIVA and GpsB in pneumococcal cell elongation and division. PLOS Genetics 10(4):e1004275.

 

97.  Ravikumar, V., Shi, L., Krug, K., Derouiche, A., Jers, C., Cousin, C., Kobir, A., Mijakovic, I., Macek, B. 2014. Quantitative phosphoproteome analysis of Bacillus subtilis reveals novel substrates of the kinase PrkC and phosphatase PrpC. Mol Cell Proteomics 13(8):1965-78.

 

96. Braune, E., Schuster-Gossler, K., Lyszkiewicz, M., Serth, K., Preuße, K., Madlung, J.,Macek, B., Krueger, A., Gossler, A. 2014. S/T phosphorylation of DLL1 is required for full ligand activity in vitro but dispensable for DLL1 function in vivo during embryonic patterning and marginal zone B cell development. Mol Cell Biol 34(7):1221-33.

 

95. Grin, I., Hartmann, M.D., Sauer, G.,Hernandez Alvarez, B., Schütz, M., Madlung, J., Macek, B., Felipe-Lopez, A., Hensel, M., Lupas, A., Linke, D. 2014. A trimeric lipoprotein assists in trimeric autotransporter biogenesis in Enterobacteria. J Biol Chem 289(11):7388-98.

 

94. Soufi, B.,Macek, B. 2014. Stable Isotope Labeling by Amino Acids (SILAC) applied to Bacterial Cell Culture. Meth Mol Biol 1188:9-22.

Nach oben

2013

93. Conzelmann M, Williams EA, Krug K, Franz-Wachtel M, Macek B, Jékely G. 2013. The neuropeptide complement of the marine annelid Platynereis dumerilii. BMC Genomics 14(1):906.

 

92. Bäsell, K., Otto, A., Zühlke, D., Rappen, G., Schmidt, S., Hentschker, C., Macek, B., Ohlsen, K., Hecker, M., Becher, D. 2013. The phosphoproteome and its physiological dynamics in Staphylococcus aureus. Int J Med Microbiol 304(2):121-32.

 

91. Derouiche A, Bidnenko V, Grenha R, Pigonneau N, Ventroux M, Franz-Wachtel M, Nessler S, Noirot-Gros MF, Mijakovic I. 2013. Interaction of bacterial fatty-acid-displaced regulators with DNA is interrupted by tyrosine phosphorylation in the helix-turn-helix domain. Nucleic Acids Res 41(20):9371-81.

 

90. Krug, K., Carpy, A., Behrends, G., Matic, K., Soares, N. C., and Macek, B. 2013. Deep coverage of the Escherichia coli proteome enables the assessment of false discovery rates in simple proteogenomic experiments. Mol Cell Proteomics 12(11):3420-30.

 

89. Gauthier NP, Soufi B, Walkowicz WE, Pedicord VA, Mavrakis KJ, Macek B, Gin DY, Sander C and Miller ML. 2013. Cell-selective labeling using amino acid precursors for proteomic studies of multicellular environments. Nature Methods 10(8):768-73.

 

88. Scharf M, Neef S, Freund R, Geers-Knörr C, Franz-Wachtel M, Brandis A, Krone D, Schneider H, Groos S, Menon MB, Chang KC, Kraft T, Meissner JD, Boheler KR, Maier LS, Gaestel M, Scheibe RJ. 2013. Mitogen-Activated Protein Kinase-Activated Protein Kinases 2 and 3 Regulate SERCA2a Expression and Fiber Type Composition To Modulate Skeletal Muscle and Cardiomyocyte Function. Mol Cell Biol 33(13):2586-602.

 

87.Soares, N.C., Spät, P., Krug, K.,Macek, B.2013.Global dynamics of the Escherichia coli proteome and phosphoproteome during growth in minimal medium. J Prot Res 12(6):2611-21.

