Research for the Environment

Publications

On all publications listed on this page scientists of Department of Proteomics which was founded in May 2006 were directly involved. Further punlications are listed on the induvidual websites.

Publications 2014

Publications 2014

  • Arnold, C., Externbrink, F., Hackermüller, J., Reiche, K., (2014):
    CEM-Designer: design of custom expression microarrays in the post-ENCODE era
    J. Biotechnol. 189 , 1564 - 156
    full text (url)
  • Bastida, F., Jehmlich, N., Ondoño, S., von Bergen, M., García, C., Moreno, J.L., (2014):
    Characterization of the microbial community in biological soil crusts dominated by Fulgensia desertorum (Tomin) Poelt and Squamarina cartilaginea (With.) P. James and in the underlying soil
    Soil Biol. Biochem. 76 , 70 - 79
    full text (url)
  • Baumann, S., Rockstroh, M., Bartel, J., Krumsiek, J., Otto, W., Jungnickel, H., Potratz, S., Luch, A., Wilscher, E., Theis, F.J., von Bergen, M., Tomm, J.M., (2014):
    Subtoxic concentrations of benzo[a]pyrene induce metabolic changes and oxidative stress in non-activated and affect the mTOR pathway in activated Jurkat T cells
    Journal of Integrated OMICS 4 (1), 11 - 20
    full text (url)
  • Bozinovski, D., Taubert, M., Kleinsteuber, S., Richnow, H.-H., von Bergen, M., Vogt, C., Seifert, J., (2014):
    Metaproteogenomic analysis of a sulfate-reducing enrichment culture reveals genomic organization of key enzymes in the m-xylene degradation pathway and metabolic activity of proteobacteria
    Syst. Appl. Microbiol. 37 (7), 488 - 501
    full text (url)
  • Colman Lerner, J.E., Kohajda, T., Aguilar, M.E., Massolo, L.A., Sánchez, E.Y., Porta, A.A., Opitz, P., Wichmann, G., Herbarth, O., Mueller, A., (2014):
    Improvement of health risk factors after reduction of VOC concentrations in industrial and urban areas
    Environ. Sci. Pollut. Res. 21 (16), 9676 - 9688
    full text (url)
  • Franck, U., Weller, A., Röder, S., Herberth, G., Junge, K.M., Kohajda, T., von Bergen, M., Rolle-Kampczyk, U., Diez, U., Borte, M., Lehmann, I., (2014):
    Prenatal VOC exposure and redecoration are related to wheezing in early infancy
    Environ. Int. 73 , 393 - 401
    full text (url)
  • Gasch, M., Goroll, T., Bauer, M., Hinz, D., Schütze, N., Polte, T., Kesper, D., Simon, J.-C., Hackermüller, J., Lehmann, I., Herberth, G., (2014):
    Generation of IL-8 and IL-9 producing CD4+ T cells is affected by Th17 polarizing conditions and AHR ligands
    Mediat. Inflamm. , 182549
    full text (url)
  • Hackermüller, J., Reiche, K., Otto, C., Hösler, N., Blumert, C., Brocke-Heidrich, K., Böhlig, L., Nitsche, A., Kasack, K., Ahnert, P., Krupp, W., Engeland, K., Stadler, P.F., Horn, F., (2014):
    Cell cycle, oncogenic and tumor suppressor pathways regulate numerous long and macro non-protein coding RNAs
    Genome Biol. 15 (3), R48
    full text (url)
  • Herberth, G., Bauer, M., Gasch, M., Hinz, D., Röder, S., Olek, S., Kohajda, T., Rolle-Kampczyk, U., von Bergen, M., Sack, U., Borte, M., Lehmann, I., (2014):
    Maternal and cord blood miR-223 expression associates with prenatal tobacco smoke exposure and low regulatory T-cell numbers
    J. Allergy Clin. Immunol. 133 (2), 543 - 550.e4
    full text (url)
  • Hoffmann, S., Otto, C., Doose, G., Tanzer, A., Langenberger, D., Christ, S., Kunz, M., Holdt, L.M., Teupser, D., Hackermüller, J., Stadler, P.F., (2014):
    A multi-split mapping algorithm for circular RNA, splicing, trans-splicing and fusion detection
    Genome Biol. 15 (2), R34
    full text (url)
  • Imhasly, S., Naegeli, H., Baumann, S., von Bergen, M., Luch, A., Jungnickel, H., Potratz, S., Gerspach, C., (2014):
    Metabolomic biomarkers correlating with hepatic lipidosis in dairy cows
    BMC Vet. Res. 10 , art. 122
    full text (url)
  • Jungandreas, A., Schellenberger Costa, B., Jakob, T., von Bergen, M., Baumann, S., Wilhelm, C., (2014):
    The acclimation of Phaeodactylum tricornutum to blue and red light does not influence the photosynthetic light reaction but strongly disturbs the carbon allocation pattern
    PLOS One 9 (8), e99727
    full text (url)
  • Junge, K.M., Hörnig, F., Herberth, G., Röder, S., Kohajda, T., Rolle-Kampczyk, U., von Bergen, M., Borte, M., Simon, J.-C., Heroux, D., Denburg, J.A., Lehmann, I., (2014):
    The LINA cohort: cord blood eosinophil/basophil progenitors predict respiratory outcomes in early infancy
    Clin. Immunol. 152 (1-2), 68 - 76
    full text (url)
  • Jungnickel, H., Luch, A., Potratz, S., von Bergen, M., Baumann, S., Tarnow, P., (2014):
    Identification of lipidomic biomarkers for coexposure to subtoxic doses of benzo[a]pyrene and cadmium: the toxicological cascade biomarker approach
    Environ. Sci. Technol. 48 (17), 10423 - 10431
    full text (url)
  • Kalkhof, S., Dautel, F., Loguercio, S., Baumann, S., Trump, S., Jungnickel, H., Otto, W., Rudzok, S., Potratz, S., Luch, A., Lehmann, I., Beyer, A., von Bergen, M., (2014):
    Establishing the pathway and time resolved benzo[a]pyrene toxicity on Hepa1c1c7 cells at toxic and subtoxic exposure
    J. Proteome Res.
    full text (url)
  • Kalkhof, S., Förster, Y., Schmidt, J., Schulz, M.C., Baumann, S., Weißflog, A., Gao, W., Hempel, U., Eckelt, U., Rammelt, S., von Bergen, M., (2014):
    Proteomics and metabolomics for in situ monitoring of wound healing
    Biomed Res. Int. 2014 , art. 934848
    full text (url)
  • Kleindienst, S., Herbst, F.-A., Stagars, M., von Netzer, F., von Bergen, M., Seifert, J., Peplies, J., Amann, R., Musat, F., Lueders, T., Knittel, K., (2014):
    Diverse sulfate-reducing bacteria of the Desulfosarcina/Desulfococcus clade are the key alkane degraders at marine seeps
    ISME J. 8 , 2029 - 2044
    full text (url)
  • Marozava, S., Röling, W.F.M., Seifert, J., Küffner, R., von Bergen, M., Meckenstock, R.U., (2014):
    Physiology of Geobacter metallireducens under excess and limitation of electron donors. Part I. Batch cultivation with excess of carbon sources
    Syst. Appl. Microbiol. 37 (4), 277 - 286
    full text (url)
  • Marozava, S., Röling, W.F.M., Seifert, J., Küffner, R., von Bergen, M., Meckenstock, R.U., (2014):
    Physiology of Geobacter metallireducens under excess and limitation of electron donors. Part II. Mimicking environmental conditions during cultivation in retentostats
    Syst. Appl. Microbiol. 37 (4), 287 - 295
    full text (url)
  • Mussotter, F., Haase, A., Tomm, J.M., El Ali, Z., Kerdine-Römer, S., Pallardy, M., von Bergen, M., Luch, A., (2014):
    A proteomics approach to elucidate the role of Nrf2 in primary bone-marrow-derived dendritic cells of mice upon activation by contact allergens
    Toxicol. Lett. 229 (Suppl.), S203
    full text (url)
  • Oberbach, A., Neuhaus, J., Jehmlich, N., Schlichting, N., Heinrich, M., Kullnick, Y., Mohr, F.-W., Kugler, J., Baumann, S., Völker, U., Adams, V., (2014):
    A global proteome approach in uric acid stimulated human aortic endothelial cells revealed regulation of multiple major cellular pathways
    Int. J. Cardiol. 176 (3), 746 - 752
    full text (url)
  • Oberbach, A., Schlichting, N., Neuhaus, J., Kullnick, Y., Lehmann, S., Heinrich, M., Dietrich, A., Mohr, F.-W., von Bergen-Tomm, M., Baumann, S., (2014):
    Establishing of a reliable multiple reaction monitoring-based method for the quantification of obesity associated comorbidities in serum and adipose tissue requires intensive clinical validation
    J. Proteome Res.
    full text (url)
  • Reiche, K., Kasack, K., Schreiber, S., Lüders, T., Due, E.U., Naume, B., Riis, M., Kristensen, VN, Horn, F., Børresen-Dale, A.L., Hackermüller, J., Baumbusch, L.O., (2014):
    Long non-coding RNAs differentially expressed between normal versus primary breast tumor tissues disclose converse changes to breast cancer-related protein-coding genes
    PLOS One 9 (9), e106076
    full text (url)
  • Rivarola-Duarte, L., Otto, C., Jühling, F., Schreiber, S., Bedulina, D.S., Jakob, L., Gurkov, A., Axenov-Gribanov, D., Sahyoun, A.H., Lucassen, M., Hackermüller, J., Hoffmann, S., Sartoris, F., Pörtner, H.-O., Timofeyev, M., Luckenbach, T., Stadler, P.F., (2014):
    A first glimpse at the genome of the Baikalian amphipod Eulimnogammarus verrucosus
    J. Exp. Zool. Part B 322 (3), 177 - 189
    full text (url)
  • Rösch, C., Kohajda, T., Röder, S., von Bergen, M., Schlink, U., (2014):
    Relationship between sources and patterns of VOCs in indoor air
    Atmos. Pollut. Res. 5 (1), 129 - 137
    full text (url)
  • Scheublin, T.R., Deusch, S., Moreno-Forero, S.K., Müller, J.A., van der Meer, J.R., Leveau, J.H.J., (2014):
    Transcriptional profiling of Gram-positive Arthrobacter in the phyllosphere: induction of pollutant degradation genes by natural plant phenolic compounds
    Environ. Microbiol. 16 (7), 2212 - 2225
    full text (url)
  • Schiffmann, C., Hansen, R., Baumann, S., Kublik, A., Nielsen, P.H., Adrian, L., von Bergen, M., Jehmlich, N., Seifert, J., (2014):
    Comparison of targeted peptide quantification assays for reductive dehalogenases by selective reaction monitoring (SRM) and precursor reaction monitoring (PRM)
    Anal. Bioanal. Chem. 406 (1), 283 - 291
    full text (url)
  • Schiffmann, C.L., Jehmlich, N., Otto, W., Hansen, R., Nielsen, P.H., Adrian, L., Seifert, J., von Bergen-Tomm, M., (2014):
    Proteome profile and proteogenomics of the organohalide-respiring bacterium Dehalococcoides mccartyi strain CBDB1 grown on hexachlorobenzene as electron acceptor
    J. Proteomics 98 , 59 - 64
    full text (url)
  • Stegmaier, P., Jehmlich, N., Golatowski, C., Gesell Salazar, M., Völker, U., Henke, M., (2014):
    Identification of differences in the whole saliva baseline proteome profile that are associated with development of oral mucositis in head and neck cancer patients during treatment with IMRT
    Strahlenther. Onkol. 190 (Suppl. 1), 142
    full text (url)
  • Stegmaier, P., Jehmlich, N., Golatowski, C., Gesell Salazar, M., Völker, U., Henke, M., (2014):
    Identification of differences in the whole saliva baseline proteome profile that are associated with development of oral mucositis in head and neck cancer patients during treatment with IMRT
    Int. J. Radiat. Oncol. Biol. Phys. 90 (Suppl. 1), S547
    full text (url)
  • Torres, I.F., Bastida, F., Hernández, T., Bombach, P., Richnow, H.H., García, C., (2014):
    The role of lignin and cellulose in the carbon-cycling of degraded soils under semiarid climate and their relation to microbial biomass
    Soil Biol. Biochem. 75 , 152 - 160
    full text (url)
  • Uhlmann, K., Gibb, S., Kalkhof, S., Arroyo-Abad, U., Schulz, C., Hoffmann, B., Stubbins, F., Carpenter, S., Beer, M., von Bergen, M., Feltens, R., (2014):
    Species determination of Culicoides biting midges via peptide profiling using matrix-assisted laser desorption ionization mass spectrometry
    Parasites Vectors 7 , 392
    full text (url)