 

86. Hausmann, N., Fengler, S., Hennig, A., Franz-Wachtel, M., Hampp, R., Neef, M. 2013. Cytosolic Calcium, hydrogen peroxide, and related gene expression and protein modulation in Arabidopsis thaliana cell cultures respond immediately to altered gravitation: Parabolic flight data. Plant Biology, in press

 

85. Geiger, T., Velic, A., Macek, B., Lundberg, E., Kampf, C., Nagaraj, N., Uhlen, M., Cox, J., Mann, M. 2013. Initial quantitative proteomic map of twenty-eight mouse tissues using the SILAC mouse. Mol Cell Proteomics12(6):1709-22.

 

84. Sturm, T., Leinders-Zufall, T., Macek, B., Jung, S., Pömmerl, B., Stevanović, S., Zufall, F.,  Rammensee, H.G., Overath, P. 2013. MHC-binding peptides occurring in mouse urine stimulate vomeronasal neurons. Nature Communications 4:1616

Nach oben

2012

83. Manavella, P.A., Hagmann, J., Ott, F., Laubinger, S., Franz-Wachtel, M., Macek, B., Weigel, D. 2012.Fast-forward genetics identifies plant CPL phosphatases as regulators of miRNA-processing. Cell 151(4):859-70.

 

82. Forouzan D, Ammelburg M, Hobel CF, Ströh LJ, Sessler N, Martin J, Lupas AN. 2012. The archaeal proteasome is regulated by a network of AAA ATPases. J Biol Chem 287(46):39254-62.

 

81. Vujaklija, D., Macek, B. 2012. Detecting posttranslational modifications on bacterial SSB proteins. Methods Mol Biol  922: 205-18.

 

80. Vollmer, B., Sachdev, R., Eisenhardt, N., Schneider, A.M., Sieverding, C., Madlung, J., Gerken, U., Macek, B., Antonin, W. 2012. Nuclear pore complex assembly depends on a direct interaction of Nup53 with nuclear membranes. EMBO J 31(20):4072-84.

 

79. Borchert, N., Krug, K., Gand, F., Sinha, A., Sommer, R., Macek, B. 2012. Phosphoproteome of Pristionchus pacificus provides insights into architecture of signaling networks in nematode models. Mol Cell Proteomics 11(12):1631-9.

 

78. Huck, B., Kemkemer, R., Franz-Wachtel, M., Macek, B., Hausser, A., Olayioye, M.A. 2012. GIT1 phosphorylation on serine 46 by PKD3 regulates paxillin trafficking and cellular protrusive activity. J Biol Chem  287(41):34604-13.

 

77. Soufi, B., Soares, N.C., Ravikumar, V., Macek, B. 2012. Proteomics reveals evidence of cross-talk between protein modifications in bacteria: Focus on protein acetylation and phosphorylation. Curr Opin Microbiol 15(3):357-63.

 

76. Franz-Wachtel, M., Eisler, S., Krug, K., Wahl, S., Carpy, A., Nordheim, A., Pfizenmaier, K., Hausser, A., Macek, B. 2012. Global detection of Protein Kinase D-dependent phosphorylation events in nocodazole-treated human cells. Mol Cell Proteomics11(5):160-70.

 

75. Zelenak, C., Eberhard, M., Jilani, K., Qadri, S.M., Macek, B., Lang, F. 2012. Protein Kinase CK1α Regulates Erythrocyte Survival. Cell Physiol Biochem. 29(1-2):171-80.

 

74. Doppler K, Lindner A, Schütz W, Schütz M, Bornemann A.2012. Gain and loss of extracellular molecules in sporadic inclusion body myositis and polymyositis--a proteomics-based study. Brain Pathol. 22(1):32-40.

 
73. Sharma, K., Vabulas, M., Macek, B., Pinkert, S., Cox, J., Mann, M., Hartl, U. 2012. Quantitative proteomics reveals that Hsp90 inhibition preferentially targets kinases and the DNA damage response. Mol Cell Proteomics. 11.3:M111.014654


72. Sessler, N., Krug, K., Nordheim, A., Mordmüller, B., Macek, B. 2012. Analysis of the P. falciparum proteasome using Blue Native PAGE and label-free quantitative mass spectrometry. Amino Acids 43(3):1119-29.

71. Mijakovic, I., Macek, B. 2012. Impact of phosphoproteomics on studies of bacterial physiology. FEMS Microbiology Reviews 36(4):877-92.

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2011

70. Oberoi, T.K., Dogan, T., Hocking, J.C., Scholz, R.P., Mooz, J., Anderson, C.L., Karreman, C., Meyer zu Heringdorf, D., Schmidt, G., Ruonala, M., Namikawa, K., Harms, G.S., Carpy, A., Macek, B., Köster, R.W., Rajalingam, K. 2011. IAPs regulate the plasticity of cell migration by directly targeting Rac1 for degradation. EMBO J. 31(1):14-28

 

69. Djamei, A., Schipper, K., Rabe, F., Vincon, V., Kahnt, J., Osorio, S., Fernie, A.R., Johannsen, M., Maier, U., Mörschel, E., Feussner, I., Feussner, K., Meinicke, P., Stierhoff, Y., Schwarz, H., Macek, B., Mann, M., Kahmann, R. 2011. Metabolomic priming by a secreted fungal effector. Nature 478:395-400

 

68. Koch, A., Krug, K., Pengelley, S.,Macek, B#., Hauf, S#. 2011. Mitotic substrates of the kinase Aurora with roles in chromatin regulation identified through quantitative phosphoproteomics of fission yeast.  Science Signaling. 4 (179): rs6.

 

67. Macek, B. 2011. LC-MS for the identification of posttranslational modifications on proteins. (A book chapter in “Protein and Peptide Analysis by LC-MS”, Royal Society of Chemistry, ISBN-10: 1849731829)

 

66. Schütz, W., Hausmann, N., Krug, K., Hampp, R., Macek, B. 2011. Extending SILAC to proteomics of plant cell lines. Plant Cell. 23(5):1701-5.


65. Ikeda F, Deribe YL, Skånland SS, Stieglitz B, Grabbe C, Franz-Wachtel M, van Wijk SJ, Goswami P, Nagy V, Terzic J, Tokunaga F, Androulidaki A, Nakagawa T, Pasparakis M, Iwai K, Sundberg JP, Schaefer L, Rittinger K, Macek B, Dikic I. SHARPIN forms a linear ubiquitin ligase complex regulating NF-kappaB activity and apoptosis. Nature. 2011 Mar 31;471(7340):637-41.


64. Grgurevic L, Macek B, Mercep M, Jelic M, Smoljanovic T, Erjavec I, Dumic-Cule I, Prgomet S, Durdevic D, Vnuk D, Lipar M, Stejskal M, Kufner V, Brkljacic J, Maticic D, Vukicevic S. Bone morphogenetic protein (BMP)1-3 enhances bone repair. Biochem Biophys Res Commun. 408(1):25-31.

 
63. Hausser, A., Barisic, S., Nagel, A., Franz-Wachtel, M., Macek, B., Preiss, A., Maier, D. and Link, G. Phosphorylation of serine 402 impedes slingshot 1 (SSH1) phosphatase activity. 2011 EMBO Reports. 12(6):527-33.

 
62. Löffler, A.S., Alers, S., Dieterle, A.M., Keppeler, H., Franz-Wachtel, M., Kundu, M., Campbell, D.G., Wesselborg, S., Alessi, D.R., Stork, B. Ulk1-mediated phosphorylation of AMPK constitutes a negative regulatory feedback loop. 2011 Autophagy. 7(7):696-706.

 

61. Nestler J, Schütz W, Hochholdinger F. Conserved and unique features of the maize (Zea mays L.) root hair proteome. J Proteome Res. 10(5):2525-37. 