  • Baumann, S., Kalkhof, S., Hackermüller, J., Otto, W., Tomm, J.M., Wissenbach, D.K., Rolle-Kampczyk, U., von Bergen, M., (2013):
    Requirements and perspectives for integrating metabolomics with other omics data
    Current Metabolomics 1 (1), 15 - 27
    full text (url)
  • Blumert, C., Kalkhof, S., Brocke-Heidrich, K., Kohajda, T., von Bergen, M., Horn, F., (2013):
    Analysis of the STAT3 interactome using in-situ biotinylation and SILAC
    J. Proteomics 94 , 370 - 386
    full text (url)
  • Bodelier, P.L.E., Meima-Franke, M., Hordijk, C.A., Steenbergh, A.K., Hefting, M.E., Bodrossy, L., von Bergen, M., Seifert, J., (2013):
    Microbial minorities modulate methane consumption through niche partitioning
    ISME J. 7 , 2214 - 2228
    full text (url)
  • Boll, K., Reiche, K., Kasack, K., Mörbt, N., Kretzschmar, A.K., Tomm, J.M., Verhaegh, G., Schalken, J., von Bergen, M., Horn, F., Hackermüller, J., (2013):
    MiR-130a, miR-203 and miR-205 jointly repress key oncogenic pathways and are downregulated in prostate carcinoma
    Oncogene 32 , 277 - 285
    full text (url)
  • Eberlein, C., Estelmann, S., Seifert, J., von Bergen, M., Müller, M., Meckenstock, R.U., Boll, M., (2013):
    Identification and characterization of 2-naphthoyl-coenzyme A reductase, the prototype of a novel class of dearomatizing reductases
    Mol. Microbiol. 88 (5), 1032 - 1039
    full text (url)
  • Ferrer, M., Ruiz, A., Lanza, F., Haange, S.-B., Oberbach, A., Till, H., Bargiela, R., Campoy, C., Segura, M.T., Richter, M., von Bergen, M., Seifert, J., Suarez, A., (2013):
    Microbiota from the distal guts of lean and obese adolescents exhibit partial functional redundancy besides clear differences in community structure
    Environ. Microbiol. 15 (1), 211 - 226
    full text (url)
  • Guazzaroni, M.-E., Herbst, F.-A., Lores, I., Tamames, J., Peláez, A.I., López-Cortés, N., Alcaide, M., del Pozo, M.V., Vieites, J.M., von Bergen, M., Gallego, J.L.R., Bargiela, R., López-López, A., Pieper, D.H., Rosselló-Móra, R., Sánchez, J., Seifert, J., Ferrer, M., (2013):
    Metaproteogenomic insights beyond bacterial response to naphthalene exposure and bio-stimulation
    ISME J. 7 , 122 - 136
    full text (url)
  • Herberth, G., Bauer, M., Gasch, M., Hinz, D., Röder, S., Olek, S., Kohajda, T., Rolle-Kampczyk, U., von Bergen-Tomm, M., Sack, U., Borte, M., Lehmann, I., (2013):
    Maternal and cord blood miR-223 expression associates with prenatal tobacco smoke exposure and with low Treg numbers
    Allergy 68 (Suppl. 97), 628 - 628
    full text (url)
  • Herbst, F.-A., Bahr, A., Duarte, M., Pieper, D.H., Richnow, H.-H., von Bergen, M., Seifert, J., Bombach, P., (2013):
    Elucidation of in situ polycyclic aromatic hydrocarbon degradation by functional metaproteomics (protein-SIP)
    Proteomics 13 (18-19), 2910 - 2920
    full text (url)
  • Herbst, F.-A., Taubert, M., Jehmlich, N., Behr, T., Schmidt, F., von Bergen, M., Seifert, J., (2013):
    Sulfur-34S stable isotope labeling of amino acids for quantification (SULAQ34) of proteomic changes in Pseudomonas fluorescens during naphthalene degradation
    Mol. Cell. Proteomics 12 (8), 2060 - 2069
    full text (url)
  • Hessling, B., Bonn, F., Otto, A., Herbst, F.-A., Rappen, G.-M., Bernhardt, J., Hecker, M., Becher, D., (2013):
    Global proteome analysis of vancomycin stress in Staphylococcus aureus
    Int. J. Med. Microbiol. 303 (8), 624 - 634
    full text (url)
  • Jahn, M., Seifert, J., Hübschmann, T., von Bergen, M., Harms, H., Müller, S., (2013):
    Comparison of preservation methods for bacterial cells in cytomics and proteomics
    Journal of Integrated OMICS 3 (1), 25 - 33
    full text (url)
  • Jahn, M., Seifert, J., von Bergen, M., Schmid, A., Bühler, B., Müller, S., (2013):
    Subpopulation-proteomics in prokaryotic populations
    Curr. Opin. Biotechnol. 24 (1), 79 - 87
    full text (url)
  • Jechalke, S., Franchini, A., Bastida, F., Bombach, P., Rosell, M., Seifert, J., von Bergen, M., Vogt, C., Richnow, H.H., (2013):
    Analysis of structure, function, and activity of a benzene-degrading microbial community
    FEMS Microbiol.Ecol. 85 (1), 14 - 26
    full text (url)
  • Kliemt, S., Lange, C., Otto, W., Hintze, V., Möller, S., von Bergen, M., Hempel, U., Kalkhof, S., (2013):
    Sulfated hyaluronan containing collagen matrices enhance cell-matrix-interaction, endocytosis, and osteogenic differentiation of human mesenchymal stromal cells
    J. Proteome Res. 12 (1), 378 - 389
    full text (url)
  • Kung, J.W., Seifert, J., von Bergen, M., Boll, M., (2013):
    Cyclohexanecarboxyl-coenzyme A (CoA) and cyclohex-1-ene-1-carboxyl-CoA dehydrogenases, two enzymes involved in the fermentation of benzoate and crotonate in Syntrophus aciditrophicus
    J. Bacteriol. 195 (14), 3193 - 3200
    full text (url)
  • Leibeling, S., Maeß, M.B., Centler, F., Kleinsteuber, S., von Bergen, M., Thullner, M., Harms, H., Müller, R.H., (2013):
    Posttranslational oxidative modification of (R)-2-(2,4-dichlorophenoxy)propionate/α-ketoglutarate-dependent dioxygenases (RdpA) leads to improved degradation of 2,4-dichlorophenoxyacetate (2,4-D)
    Eng. Life Sci. 13 (3), 278 - 291
    full text (url)
  • Markle, J.G.M., Frank, D.N., Mortin-Toth, S., Robertson, C.E., Feazel, L.M. , Rolle-Kampczyk, U., von Bergen, M., McCoy, C.D., Macpherson, A.J., Danska, J.S., (2013):
    Sex differences in the gut microbiome drive hormone-dependent regulation of autoimmunity
    Science 339 (6123 ), 1084 - 1088
    full text (url)
  • Möbius, K., Nordsieck, K., Pichert, A., Samsonov, S.A., Thomas, L., Schiller, J., Kalkhof, S., Pisabarro, M.T., Beck-Sickinger, A.G., Huster, D., (2013):