 

60. Macek B, Mijakovic I. Site-specific analysis of bacterial phosphoproteomes. 2011. Proteomics. 11(15):3002-11.

 

59. Grgurevic L, Macek B, Healy DR, Brault AL, Erjavec I, Cipcic A, Grgurevic I, Rogic D, Galesic K, Brkljacic J, Stern-Padovan R, Paralkar VM, Vukicevic S. Circulating bone morphogenetic protein 1-3 isoform increases renal fibrosis. J Am Soc Nephrol. 2011 Apr;22(4):681-92.

 

58. Zelenak C, Föller M, Velic A, Krug K, Qadri SM, Viollet B, Lang F, Macek B. Proteome Analysis of Erythrocytes Lacking AMP-Activated Protein Kinase Reveals a Role of PAK2 Kinase in Eryptosis. J Proteome Res. 2011 Apr 1;10(4):1690-1697.

 

57. Tiffert Y, Franz-Wachtel M, Fladerer C, Nordheim A, Reuther J, Wohlleben W, Mast Y. Proteomic analysis of the GlnR-mediated response to nitrogen limitation in Streptomyces coelicolor M145.Appl Microbiol Biotechnol. 2011 Feb;89(4):1149-59.

 

56. Krug, K., Nahnsen, S., Macek, B. 2011. Mass spectrometry at the interface of genomics and proteomics. Mol Biosystems 7(2):284-91.

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2010

55. Tschan S, Kreidenweiss A, Stierhof YD, Sessler N, Fendel R, Mordmüller B. Mitochondrial localization of the threonine peptidase PfHslV, a ClpQ ortholog in Plasmodium falciparum. Int J Parasitol. 2010 Nov;40(13):1517-23.

 

54. Menon MB, Schwermann J, Singh AK, Franz-Wachtel M, Pabst O, Seidler U, Omary MB, Kotlyarov A, Gaestel M. p38 MAP kinase and MAPKAP kinases MK2/3 cooperatively phosphorylate epithelial keratins. J Biol Chem. 2010 Oct 22;285(43):33242-51.

 

53. Pasztor L, Ziebandt AK, Nega M, Schlag M, Haase S, Franz-Wachtel M, Madlung J, Nordheim A, Heinrichs DE, Götz F. Staphylococcal major autolysin (Atl) is involved in excretion of cytoplasmic proteins. J Biol Chem. 2010 Nov 19;285(47):36794-803. Epub 2010 Sep 16. 

 

52. Burbulla LF, Schelling C, Kato H, Rapaport D, Woitalla D, Schiesling C, Schulte C, Sharma M, Illig T, Bauer P, Jung S, Nordheim A, Schöls L, Riess O, Krüger R. Dissecting the role of the mitochondrial chaperone mortalin in Parkinson's disease: functional impact of disease-related variants on mitochondrial homeostasis.Hum Mol Genet. 2010 Nov 15;19(22):4437-52. Epub 2010 Sep 2.

 

51. Velic, A., Macek, B., Wagner, C. 2010. Towards quantitative proteomics of organ substructures: implications for renal physiology. Seminars in Nephrology 30(5):487-499 

 

50. Marcon, C., Schützenmeister, A., Schütz, W., Madlung, J., Piepho, H.P., Hochholdinger, F. 2010. Nonadditive protein accumulation patterns in maize (Zea mays L.) hybrids during embryo development. J Prot Res 2010 Dec 3;9(12):6511-6522.

 

49. Schütz, W., Franz-Wachtel, M., Macek, B. 2010. SILAC in Mikroorganismen. (in German) Biospektrum  5: 552-554

 

48. Soufi, B., Kumar, C., Gnad, F., Mann, M., Mijakovic, I., Macek, B. Stable Isotope Labeling by Amino Acids in Cell Culture (SILAC) applied to quantitative proteomics of Bacillus subtilis. 2010 J Prot Res 9(7):3638-3646, Epub 2010 May 28  

 

47. Jers C, Pedersen MM, Paspaliari DK, Schütz W, Johnsson C, Soufi B, Macek B, Jensen PR, Mijakovic I. Bacillus subtilis BY-kinase PtkA controls enzyme activity and localisation of its protein substrates. Mol Microbiol. 2010 Jul;77(2):287-299. Epub 2010 May 24.