    Investigation of lysine side chain interactions of interleukin-8 with heparin and other glycosaminoglycans studied by a methylation-NMR approach
    Glycobiology 23 (11), 1260 - 1269
    full text (url)
  • Mueller, A., Schlink, U., Wichmann, G., Bauer, M., Graebsch, C., Schüürmann, G., Herbarth, O., (2013):
    Individual and combined effects of mycotoxins from typical indoor moulds
    Toxicol. Vitro 27 (6), 1970 - 1978
    full text (url)
  • Müller, S.A., Findeiß, S., Pernitzsch, S.R., Wissenbach, D.K., Stadler, P.F., Hofacker, I.L., von Bergen, M., Kalkhof, S., (2013):
    Identification of new protein coding sequences and signal peptidase cleavage sites of Helicobacter pylori strain 26695 by proteogenomics
    J. Proteomics 86 , 27 - 42
    full text (url)
  • Murugaiyan, J., Rockstroh, M., Wagner, J., Baumann, S., Schorsch, K., Trump, S., Lehmann, I., von Bergen, M., Tomm, J.M., (2013):
    Benzo[a]pyrene affects Jurkat T cells in the activated state via the antioxidant response element dependent Nrf2 pathway leading to decreased IL-2 secretion and redirecting glutamine metabolism
    Toxicol. Appl. Pharmacol. 269 (3), 307 - 316
    full text (url)
  • Murugaiyan, J., Weise, C., von Bergen, M., Roesler, U., (2013):
    Two-dimensional proteome reference map of Prototheca zopfii revealed reduced metabolism and enhanced signal transduction as adaptation to an infectious life style
    Proteomics 13 (17), 2664 - 2669
    full text (url)
  • Murugesan, K., Baumann, S., Wissenbach, D.K., Kliemt, S., Kalkhof, S., Otto, W., Mögel, I., Kohajda, T., von Bergen, M., Tomm, J.M., (2013):
    Subtoxic and toxic concentrations of benzene and toluene induce Nrf-2 mediated anti-oxidative stress response and affect the central carbon metabolism in lung epithelial cells A549
    Proteomics 13 (21), 3211 - 3221
    full text (url)
  • Pérez-Cobas, A.E., Gosalbes, M.J., Friedrichs, A., Knecht, H., Artacho, A., Eismann, K., Otto, W., Rojo, D., Bargiela, R., von Bergen, M., Neulinger, S.C., Däumer, C., Heinsen, F.A., Latorre, A., Barbas, C., Seifert, J., Martins dos Santos, V., Ott, S.J., Ferrer, M., Moya, A., (2013):
    Gut microbiota disturbance during antibiotic therapy: a multi-omic approach
    Gut 62 , 1591 - 1601
    full text (url)
  • Schipp, C.-J., Marco-Urrea, E., Kublik, A., Seifert, J., Adrian, L., (2013):
    Organic cofactors in the metabolism of Dehalococcoides mccartyi strains
    Philos. Trans. R. Soc. B-Biol. Sci. 368 (1616), 20120321
    full text (url)
  • Seifert, J., Herbst, F.-A., Nielsen, P.H., Planes, F.J., Ferrer, M., von Bergen, M., (2013):
    Bioinformatic progress and applications in metaproteogenomics for bridging the gap between genomic sequences and metabolic functions in microbial communities
    Proteomics 13 (18-19), 2786 - 2804
    full text (url)
  • Siegert, M., Taubert, M., Seifert, J., von Bergen-Tomm, M., Basen, M., Bastida, F., Gehre, M., Richnow, H.-H., Krüger, M., (2013):
    The nitrogen cycle in anaerobic methanotrophic mats of the Black Sea is linked to sulfate reduction and biomass decomposition
    FEMS Microbiol.Ecol. 86 (2), 231 - 245
    full text (url)
  • Tang, S., Chan, W.W.M., Fletcher, K.E., Seifert, J., Liang, X., Löffler, F.E., Edwards, E.A., Adrian, L., (2013):
    Functional characterization of reductive dehalogenases using blue native polyacrylamide gel electrophoresis
    Appl. Environ. Microb. 79 (3), 974 - 981
    full text (url)
  • Taubert, M., von Bergen-Tomm, M., Seifert, J., (2013):
    Limitations in detection of 15N incorporation by mass spectrometry in protein-based stable isotope probing (protein-SIP)
    Anal. Bioanal. Chem. 405 (12), 3989 - 3996
    full text (url)
  • Tomm, J.M., Krause, C., Simon, J.C., Treudler, R., von Bergen, M., Averbeck, M., (2013):
    Pyruvate kinase and phosphopyruvate hydratase as novel IgE reactive proteins in prawn
    J. Invest. Allergol. Clin. Immunol. 23 (6), 443 - 445
  • Tomm, J.M., Otto, W., Servos, U., Bertram, B., von Bergen, M., Baumann, S., (2013):
    Starvation of Jurkat T cells causes metabolic switch from glycolysis to lipolysis as revealed by comprehensive GC-qMS
    Journal of Integrated OMICS 3 (1), 70 - 74
    full text (url)
  • Tomm, J.M., van Do, T., Jende, C., Simon, J.C., Treudler, R., von Bergen, M., Averbeck, M., (2013):
    Identification of new potential allergens from Nile perch (Lates niloticus) and Cod (Gadus morhua)
    J. Invest. Allergol. Clin. Immunol. 23 (3), 159 - 167
  • von Bergen, M., Jehmlich, N., Taubert, M., Vogt, C., Bastida, F., Herbst, F.-A., Schmidt, F., Richnow, H.-H., Seifert, J., (2013):
    Insights from quantitative metaproteomics and protein-stable isotope probing into microbial ecology
    ISME J. 7 (10), 1877 - 1885
    full text (url)
  • Weisse, K., Herberth, G., Röder, S., Borte, M., Heroux, D., Denburg, J., Lehmann, I., (2013):
    Eosinophil/basophil (Eo/B) progenitors in cord blood (CB) predict respiratory outcomes in early infancy
    Allergy 68 (Suppl. 97), 53 - 53
    full text (url)
  • Weisse, K., Winkler, S., Hirche, F., Herberth, G., Hinz, D., Bauer, M., Röder, S., Rolle-Kampczyk, U., von Bergen, M., Olek, S., Richter, T., Diez, U., Borte, M., Stangl, G.I., Lehmann, I., (2013):
    Maternal and newborn vitamin D status and its impact on food allergy development in the German LINA cohort study
    Allergy 68 (2), 220 - 228
    full text (url)
  • Will, S., Siebauer, M.F., Heyne, S., Engelhardt, J., Stadler, P.F., Reiche, K., Backofen, R., (2013):
    LocARNAscan: Incorporating thermodynamic stability in sequence and structure-based RNA homology search
    Algorithms Mol. Biol. 8 , art. 14
    full text (url)
 

Publications 2012

  • Abburi, R., Kalkhof, S., Oehme, R., Kiontke, A., Birkemeyer, C., (2012):
    Artifacts in amine analysis from anodic oxidation of organic solvents upon electrospray ionization for mass spectrometry
    Eur. J. Mass Spectrom. 18 (3), 301 - 312
    full text (url)
  • Baumgarten, T., Sperling, S., Seifert, J., von Bergen, M., Steiniger, F., Wick, L.Y., Heipieper, H.J., (2012):
    Membrane vesicle formation as multiple stress response mechanism enhances cell surface hydrophobicity and biofilm formation of Pseudomonas putida DOT-T1E
    Appl. Environ. Microb. 78 (17), 6217 - 6224
    full text (url)
  • Blaschke, U., Eismann, K., Böhme, A., Paschke, A., Schüürmann, G., (2012):
    Structural alerts for the excess toxicity of acrylates, methacrylates, and propiolates derived from their short-term and long-term bacterial toxicity
    Chem. Res. Toxicol. 25 (1), 170 - 180
    full text (url)
  • Bönisch, U., Böhme, A., Kohajda, T., Mögel, I., Schütze, N., von Bergen, M., Simon, J.C., Lehmann, I., Polte, T., (2012):
    Volatile organic compounds enhance allergic airway inflammation in an experimental mouse model
    PLoS One 7 (7), e39817
    full text (url)
  • Bozinovski, D., Herrmann, S., Richnow, H.-H., von Bergen, M., Seifert, J., Vogt, C., (2012):
    Functional analysis of an anaerobic m-xylene-degrading enrichment culture using protein-based stable isotope probing
    FEMS Microbiol.Ecol. 81 (1), 134 - 144
    full text (url)
  • Goettsch, C., Kliemt, S., Sinningen, K., von Bergen, M., Hofbauer, L.C., Kalkhof, S., (2012):
    Quantitative proteomics reveals novel functions of osteoclast-associated receptor in STAT signaling and cell adhesion in human endothelial cells
    J. Mol. Cell. Cardiol. 53 (6), 829 - 837
    full text (url)
  • Gündel, U., Kalkhof, S., Zitzkat, D.P., von Bergen, M., Altenburger, R., Küster, E., (2012):
    Concentration-response concept in ecotoxicoproteomics: effects of different phenanthrene concentrations to the zebrafish (Danio rerio) embryo proteome
    Ecotox. Environ. Safe. 76 (1), 11 - 22
    full text (url)
  • Haange, S.-B., Oberbach, A., Schlichting, N., Hugenholtz, F., Smidt, H., von Bergen, M., Till, H., Seifert, J., (2012):
    Metaproteome analysis and molecular genetics of rat intestinal microbiota reveals section and localisation resolved species distribution and enzymatic functionalities
    J. Proteome Res. 11 (11), 5406 - 5417
    full text (url)
  • Haas, S., Jahnke, H.-G., Moerbt, N., von Bergen, M., Aharinejad, S., Andrukhova, O., Robitzki, A.A., (2012):
    DIGE proteome analysis reveals suitability of ischemic cardiac in vitro model for studying cellular response to acute ischemia and regeneration
    PLoS One 7 (2), e31669
    full text (url)
  • Hörnig, F., Weisse, K., Röder, S., Kohajda, T., von Bergen-Tomm, M., Borte, M., Diez, U., Simon, J., Denburg, J., Lehmann, I., (2012):
    Infantile eosinophil/basophil progenitors are more sensitive to indoor chemical exposures compared to their mothers
    Allergy 67 (Suppl. 96), 574 - 574
    full text (url)
  • Jehmlich, N., Kopinke, F.-D., Lenhard, S., Vogt, C., Herbst, F.-A., Seifert, J., Lissner, U., Völker, U., Schmidt, F., von Bergen, M., (2012):
    Sulfur-36S stable isotope labeling of amino acids for quantification (SULAQ)
    Proteomics 12 (1), 37 - 42
    full text (url)
  • Kermer, R., Hedrich, S., Taubert, M., Baumann, S., Schlömann, M., Johnson, D.B., Seifert, J., (2012):
    Elucidation of carbon transfer in a mixed culture of Acidiphilium cryptum and Acidithiobacillus ferrooxidans using protein-based stable isotope probing
    Journal of Integrated OMICS 2 (1), 37 - 45
    full text (url)
  • Kespohl, S., Kotschy-Lang, N., Tomm, J.M., von Bergen, M., Maryska, S., Brüning, T., Raulf-Heimsoth, M., (2012):
    Occupational IgE-mediated softwood allergy: characterization of the causative allergen
    Int. Arch. Allergy Immunol. 157 (2), 202 - 208
    full text (url)
  • Lipstein, N., Schaks, S., Dimova, K., Kalkhof, S., Ihling, C., Kolbel, K., Ashery, U., Rhee, J., Brose, N., Sinz, A., Jahn, O., (2012):
    Non-conserved Ca2+/calmodulin binding sites in Munc13s differentially control synaptic short-term plasticity
    Mol. Cell. Biol. 32 (22), 4628 - 4641
    full text (url)
  • Marco-Urrea, E., Seifert, J., von Bergen, M., Adrian, L., (2012):
    Stable isotope peptide mass spectrometry to decipher amino acid metabolism in Dehalococcoides strain CBDB1
    J. Bacteriol. 194 (16), 4169 - 4177
    full text (url)
  • Morris, B.E.L., Herbst, F.-A., Bastida, F., Seifert, J., von Bergen, M., Richnow, H.-H., Suflita, J.M., (2012):
    Microbial interactions during residual oil and n-fatty acid metabolism by a methanogenic consortium
    Environ. Microbiol. Rep. 4 (3), 297 - 306
    full text (url)
  • Müller, A., (2012):
    Schimmelpilzexposition im Innenraum und deren gesundheitlichen Auswirkungen
    Dissertation, Universität Leipzig
    96 S.
  • Müller, S.A., van der Smissen, A., von Feilitzsch, M., Anderegg, U., Kalkhof, S., von Bergen, M., (2012):
    Quantitative proteomics reveals altered expression of extracellular matrix related proteins of human primary dermal fibroblasts in response to sulfated hyaluronan and collagen applied as artificial extracellular matrix
    J. Mater. Sci.-Mater. Med. 23 (12), 3053 - 3065
    full text (url)
  • Oberbach, A., von Bergen, M., Blueher, S., Lehmann, S., Till, H., (2012):
    Combined serum proteomic and metabonomic profiling after laparoscopic sleeve gastrectomy in children and adolescents
    J. Laparoendosc. Adv. Surg. Tech. 22 (2), 184 - 188
    full text (url)
  • Oberender, J., Kung, J.W., Seifert, J., von Bergen, M., Boll, M., (2012):
    Identification and characterization of a succinyl-coenzyme A (CoA):benzoate CoA transferase in Geobacter metallireducens
    J. Bacteriol. 194 (10), 2501 - 2508
    full text (url)
  • Otto, C., Reiche, K., Hackermüller, J., (2012):
    Detection of differentially expressed segments in tiling array data
    Bioinformatics 28 (11), 1471 - 1479
    full text (url)
  • Pohler, P., Lehmann, J., Veneruso, V., Tomm, J., von Bergen, M., Lambrecht, B., Kohn, B., Weingart, C., Müller, T.H., Seltsam, A., (2012):
    Evaluation of the tolerability and immunogenicity of ultraviolet C-irradiated autologous platelets in a dog model
    Transfusion 52 (11), 2414 - 2426
    full text (url)
  • Reinhold, A., Westermann, M., Seifert, J., von Bergen, M., Schubert, T., Diekert, G., (2012):
    Impact of vitamin B12 on the formation of the tetrachloroethene reductive dehalogenase in Desulfitobacterium hafniense strain Y51
    Appl. Environ. Microb. 78 (22), 8025 - 8032
    full text (url)
  • Salbach, J., Kliemt, S., Rauner, M., Rachner, T.D., Goettsch, C., Kalkhof, S., von Bergen, M., Möller, S., Schnabelrauch, M., Hintze, V., Scharnweber, D., Hofbauer, L.C., (2012):
    The effect of the degree of sulfation of glycosaminoglycans on osteoclast function and signaling pathways
    Biomaterials 33 (33), 8418 - 8429
    full text (url)
  • Schmidt, A.-C., Lauckner, S., Lindner, K., (2012):
    CZE of sulfur-containing amino acids and peptides and its application to the quantitative study of heavy metal-caused thiol oxidations
    Chromatographia 75 (11-12), 661 - 670
    full text (url)
  • Seifert, J., Taubert, M., Jehmlich, N., Schmidt, F., Völker, U., Vogt, C., Richnow, H.H., von Bergen, M., (2012):
    Protein-based stable isotope probing (protein-SIP) in functional metaproteomics
    Mass Spectrom. Rev. 31 (6), 683 - 697
    full text (url)
  • Sultana, M., Vogler, S., Zargar, K., Schmidt, A.-C., Saltikov, C., Seifert, J., Schlömann, M., (2012):
    New clusters of arsenite oxidase and unusual bacterial groups in enrichments from arsenic-contaminated soil
    Arch. Microbiol. 194 (7), 623 - 635
    full text (url)
  • Taubert, M., Vogt, C., Wubet, T., Kleinsteuber, S., Tarkka, M.T., Harms, H., Buscot, F., Richnow, H.-H., von Bergen, M., Seifert, J., (2012):
    Protein-SIP enables time-resolved analysis of the carbon flux in a sulfate-reducing, benzene-degrading microbial consortium
    ISME J. 6 (12), 2291 - 2301
    full text (url)
  • von Bergen, M., Reiche, K., Hösler, N., Rockstroh, M., Horn, F., Hackermüller, J., Tomm, J., (2012):
    A time resolved analysis of nc/mRNA and protein expression throughout Th cell activation
    Immunology 137 (Suppl. S1), 364 - 364
    full text (url)
  • Wagner, A., Cooper, M., Ferdi, S., Seifert, J., Adrian, L., (2012):
    Growth of Dehalococcoides mccartyi strain CBDB1 by reductive dehalogenation of brominated benzenes to benzene
    Environ. Sci. Technol. 46 (16), 8960 - 8968
    full text (url)
  • Weisse, K., Lehmann, I., Heroux, D., Kohajda, T., Herberth, G., Röder, S., von Bergen, M., Borte, M., Denburg, J., (2012):
    The LINA cohort: indoor chemical exposure, circulating eosinophil/basophil (Eo/B) progenitors and early life skin manifestations
    Clin. Exp. Allergy 42 (9), 1337 - 1346
    full text (url)
  • Weisse, K., Winkler, S., Stangl, G.I., Hirche, F., Herberth, G., Hinz, D., Bauer, M., Röder, S., Rolle-Kampczyk, U., von Bergen-Tomm, M., Olek, S., Sack, U., Borte, M., Richter, T., Lehmann, I., (2012):
    Maternal and newborn vitamin D status and its impact on fetal regulatory T cell development and children's atopy risk in the German LINA cohort study
    J. Reprod. Immunol. 94 (1), 53 - 54
    full text (url)
  • Wirth, H., von Bergen, M., Binder, H., (2012):
    Mining SOM expression portraits: feature selection and integrating concepts of molecular function
    BioData Mining 5 (October), art. 18
    full text (url)
  • Wirth, H., von Bergen, M., Murugaiyan, J., Roesler, U., Stokowy, T., Binder, H., (2012):
    MALDI-typing of infectious algae of the genus Prototheca using SOM portraits
    J. Microbiol. Methods 88 (1), 83 - 89
    full text (url)
  • Wuttig, D., Zastrow, S., Füssel, S., Toma, M.I., Meinhardt, M., Kalman, K., Junker, K., Sanjmyatav, J., Boll, K., Hackermüller, J., Rolle, A., Grimm, M.O., Wirth, M.P., (2012):
    CD31, EDNRB and TSPAN7 are promising prognostic markers in clear-cell renal cell carcinoma revealed by genome-wide expression analyses of primary tumors and metastases
    Int. J. Cancer 131 (5), E693 - E704
    full text (url)