 

46. Jung S, Fladerer C, Braendle F, Madlung J, Spring O, Nordheim A. Identification of a novel Plasmopara halstedii elicitor protein combining de novo peptide sequencing algorithms and RACE-PCR. 2010 Proteome Sci. 8(1):24.

 

45. Bertsch A, Jung S, Zerck A, Pfeifer N, Nahnsen S, Henneges C, Nordheim A, Kohlbacher O. Optimal de novo design of MRM experiments for rapid assay development in targeted proteomics. J Proteome Res. 2010 May 7;9(5):2696-704.

 

44. Ma W, Muthreich N, Liao C, Franz-Wachtel M, Schütz W, Zhang F, Hochholdinger F, Li C. The mucilage proteome of maize (Zea mays L.) primary roots. J Proteome Res. 2010 Jun 4;9(6):2968-2976. Epub 2010 Apr 21

 

43. Alsheimer M, Baier A, Schramm S, Schütz W, Benavente R. Synaptonemal Complex Protein SYCP3 exists in two isoforms showing different Conservation in Mammalian Evolution. Cytogenet. Genome Res. 2010;128(1-3):162-168. Epub 2010 Mar 25.

 

42. Borchert N, Dieterich C, Krug K, Schütz W, Jung S, Nordheim A, Sommer RJ, Macek B. Proteogenomics of Pristionchus pacificus reveals distinct proteome structure of nematode models. Genome Res. 2010 Jun;20(6):837-846. Epub 2010 Mar 17.

 

41.   Saleem M, Lamkemeyer T, Schützenmeister A, Madlung J, Sakai H, Piepho HP, Nordheim A, Hochholdinger F. Specification of cortical parenchyma and stele of maize primary roots by asymmetric levels of auxin, cytokinin, and cytokinin-regulated proteins. Plant Physiol. 2010;152(1):4-18.

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2009

40.   Muthreich N., Schützenmeister A., Schütz W., Madlung J., Krug K., Nordheim A., Piepho H.-P., Hochholdinger F. (2009): Regulation of the maize (Zea mays L.) embryo proteome by RTCS which controls seminal root initiation. Eur. J. Cell Biol. 2010 Feb-Mar;89(2-3):242-249. Epub 2009 Dec 3.

39.   Liu Y., von BehrensI., Muthreich N., Schütz W., Nordheim A., Hochholdinger F. (2009): Regulation of the pericycle proteome in maize (Zea mays L.) primary roots by RUM1 which is required for lateral root initiation. Eur. J. Cell Biol. 2010 Feb-Mar;89(2-3):236-241. Epub 2009 Dec 4.

38.   Henneges C, Hinselmann G, Jung S, Madlung J, Schütz W, Nordheim A, Zell A. Ranking Methods for the Prediction of Frequent Top Scoring Peptides from Proteomics Data. J Proteomics Bioinformatics. 2009; 2: 226-235

37.   Gröbner S, Linke D, Schütz W, Fladerer C, Madlung J, Autenrieth IB, Witte W, Pfeifer Y. Emergence of carbapenem-non-susceptible extended-spectrum beta-lactamase-producing Klebsiella pneumoniae isolates at the university hospital of Tübingen, Germany. J Med Microbiol. 2009;58(Pt 7):912-22.

36.   Biswas L, Biswas R, Nerz C, Ohlsen K, Schlag M, Schäfer T, Lamkemeyer T, Ziebandt AK, Hantke K, Rosenstein R, Götz F. Role of the twin-arginine translocation pathway in Staphylococcus. J Bacteriol. 2009;191(19):5921-9.