Publikationen 2011
  • Bastida, F., Jechalke, S., Bombach, P., Franchini, A. G., Seifert, J., von Bergen, M., Vogt, C., and Richnow, H. H. (2011):
    Assimilation of benzene carbon through multiple trophic levels traced by different stable isotope probing methodologies
    FEMS Microbiology Ecology 77, 357-369
    http://dx.doi.org/10.1111/j.1574-6941.2011.01118.x
  • Dautel, F., Kalkhof, S., Trump, S., Michaelson, J., Beyer, A., Lehmann, I., and von Bergen, M. (2011):
    DIGE-based protein expression analysis of B[a]P-exposed hepatoma cells reveals a complex stress response including alterations in oxidative stress, cell cycle control, and cytoskeleton motility at toxic and subacute concentrations
    J Proteome Res 10, 379-393
    http://dx.doi.org/10.1021/pr100723d [doi]
  • Georgieva, D., Seifert, J., Öhler, M., von Bergen, M., Spencer, P., Arni, R. K., Genov, N., and Betzel, C. (2011):
    Pseudechis australis Venomics: Adaptation for a Defense against Microbial Pathogens and Recruitment of Body Transferrin
    Journal of Proteome Research 10, 2440-2464
    http://dx.doi.org/10.1021/pr101248e
  • Hedrich, S., Lunsdorf, H., Kleeberg, R., Heide, G., Seifert, J., and Schlomann, M. (2011):
    Schwertmannite Formation Adjacent to Bacterial Cells in a Mine Water Treatment Plant and in Pure Cultures of Ferrovum myxofaciens
    Environ Sci Technol 45, 7685-7692
    http://dx.doi.org/10.1021/es201564g [doi]
  • Marco-Urrea, E., Paul, S., Khodaverdi, V., Seifert, J., von Bergen, M., Kretzschmar, U., and Adrian, L. (2011):
    Identification and Characterization of a Re-Citrate Synthase in Dehalococcoides Strain CBDB1
    J. Bacteriol. 193, 5171-5178
    http://dx.doi.org/10.1128/jb.05120-11
  • Mögel, I., Baumann, S., Böhme, A., Kohajda, T., von Bergen, M., Simon, J.-C., and Lehmann, I. (2011):
    The aromatic volatile organic compounds toluene, benzene and styrene induce COX-2 and prostaglandins in human lung epithelial cells via oxidative stress and p38 MAPK activation
    Toxicology 289, 28-37
  • Morbt, N., Tomm, J., Feltens, R., Mogel, I., Kalkhof, S., Murugesan, K., Wirth, H., Vogt, C., Binder, H., Lehmann, I., and von Bergen, M. (2011):
    Chlorinated benzenes cause concomitantly oxidative stress and induction of apoptotic markers in lung epithelial cells (A549) at nonacute toxic concentrations
    J Proteome Res 10, 363-378
    http://dx.doi.org/10.1021/pr1005718 [doi]
  • Oberbach, A., Blüher, M., Wirth, H., Till, H., Kovacs, P., Kullnick, Y., Schlichting, N., Tomm, J. M., Rolle-Kampczyk, U., Murugaiyan, J., Binder, H., Dietrich, A., and von Bergen, M. (2011):
    Combined Proteomic and Metabolomic Profiling of Serum Reveals Association of the Complement System with Obesity and Identifies Novel Markers of Body Fat Mass Changes
    Journal of Proteome Research, http://dx.doi.org/10.1021/pr2005555
  • Schramedei, K., Morbt, N., Pfeifer, G., Lauter, J., Rosolowski, M., Tomm, J. M., von Bergen, M., Horn, F., and Brocke-Heidrich, K. (2011):
    MicroRNA-21 targets tumor suppressor genes ANP32A and SMARCA4
    Oncogene 30, 2975-2985
    http://dx.doi.org/onc201115 [pii] 10.1038/onc.2011.15 [doi]
  • Taubert, M., Baumann, S., von Bergen, M., and Seifert, J. (2011):
    Exploring the limits of robust detection of incorporation of <sup>13</sup>C by mass spectrometry in protein-based stable isotope probing (protein-SIP)
    Analytical and Bioanalytical Chemistry, 1975-1982
    http://dx.doi.org/10.1007/s00216-011-5289-4
  • Taubert, M., Jehmlich, N., Vogt, C., Richnow, H. H., Schmidt, F., von Bergen, M., and Seifert, J. (2011):
    Time resolved protein-based stable isotope probing (Protein-SIP) analysis allows quantification of induced proteins in substrate shift experiments
    PROTEOMICS 11, 2265-2274
    http://dx.doi.org/10.1002/pmic.201000788
  • Washietl, S., Findeiss, S., Muller, S. A., Kalkhof, S., von Bergen, M., Hofacker, I. L., Stadler, P. F., and Goldman, N. (2011):
    RNAcode: robust discrimination of coding and noncoding regions in comparative sequence data
    RNA 17, 578-594
    http://dx.doi.org/rna.2536111 [pii] 10.1261/rna.2536111 [doi]
  • Wirth, H., Loffler, M., von Bergen, M., and Binder, H. (2011):
    Expression cartography of human tissues using self organizing maps
    BMC Bioinformatics 12, 306

    Publikationen 2010
    • Jehmlich, N., Schmidt, F., Taubert, M., Seifert, J., Bastida, F., von Bergen, M., Richnow, H.H., and Vogt, C. (2010):
      Protein stable-isotope probing (Protein-SIP)
      Nat Protoc 5, 1957-1966
      http://www.ncbi.nlm.nih.gov/pubmed/21127489
    • Jehmlich, N., Kleinsteuber, S., Vogt, C., Benndorf, D., Harms, H., Schmidt, F., von Bergen, M. , and Seifert, J. (2010):
      Phylogenetic and proteomic analysis of an anaerobic toluene-degrading community
      J Appl Microbiol 109, 1937-1945
      http://dx.doi.org/10.1111/j.1365-2672.2010.04823
    • Sträuber, H., Hübschmann, T., Jehmlich, N., Schmidt, F., von Bergen, M. , Harms, H., and Muller, S. (2010):
      NBDT (3-(N-(7-nitrobenz-2-oxa-1,3-diazol-4-yl)amino)-3-toluene)--a novel fluorescent dye for studying mechanisms of toluene uptake into vital bacteria
      Cytometry A 77, 113-120
      http://dx.doi.org/10.1002/cyto.a.20811
    • Selesi, D., Jehmlich, N., von Bergen, M. , Schmidt, F., Rattei, T., Tischler, P., Lueders, T., and Meckenstock, R. U. (2010):
      Combined genomic and proteomic approaches identify gene clusters involved in anaerobic 2-methylnaphthalene degradation in the sulfate-reducing enrichment culture N47
      J Bacteriol 192, 295-306
      http://dx.doi.org/10.1128/JB.00874-09
    • Schirmer, C., Klein, C., von Bergen, M. , Simon, J. C., and Saalbach, A. (2010):
      Human fibroblasts support the expansion of IL-17-producing T cells via up-regulation of IL-23 production by dendritic cells
      Blood116,1715-1725
      http://dx.doi.org/10.1182/blood-2010-01-263509
    • Öhler, M., Georgieva, D., Seifert, J., von Bergen, M. , Arni, R. K., Genov, N., and Betzel, C. (2010):
      The venomics of Bothrops alternatus is a pool of acidic proteins with predominant hemorrhagic and coagulopathic activities
      J Proteome Res 9, 2422-2437
      http://dx.doi.org/10.1021/pr901128x
    • Müller, S. A., Kohajda, T., Findeiss, S., Stadler, P. F., Washietl, S., Kellis, M., von Bergen, M. , and Kalkhof, S. (2010):
      Optimization of parameters for coverage of low molecular weight proteins
      Anal Bioanal Chem
      http://dx.doi.org/10.1007/s00216-010-4093-x
    • Leibeling, S., Schmidt, F., Jehmlich, N., von Bergen, M. , Muller, R. H., and Harms, H. (2010):
      Declining capacity of starving Delftia acidovorans MC1 to degrade phenoxypropionate herbicides correlates with oxidative modification of the initial enzyme
      Environ Sci Technol 44, 3793-3799
      http://dx.doi.org/10.1021/es903619j
    • Kung, J. W., Baumann, S., von Bergen, M. , Muller, M., Hagedoorn, P. L., Hagen, W. R., and Boll, M. (2010):
      Reversible biological Birch reduction at an extremely low redox potential
      J Am Chem Soc 132, 9850-9856
      http://dx.doi.org/10.1021/ja103448u
    • Jehmlich, N., Hübschmann, T., Gesell Salazar, M., Völker, U., Benndorf, D., Muller, S., von Bergen, M. , and Schmidt, F. (2010):
      Advanced tool for characterization of microbial cultures by combining cytomics and proteomics
      Appl Microbiol Biotechnol 88, 575-584
      http://dx.doi.org/10.1007/s00253-010-2753-6
    • Jehmlich, N., Fetzer, I., Seifert, J., Mattow, J., Vogt, C., Harms, H., Thiede, B., Richnow, H. H., von Bergen, M. , and Schmidt, F. (2010):
      Decimal place slope, a fast and precise method for quantifying 13C incorporation levels for detecting the metabolic activity of microbial species
      Mol Cell Proteomics 9, 1221-1227
      http://dx.doi.org/10.1074/mcp.M900407-MCP200
    • Georgieva, D., Redecke, L., von Bergen, M. , Genov, N., and Betzel, C. (2010):
      Interactions of ginkgolides A and B with a recombinant human prion protein
      Protein Pept Lett 17, 399-404
      http://www.benthamdirect.org/pages/b_viewarticle.php?3157685
    • Georgieva, D., Öhler, M., Seifert, J., von Bergen, M. , Arni, R. K., Genov, N., and Betzel, C. (2010):
      Snake venomic of Crotalus durissus terrificus--correlation with pharmacological activities
      J Proteome Res 9, 2302-2316
      http://dx.doi.org/10.1021/pr901042p
    • Fetzer, I., Jehmlich, N., Vogt, C., Richnow, H. H., Seifert, J., Harms, H., von Bergen, M. , and Schmidt, F. (2010):
      Calculation of partial isotope incorporation into peptides measured by mass spectrometry
      BMC Res Notes 3, 178
      http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2913921/?tool=pubmed
    • Feltens, R., Görner, R., Kalkhof, S., Gröger-Arndt, H., and von Bergen, M. (2010):
      Discrimination of different species from the genus Drosophila by intact protein profiling using matrix-assisted laser desorption ionization mass spectrometry
      BMC Evol Biol 10, 95
      http://dx.doi.org/10.1186/1471-2148-10-95
    • Bastida, F., Rosell, M., Franchini, A. G., Seifert, J., Finsterbusch, S., Jehmlich, N., Jechalke, S., von Bergen, M. , and Richnow, H. H. (2010):
      Elucidating MTBE degradation in a mixed consortium using a multidisciplinary approach
      FEMS Microbiol Ecol 73, 370-384
      http://dx.DOI.org/10.1111/j.1574-6941.2010.00889.x


    Publikationen 2009
  • Heine, F., Stahl, F., Sträuber, H., Wiacek, C., Benndorf, D., Repenning, C., Schmidt, F., Scheper, T., von Bergen, M., Harms, H., Müller, S. (2009):
    Prediction of flocculation ability of brewing yeast inoculates by flow cytometry, proteome analysis, and mRNA profiling
    Cytometry Part A 75A (2), 140-147
    http://dx.doi.org/10.1002/cyto.a.20661
  • von Bergen, M., Eidner, A., Schmidt, F., Murugaiyan, J., Wirth, H., Binder, H., Maier, T., Roesler, U.
    Identification of harmless and pathogenic algae of the genus Prototheca by MALDI-MS.
    Proteomics – Clinical applications, 2009, in press
  • Schleinitz K.M., Schmeling, S., Jehmlich, N., von Bergen, M., Harms H., Kleinsteuber S., Vogt, C., Fuchs, G.,
    Phenol degradation pathway in the strictly anaerobic iron reducing bacterium Geobacter metallireducens.
    Applied and Environmental Microbiology, in press
  • Jehmlich, N., Schmidt, F., Taubert, M., Seifert, J., von Bergen, M., Richnow, H.-H., Vogt, C.,
    Comparison of methods for simultaneous identification of bacterial species and determination of metabolic activity by protein-based stable isotope probing (Protein-SIP) experiments.
    Rapid Communication in Mass Spectrometry, in press
  • Benndorf, D., Vogt, C., Jehmlich, N., Schmidt, Y., Thomas, H., Woffendin, G., Shevchenko, A., Richnow, H.H. von Bergen, M.,
    Improving protein extraction and separation methods for investigating the metaproteome of anaerobic benzene communities within sediments.
    Biodegradation, 2009, 20 (6), 737-750
  • Risch, M., Georgieva, D. von Bergen, M., Jehmlich, N., Arnid, R.K., Betzel, C.,
    Snake venomics of the Siamese Russell's viper (Daboia russelli siamensis) - Relation to pharmacological activities.
    Journal of Proteomics 72 (2), 256-269
  • Wichmann G, Franck U, Herbarth O, Rehwagen M, Dietz A, Massolo L, Ronco A, Müller A.
    Different immunomodulatory effects associated with sub-micrometer particles in ambient air from rural, urban and industrial areas.
    Toxicology. 2009 Mar 29;257(3):127-36. (http://www.ncbi.nlm.nih.gov/pubmed/19159656)
  • Jehmlich, N., Schmidt, F., Taubert, M.,Seifert, J., von Bergen, M., Richnow, H.-H., Vogt, C.
    Comparison of methods for simultaneous identification of bacterial species and determination of metabolic activity by protein-based stable isotope probing (Protein-SIP) experiments
    Rapid.Comm.Mass.Spectrom. 2009, 12, 1871-1878
  • Junghanns, C., Pecyna, M. J., Böhm, D., Jehmlich, N., Martin, C., von Bergen, M., Schauer, F., Hofrichter, M., Schlosser, D.
    Biochemical and molecular genetic characterisation of a novel laccase produced by the aquatic ascomycete Phoma sp. UHH 5-1-03
    Appl.Microbiol.Biotechnol. 2009, 84 (6), 1095-1105
  • Schleinitz, K. M., Schmeling, S., Jehmlich, N., von Bergen, M., Harms, H., Kleinsteuber, S., Vogt, C., Fuchs, G. Phenol degradation in the strictly anaerobic iron-reducing bacterium Geobacter metallireducens GS-15
    Appl.Environ.Microb. 2009, 75 (12), 3912-3919
  • Heine, F., Stahl, F., Sträuber, H., Wiacek, C., Benndorf, D., Repenning, C., Schmidt, F., Scheper, T., von Bergen, M., Harms, H., Müller, S. Prediction of flocculation ability of brewing yeast inoculates by flow cytometry, proteome analysis, and mRNA profiling
    Cytometry Part A 2009, 75A (2), 140-147
  • Wischgoll, S., Taubert, M., Peters, F., Jehmlich, N., von Bergen, M., Boll, M. Decarboxylating and nondecarboxylating glutaryl-coenzyme A dehydrogenases in the aromatic metabolism of obligately anaerobic bacteria
    J.Bacteriol. 2009, 191 (13), 4401-4409
  • Feltens, R., Mögel, I., Röder-Stolinski, C., Simon, J. C., Herberth, G., Lehmann, I. (2010): Chlorobenzene induces oxidative stress in human lung epithelial cells in vitro
    Toxicology and Applied Pharmacology 2009, 242 (1), 100-108
  • Georgieva, D., Redecke, L., von Bergen, M., Genov, N., Betzel, C. Interactions of Ginkgolides A and B with a Recombinant Human Prion Protein
    Protein Peptid Letters published online first
  • Massolo, L. A., Müller, A., Herbarth, O., Ronco, A. E., Porta, A. A. (2008): Contaminación atmosférica y salud infantil en áreas urbanas e industriales de La Plata, Argentina
    Acta Bioquímica Clínica Latinoamericana 2009, 42 (4), 567-574
  • Matysik, S., Herbarth, O., Müller, A. Determination of microbial volatile organic compounds (MVOCs) by passive sampling onto charcoal sorbents
    Chemosphere 2009, 76 (1), 114-119
  • Mörbt, N., Mögel, I., Kalkhof, S., Feltens, R., Röder-Stolinski, C., Zheng, J., Vogt, C., Lehmann, I., von Bergen, M. Proteome changes in human bronchoalveolar cells following styrene exposure indicate involvement of oxidative stress in the molecular-response mechanism
    Proteomics 2009, 9 (21), 4909-4933
  • Rehders, D., Classen, B., Redecke, L., Buschke, A., Reibe, C., Jehmlich, N., von Bergen, M., Betzel, A., Meyer, B. Peptide NMHRYPNQ of the Cellular Prion Protein (PrPC) Inhibits Aggregation and Is a Potential Key for Understanding Prion-Prion Interactions
    Journal of molecular biology 2009, 392 (1), 198-207
  • Rudzok, S., Krejèi, S., Graebsch, C., Herbarth, O., Müller, A., Bauer, M. Toxicity profiles of 4 metals and 17 xenobiotics in the human hepatoma cell line HepG2 and the protozoa Tetrahymena pyriformis - a comparison
    Environ.Toxicol. 2009, published online first
  • von Bergen, M., Eidner, A., Schmidt, F., Murugaiyan, J., Wirth, H., Binder, H., Maier, T., Roesler, U. Identification of harmless and pathogenic algae of the genus Prototheca by MALDI-MS
    Proteomics - clinical applications 2009, 3 (7), 774-787
  • Wichmann, F., Müller, A., Busi, L. E., Cianni, N., Massolo, L., Schlink, U., Porta, A., Sly, P. D. Increased asthma and respiratory symptoms in children exposed to petrochemical pollution
    J.Allergy Clin.Immunol. 2009, 123 (3), 632-638
  • Wichmann, G., Franck, U., Herbarth, O., Rehwagen, M., Dietz, A., Massolo, L., Ronco, A., Müller, A. Different immunomodulatory effects associated with sub-micrometer particles in ambient air from rural, urban and industrial areas
    Toxicology 2009, 257 (3), 127-136
  • Matysik S, Herbarth O, Mueller A. Determination of microbial volatile organic compounds (MVOCs) by passive sampling onto charcoal sorbents.
    Chemosphere, in press (http://www.ncbi.nlm.nih.gov/pubmed/19289243)