35.   Saleem M, Lamkemeyer T, Schützenmeister A, Fladerer C, Piepho HP, Nordheim A, Hochholdinger F. Tissue specific control of the maize (Zea mays L.) embryo, cortical parenchyma, and stele proteomes by RUM1 which regulates seminal and lateral root initiation. J Proteome Res. 2009 May;8(5):2285-97.

34.   Sprossmann F, Pankert P, Sausbier U, Wirth A, Zhou XB, Madlung J,Zhao H, Bucurenciu I, Jakob A, Lamkemeyer T, Neuhuber W, Offermanns S, Shipston MJ, Korth M, Nordheim A, Ruth P, Sausbier M. Inducible knockout mutagenesis reveals compensatory mechanisms elicited by constitutive BK channel deficiency in overactive murine bladder. FEBS J. 2009;276(6):1680-97

 

33.   Pirow R, Buchen I, Richter M, Allmer C, Nunes F, Günsel A, Heikens W, Lamkemeyer T, von Reumont BM, Hetz SK. Cationic composition and acid-base state of the extracellular fluid, and specific buffer value of hemoglobin from the branchiopod crustacean Triops cancriformis. J Comp Physiol B. 2009 Apr;179(3):369-81.

32. Zhang F, Skoda MWA, Jacobs RMJ, Dressen DG, Martin RA, Martin CM, Clark GF, Lamkemeyer T, Schreiber F. Gold Nanoparticles Decorated with Oligo(ethylene glycol) Thiols: Enhanced Hofmeister Effects in Colloid-Protein Mixtures. J Phys. Chem. C 2009; 113(12):4839-4847

31. Barjaktorovic Z, Babbick M, Nordheim A, Lamkemeyer T, Magel E, Hampp R. Alterations in Protein Expression of Arabidopsis thaliana Cell Cultures During Hyper- and Simulated Micro-Gravity. Microgravity Science and Technology. 2009; 21(1-2): 191-196

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2008

30. Eisenbeis S, Lohmiller S, Valdebenito M, Leicht S and Braun V (2008) NagA-dependent uptake of N-Acetyl-gGlucosamine and N-Acetyl-Chitin Oligosaccharides across the Outer Membrane of Caulobacter crescentus. Journal of Bacteriology, 190 (15): 5230-5238.

29. Meyer VS, Kastenmuller W, Gasteiger G, Franz-Wachtel M, Lamkemeyer T, Rammensee HG, Stevanovic S, Sigurdardottir D and Drexle I (2008) Long-term immunity against actual poxviral HLA ligands as identified by differential stable isotope labeling. J Immunol, 181 (9): 6371-83

28. Hala M, Cole R, Synek L, Drdova E, Pecenkova T, Nordheim A, Lamkemeyer T, Madlung J, Hochholdinger F, Fowler J and Zarsky V (2008) An exocyst complex functions in plant cell growth. Plant Cell, 20(5): 1330-45

27. Siemoneit U, Hofmann B, Kather N, Lamkemeyer T, Madlung J, Franke L, Schneider G, Jauch J, Poeckel D and Werz O (2008) Identification and functional analysis of cyclooxygenase-1 as a molecular target of boswellic acids. Biochem Pharmacol, 75 (2): 503-513.

26. Duechting A, Tschöpe C, Kaiser H, Lamkemeyer T, Tanaka N Aberle S, Lang F, Torresi J, Kandolf R and Bock CT (2008) Human parvovirus B19-NS1 protein modulates inflammatory signaling by activation of STAT3/PIAS3 in human endothelial cells J Virol, 82(16): 7942-52

25. Hoecker N, Lamkemeyer T, Keller B, Fladerer C, Madlung J, Piepho HP, Nordheim A and Hochholdinger F (2008) Analysis of non-additive protein accumulation in young primary roots of a maize (Zea mays L.) F1-hybrid compared to its parental inbred lines. Proteomics, 8(16): 3882-94.