Publikationen 2008
  • Bock, K., Benndorf, D., Müller, A., Bauer, M., von Bergen, M. (2008):
    Identification of allergens from the indoor mold Aspergillus versicolor
    Allergy-Supplement 63, 530-531
  • Georgieva, D., Risch, M., Kardas, A., Buck, F., von Bergen, M., Betzel, C. (2008):
    Comparative Analysis of the Venom Proteomes of Vipera ammodytes ammodytes and Vipera ammodytes meridionalis
    J.Proteome Res. 7 (3), 866-886
    http://dx.doi.org/10.1021/pr070376c
  • Hehemann, J. H., Redecke, L., Murugaiyan, J., von Bergen, M., Betzel, C., Saborowski, R. (2008):
    Autoproteolytic stability of a trypsin from the marine crab Cancer pagurus
    Biochem.Biophys.Res.Commun. 370 (4), 566-571
    http://dx.doi.org/10.1016/j.bbrc.2008.03.128
  • Jehmlich, N., Schmidt, F., von Bergen, M., Richnow, H.-H., Vogt, C. (2008):
    Protein-based stable isotope probing (Protein-SIP) reveals active species within anoxic mixed cultures
    The ISME Journal 2, 1122-1133
    http://dx.doi.org/10.1038/ismej.2008.64
  • Jehmlich, N., Schmidt, F., Hartwich, M., von Bergen, M., Richnow, H.-H., Vogt, C. (2008):
    Incorporation of carbon and nitrogen atoms into proteins measured by protein-based stable isotope probing (Protein-SIP)
    Rapid.Comm.Mass.Spectrom. 22 (18), 2889-2897
    http://dx.doi.org/10.1002/rcm.3684
  • Johannes, J., Bluschke, A., Jehmlich, N., von Bergen, M., Boll, M. (2008):
    Purification and characterization of active-site components of the putative p-cresol methylhydroxylase membrane complex from Geobacter metallireducens
    J.Bacteriol. 190 (19), 6493-6500
    http://dx.doi.org/10.1128/jb.00790-08
  • Rehders, D., Claasen, B., Redecke, L., Reibe, C., Buschke, A., Jehmlich, N., von Bergen, M., Betzel, C., Meyer, B. (2008):
    Aggregation of the human cellular prion protein (PrPC) is quantitatively inhibited by the octapeptide NMHRVPNQ
    J.Pept.Sci. 14 (8), 125-126
  • Röder-Stolinski, C., Fischäder, G., Oostingh, G. J., Feltens, R., Kohse, F., von Bergen, M., Mörbt, N., Eder, K., Duschl, A., Lehmann, I. (2008):
    Styrene induces an inflammatory response in human lung epithelial cells via oxidative stress and NF-kB activation
    Toxicol.Appl.Pharmacol. 231 (2), 241-247
    http://dx.doi.org/10.1016/j.taap.2008.04.010
  • Röder-Stolinski, C., Feltens, R., Fischäder, G., Kohse, F., von Bergen, M., Mörbt, N., Oostingh, G., Eder, K., Duschl, A., Lehmann, I. (2008):
    Oxidative stress and NF-kB activation are induced by styrene in human lung epithelial cells
    Allergy 63 (Suppl. 88), 36-37
  • Thiele, B., Rieder, O., Jehmlich, N., von Bergen, M., Müller, M., Boll, M. (2008):
    Aromatizing cyclohexa-1,5-diene-1-carbonyl-coenzyme A oxidase. Characterization and its role in anaerobic aromatic metabolism
    J.Biol.Chem. 283 (30), 20713-20721
    http://dx.doi.org/10.1074/jbc.m802841200


Publikationen bis 2007
  • Benndorf, D., Balcke, G. U., Harms, H., von Bergen, M. (2007):
    Functional metaproteome analysis of protein extracts from contaminated soil and groundwater
    ISME Journal 1 (3), 224-234
    http://dx.doi.org/10.1038/ismej.2007.39
  • Gündel, U., Benndorf, D., von Bergen, M., Altenburger, R., Küster, E. (2007):
    Vitellogenin cleavage products as indicators for toxic stress in zebra fish embryos: a proteomic approach
    Proteomics 7 (24), 4541-4554
    http://dx.doi.org/10.1002/pmic.200700381
  • Heine, F., Wiacek, C., Benndorf, D., Sträuber, H., Stahl, F., von Bergen, M., Harms, H., Müller, S. (2007):
    Evidence of flocculation in brewing yeast strains by flow cytometry, proteome and mRNA profiling
    Cytometry Part A 71A (7), 513
  • Heine, F., Wiacek, C., Benndorf, D., Sträuber, H., Stahl, F., von Bergen, M., Harms, H., Müller, S. (2007):
    Evidence of flocculation in brewing yeast strains by flow cytometry, proteome and mRNA profiling
    Cytometry Part A 71A (9), 761
  • Kellner, H., Jehmlich, N., Benndorf, D., Hoffmann, R., Rühl, M., Hoegger, P. J., Majcherczyk, A., Kües, U., von Bergen, M., Buscot, F. (2007):
    Detection, quantification and identification of fungal extracellular laccases using polyclonal antibody and mass spectrometry
    Enzyme Microb.Technol. 41 (6-7), 694-701
    http://dx.doi.org/10.1016/j.enzmictec.2007.06.002
  • Martin, C., Pecyna, M., Kellner, H., Jehmlich, N., Junghanns, C., Benndorf, D., von Bergen, M., Schlosser, D. (2007):
    Purification and biochemical characterization of a laccase from the aquatic fungus Myrioconium sp. UHH 1-13-18-4 and molecular analysis of the laccase-encoding gene
    Appl.Microbiol.Biotechnol. 77 (3), 613-624
    http://dx.doi.org/10.1007/s00253-007-1207-2
  • Santos, P. M., Roma, V., Benndorf, D., von Bergen, M., Harms, H., Sa-Correia, I. (2007):
    Mechanistic insights into the global response to phenol in the phenol-biodegrading strain Pseudomonas sp. M1 revealed by quantitative proteomics
    OMICS 11 (3), 233-251
    http://dx.doi.org/10.1089/omi.2007.0009
  • Schäfer, F., Breuer, U., Benndorf, D., von Bergen, M., Harms, H., Müller, R. H. (2007):
    Growth of Aquincola tertiaricarbonis L108 on tert-butyl alcohol leads to the induction of a phthalate dioxygenase-related protein and its associated oxidoreductase subunit
    Eng.Life Sci. 7 (5), 512-519
    http://dx.doi.org/10.1002/elsc.200700011

New software and methods

The new software ProteIn Protein INteraction Optimizer - PIPINO
(Cooperation with Prof. Labudde, Bioinformatics Group Mittweida) is online
more

publications

2014 (17)

  • Bastida, F., Jehmlich, N., Ondoño, S., von Bergen, M., García, C., Moreno, J.L. (2014):
    Characterization of the microbial community in biological soil crusts dominated by Fulgensia desertorum (Tomin) Poelt and Squamarina cartilaginea (With.) P. James and in the underlying soil
    Soil Biol. Biochem. 76 , 70 - 79
    full text (url)
  • Bozinovski, D., Taubert, M., Kleinsteuber, S., Richnow, H.-H., von Bergen, M., Vogt, C., Seifert, J. (2014):
    Metaproteogenomic analysis of a sulfate-reducing enrichment culture reveals genomic organization of key enzymes in the m-xylene degradation pathway and metabolic activity of proteobacteria
    Syst. Appl. Microbiol. 37 (7), 488 - 501
    full text (url)
  • Franck, U., Weller, A., Röder, S., Herberth, G., Junge, K.M., Kohajda, T., von Bergen, M., Rolle-Kampczyk, U., Diez, U., Borte, M., Lehmann, I. (2014):
    Prenatal VOC exposure and redecoration are related to wheezing in early infancy
    Environ. Int. 73 , 393 - 401
    full text (url)
  • Herberth, G., Bauer, M., Gasch, M., Hinz, D., Röder, S., Olek, S., Kohajda, T., Rolle-Kampczyk, U., von Bergen, M., Sack, U., Borte, M., Lehmann, I. (2014):
    Maternal and cord blood miR-223 expression associates with prenatal tobacco smoke exposure and low regulatory T-cell numbers
    J. Allergy Clin. Immunol. 133 (2), 543 - 550.e4
    full text (url)
  • Imhasly, S., Naegeli, H., Baumann, S., von Bergen, M., Luch, A., Jungnickel, H., Potratz, S., Gerspach, C. (2014):
    Metabolomic biomarkers correlating with hepatic lipidosis in dairy cows
    BMC Vet. Res. 10 , art. 122
    full text (url)
  • Jungandreas, A., Schellenberger Costa, B., Jakob, T., von Bergen, M., Baumann, S., Wilhelm, C. (2014):
    The acclimation of Phaeodactylum tricornutum to blue and red light does not influence the photosynthetic light reaction but strongly disturbs the carbon allocation pattern
    PLOS One 9 (8), e99727
    full text (url)
  • Junge, K.M., Hörnig, F., Herberth, G., Röder, S., Kohajda, T., Rolle-Kampczyk, U., von Bergen, M., Borte, M., Simon, J.-C., Heroux, D., Denburg, J.A., Lehmann, I. (2014):
    The LINA cohort: cord blood eosinophil/basophil progenitors predict respiratory outcomes in early infancy
    Clin. Immunol. 152 (1-2), 68 - 76
    full text (url)
  • Jungnickel, H., Luch, A., Potratz, S., von Bergen, M., Baumann, S., Tarnow, P. (2014):
    Identification of lipidomic biomarkers for coexposure to subtoxic doses of benzo[a]pyrene and cadmium: the toxicological cascade biomarker approach
    Environ. Sci. Technol. 48 (17), 10423 - 10431
    full text (url)
  • Kalkhof, S., Förster, Y., Schmidt, J., Schulz, M.C., Baumann, S., Weißflog, A., Gao, W., Hempel, U., Eckelt, U., Rammelt, S., von Bergen, M. (2014):
    Proteomics and metabolomics for in situ monitoring of wound healing
    Biomed Res. Int. 2014 , art. 934848
    full text (url)
  • Kleindienst, S., Herbst, F.-A., Stagars, M., von Netzer, F., von Bergen, M., Seifert, J., Peplies, J., Amann, R., Musat, F., Lueders, T., Knittel, K. (2014):
    Diverse sulfate-reducing bacteria of the Desulfosarcina/Desulfococcus clade are the key alkane degraders at marine seeps
    ISME J. 8 , 2029 - 2044
    full text (url)
  • Marozava, S., Röling, W.F.M., Seifert, J., Küffner, R., von Bergen, M., Meckenstock, R.U. (2014):
    Physiology of Geobacter metallireducens under excess and limitation of electron donors. Part I. Batch cultivation with excess of carbon sources
    Syst. Appl. Microbiol. 37 (4), 277 - 286
    full text (url)
  • Marozava, S., Röling, W.F.M., Seifert, J., Küffner, R., von Bergen, M., Meckenstock, R.U. (2014):
    Physiology of Geobacter metallireducens under excess and limitation of electron donors. Part II. Mimicking environmental conditions during cultivation in retentostats
    Syst. Appl. Microbiol. 37 (4), 287 - 295
    full text (url)
  • Mussotter, F., Haase, A., Tomm, J.M., El Ali, Z., Kerdine-Römer, S., Pallardy, M., von Bergen, M., Luch, A. (2014):
    A proteomics approach to elucidate the role of Nrf2 in primary bone-marrow-derived dendritic cells of mice upon activation by contact allergens
    Toxicol. Lett. 229 (Suppl.), S203
    full text (url)
  • Rösch, C., Kohajda, T., Röder, S., von Bergen, M., Schlink, U. (2014):
    Relationship between sources and patterns of VOCs in indoor air
    Atmos. Pollut. Res. 5 (1), 129 - 137
    full text (url)
  • Schiffmann, C., Hansen, R., Baumann, S., Kublik, A., Nielsen, P.H., Adrian, L., von Bergen, M., Jehmlich, N., Seifert, J. (2014):
    Comparison of targeted peptide quantification assays for reductive dehalogenases by selective reaction monitoring (SRM) and precursor reaction monitoring (PRM)
    Anal. Bioanal. Chem. 406 (1), 283 - 291
    full text (url)
  • Schiffmann, C.L., Jehmlich, N., Otto, W., Hansen, R., Nielsen, P.H., Adrian, L., Seifert, J., von Bergen-Tomm, M. (2014):
    Proteome profile and proteogenomics of the organohalide-respiring bacterium Dehalococcoides mccartyi strain CBDB1 grown on hexachlorobenzene as electron acceptor
    J. Proteomics 98 , 59 - 64
    full text (url)
  • Uhlmann, K., Gibb, S., Kalkhof, S., Arroyo-Abad, U., Schulz, C., Hoffmann, B., Stubbins, F., Carpenter, S., Beer, M., von Bergen, M., Feltens, R. (2014):
    Species determination of Culicoides biting midges via peptide profiling using matrix-assisted laser desorption ionization mass spectrometry
    Parasites Vectors 7 , 392
    full text (url)