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2007

24. Barjaktarović Z, Nordheim A, Lamkemeyer T, Fladerer C, Madlung J and Hampp R (2007) Time-course of changes in amounts of specific proteins upon exposure to hyper-g, 2-D clinorotation, and 3-D random positioning of Arabidopsis cell cultures. Journal of Experimental Botany, 58 (15/16): 4357-63.

23. Dembinsky D, Woll K, Saleem M, Liu Y, Fu Y, Borsuk LA, Lamkemeyer T, Fladerer C, Madlung J, Barbazuk B, Nordheim A, Nettleton D, Schnable PS, Hochholdinger F (2007) Transcriptomic and proteomic analyses of pericycle cells of the maize (Zea mays L.) primary root. Plant Physiol, 145: 575-588.

22. del Val C, Ernst P, Falkenhahn M, Fladerer C, Glatting KH, Suhai S (2007) ProtSweep, 2Dsweep and DomainSweep: protein analysis suite at DKFZ. Nucleic Acids Res, 35: W444-W450.

21. Weinzierl AO, Lemmel C, Schoor O, Müller M, Krüger T, Wernet D, Hennenlotter J, Stenzl A, Klingel K, Rammensee HG and Stevanović S (2007) Distorted relation between mRNA copy number and corresponding major histocompatibility complex ligand density on the cell surface. Mol Cell Proteomics, 6: 102-13.

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2006

20. Dengjel J, Nastke MD, Gouttefangeas C, Gitsioudis G, Schoor O, Altenberend F, Müller M, Krämer B, Missiou A, Sauter M, Hennenlotter J, Wernet D, Stenzl A, Rammensee HG, Klingel K and Stevanović S (2006) Unexpected Abundance of HLA Class II Presented Peptides in Primary Renal Cell Carcinomas. Clin Cancer Res, 12: 4163-4170.

19. Proikas-Cezanne T, Gaugel A, Frickey T and Nordheim A (2006) Rab14 is part of the early endosomal clathrin-coated TGN microdomain. FEBS Lett., 580: 5241-5246.

18. Rönnefarth VM, Erbacher AIM, Lamkemeyer T, Madlung J, Nordheim A, Rammensee HG and Decker P (2006) TLR2/TLR4-independent neutrophil activation and recruitment upon endocytosis of nucleosomes reveals a new pathway of innate immunity in systemic lupus erythematosus. J Immunol, 177: 7740-7749.

17. Crisóstomo MI, Vollmer W, Kharat A, Inhülsen S, Gehre F, Buckenmaier S and Tomasz A (2006) Attenuation of penicillin resistance in a peptidoglycan O-acetyl transferase mutant of Streptococcus pneumoniae. Mol Microbiol, published online.

16. Berg CP, Stein GM, Klein R, Pascu M, Berg T, Kammer W, Priemer M, Nordheim A, Gregor M, Berg PA and Wesselborg S (2006) Demonstration of PDC-E1 subunits as major antigens in the complement fixing fraction M4 and re-evaluation of PDC-E1-specific antibodies in PBC patients. Liver Int, 26: 846-855.

15. Sauer M, Jakob A, Nordheim A and Hochholdinger F (2006) Proteomic analysis of shoot-borne root initiation in maize (Zea mays L.). Proteomics, 6: 2530-2541.

14. Rousselot M, Jaenicke E, Lamkemeyer T, Harris RJ, and Pirow R (2006) Native and subunit molecular mass and quarternary structure of the haemoglobin from the primitive branchiopod crustacean Triops cancriformis. FEBS J, 273: 4055-4071.

13. Liu Y, Lamkemeyer T, Jakob A, Mi G, Zhang F, Nordheim A, and Hochholdinger F (2006) Comparative proteome analyses of maize (Zea mays L.) primary roots prior to lateral root initiation reveal differential protein expression in the lateral root initiation mutant rum1. Proteomics, 6: 4300-4308.

12. Lamkemeyer T, Zeis B, Decker H, Jaenicke E, Waschbüsch D, Gebauer W, Markl J, Meissner U, Rousselot M, Zal F and Paul RJ (2006) Molecular mass of macromolecules and subunits and quaternary structure of hemoglobin from the microcrustacean Daphnia magna. FEBS J, 273: 3393-3410.

11. Mordmüller B, Fendel R, Kreidenweiss A, Gille C, Hurwitz R, Metzger WG, Kun JFJ, Lamkemeyer T, Nordheim A, and Kremsner PG (2006) Plasmodia express two threonine-peptidase complexes during asexual development. Mol Biochem Parasitol, 148: 79-85. 

10. Neubauer H, Clare SE, Kurek R, Fehm T, Wallwiener D, Sotlar K, Nordheim A, Wozny W, Schwall GP, Poznanović S, Sastri C, Hunzinger C, Stegmann W, Schrattenholz A and Cahill MA (2006) Breast cancer proteomics by laser capture microdissection, sample pooling, 54-cm IPG IEF, and differential iodine radioisotope detection. Electrophoresis, 27: 1840-1852.

9. Zimmermann U, Junker H, Krämer F, Balabanov S, Kleist B, Kammer W, Nordheim A and Walther R (2006) Comparative proteomic analysis of neoplastic and non-neoplastic germ cell tissue. Biol Chem, 387: 437-440.

8. Resch A, Leicht S, Saric M, Pasztor L, Jakob A, Götz F, and Nordheim A (2006) Comparative proteome analysis of Staphylococcus aureus biofilm and planktonic cells and correlation with transcriptome profiling. Proteomics, 6: 1867-1877. 

7. Tolson JP, Flad T, Gnau V, Dihazi H, Hennenlotter J, Beck A, Mueller GA, Kuczyk M, and Mueller CA. (2006). Differential detection of S100A8 in transitional cell carcinoma of the bladder by pair wise tissue proteomic and immunohistochemical analysis. Proteomics, 6: 697-708.

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2005

 6. Lamkemeyer T, Paul RJ, Stöcker W, Yiallouros I and Zeis B (2005) Macromolecular isoforms of Daphnia magna haemoglobin. Biol Chem, 386: 1087-1096.

5. Neugebauer H, Herrmann C, Kammer W, Schwarz G, Nordheim A, and Braun V (2005) ExbBD-dependent transport of maltodextrins through the novel MalA protein across the outer membrane of Caulobacter crescentus. J Bacteriol, 187: 8300-11. 

4. Hennersdorf F, Florian S, Jakob A, Baumgartner K, Sonneck K, Nordheim A, Biedermann T, Valent P, and Bühring HJ. (2005) Identification of CD13, CD107a, and CD164 as novel basophil-activation markers and dissection of two response patterns in time kinetics of IgE-dependent upregulation, Cell Res, 15: 325 - 335.

3. Hoschle B, Gnau V, and Jendrossek D. (2005). Methylcrotonyl-CoA and geranyl-CoA carboxylases are involved in leucine/isovalerate utilization (Liu) and acyclic terpene utilization (Atu), and are encoded by liuB/liuD and atuC/atuF, in Pseudomonas aeruginosa. Microbiology, 151: 3649-56.

2. Bera A, Herbert S, Jakob A, Vollmer W and Götz F (2005). Why are pathogenic staphylococci so lysozyme resistant? The peptidoglycan O-acetyltransferase OatA is the major determinant for lysozyme resistance of Staphylococcus aureus. Mol Microbiol, 55: 778-787.

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2004


1. Proikas-Cezanne T, Waddell S, Gaugel A, Frickey T, Lupas A, and Nordheim A (2004). WIPI-1alpha (WIPI49), a member of the novel 7-bladed WIPI protein family, is aberrantly expressed in human cancer and is linked to starvation-induced autophagy. Oncogene, 23: 9314-9325.

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