2013 (27)

  • Blumert, C., Kalkhof, S., Brocke-Heidrich, K., Kohajda, T., von Bergen, M., Horn, F. (2013):
    Analysis of the STAT3 interactome using in-situ biotinylation and SILAC
    J. Proteomics 94 , 370 - 386
    full text (url)
  • Bodelier, P.L.E., Meima-Franke, M., Hordijk, C.A., Steenbergh, A.K., Hefting, M.E., Bodrossy, L., von Bergen, M., Seifert, J. (2013):
    Microbial minorities modulate methane consumption through niche partitioning
    ISME J. 7 , 2214 - 2228
    full text (url)
  • Boll, K., Reiche, K., Kasack, K., Mörbt, N., Kretzschmar, A.K., Tomm, J.M., Verhaegh, G., Schalken, J., von Bergen, M., Horn, F., Hackermüller, J. (2013):
    MiR-130a, miR-203 and miR-205 jointly repress key oncogenic pathways and are downregulated in prostate carcinoma
    Oncogene 32 , 277 - 285
    full text (url)
  • Eberlein, C., Estelmann, S., Seifert, J., von Bergen, M., Müller, M., Meckenstock, R.U., Boll, M. (2013):
    Identification and characterization of 2-naphthoyl-coenzyme A reductase, the prototype of a novel class of dearomatizing reductases
    Mol. Microbiol. 88 (5), 1032 - 1039
    full text (url)
  • Ferrer, M., Ruiz, A., Lanza, F., Haange, S.-B., Oberbach, A., Till, H., Bargiela, R., Campoy, C., Segura, M.T., Richter, M., von Bergen, M., Seifert, J., Suarez, A. (2013):
    Microbiota from the distal guts of lean and obese adolescents exhibit partial functional redundancy besides clear differences in community structure
    Environ. Microbiol. 15 (1), 211 - 226
    full text (url)
  • Guazzaroni, M.-E., Herbst, F.-A., Lores, I., Tamames, J., Peláez, A.I., López-Cortés, N., Alcaide, M., del Pozo, M.V., Vieites, J.M., von Bergen, M., Gallego, J.L.R., Bargiela, R., López-López, A., Pieper, D.H., Rosselló-Móra, R., Sánchez, J., Seifert, J., Ferrer, M. (2013):
    Metaproteogenomic insights beyond bacterial response to naphthalene exposure and bio-stimulation
    ISME J. 7 , 122 - 136
    full text (url)
  • Herberth, G., Bauer, M., Gasch, M., Hinz, D., Röder, S., Olek, S., Kohajda, T., Rolle-Kampczyk, U., von Bergen-Tomm, M., Sack, U., Borte, M., Lehmann, I. (2013):
    Maternal and cord blood miR-223 expression associates with prenatal tobacco smoke exposure and with low Treg numbers
    Allergy 68 (Suppl. 97), 628 - 628
    full text (url)
  • Herbst, F.-A., Bahr, A., Duarte, M., Pieper, D.H., Richnow, H.-H., von Bergen, M., Seifert, J., Bombach, P. (2013):
    Elucidation of in situ polycyclic aromatic hydrocarbon degradation by functional metaproteomics (protein-SIP)
    Proteomics 13 (18-19), 2910 - 2920
    full text (url)
  • Herbst, F.-A., Taubert, M., Jehmlich, N., Behr, T., Schmidt, F., von Bergen, M., Seifert, J. (2013):
    Sulfur-34S stable isotope labeling of amino acids for quantification (SULAQ34) of proteomic changes in Pseudomonas fluorescens during naphthalene degradation
    Mol. Cell. Proteomics 12 (8), 2060 - 2069
    full text (url)
  • Jahn, M., Seifert, J., von Bergen, M., Schmid, A., Bühler, B., Müller, S. (2013):
    Subpopulation-proteomics in prokaryotic populations
    Curr. Opin. Biotechnol. 24 (1), 79 - 87
    full text (url)
  • Jechalke, S., Franchini, A., Bastida, F., Bombach, P., Rosell, M., Seifert, J., von Bergen, M., Vogt, C., Richnow, H.H. (2013):
    Analysis of structure, function, and activity of a benzene-degrading microbial community
    FEMS Microbiol.Ecol. 85 (1), 14 - 26
    full text (url)
  • Kliemt, S., Lange, C., Otto, W., Hintze, V., Möller, S., von Bergen, M., Hempel, U., Kalkhof, S. (2013):
    Sulfated hyaluronan containing collagen matrices enhance cell-matrix-interaction, endocytosis, and osteogenic differentiation of human mesenchymal stromal cells
    J. Proteome Res. 12 (1), 378 - 389
    full text (url)
  • Kung, J.W., Seifert, J., von Bergen, M., Boll, M. (2013):
    Cyclohexanecarboxyl-coenzyme A (CoA) and cyclohex-1-ene-1-carboxyl-CoA dehydrogenases, two enzymes involved in the fermentation of benzoate and crotonate in Syntrophus aciditrophicus
    J. Bacteriol. 195 (14), 3193 - 3200
    full text (url)
  • Leibeling, S., Maeß, M.B., Centler, F., Kleinsteuber, S., von Bergen, M., Thullner, M., Harms, H., Müller, R.H. (2013):
    Posttranslational oxidative modification of (R)-2-(2,4-dichlorophenoxy)propionate/α-ketoglutarate-dependent dioxygenases (RdpA) leads to improved degradation of 2,4-dichlorophenoxyacetate (2,4-D)
    Eng. Life Sci. 13 (3), 278 - 291
    full text (url)
  • Markle, J.G.M., Frank, D.N., Mortin-Toth, S., Robertson, C.E., Feazel, L.M. , Rolle-Kampczyk, U., von Bergen, M., McCoy, C.D., Macpherson, A.J., Danska, J.S. (2013):
    Sex differences in the gut microbiome drive hormone-dependent regulation of autoimmunity
    Science 339 (6123 ), 1084 - 1088
    full text (url)
  • Müller, S.A., Findeiß, S., Pernitzsch, S.R., Wissenbach, D.K., Stadler, P.F., Hofacker, I.L., von Bergen, M., Kalkhof, S. (2013):
    Identification of new protein coding sequences and signal peptidase cleavage sites of Helicobacter pylori strain 26695 by proteogenomics
    J. Proteomics 86 , 27 - 42
    full text (url)
  • Murugaiyan, J., Rockstroh, M., Wagner, J., Baumann, S., Schorsch, K., Trump, S., Lehmann, I., von Bergen, M., Tomm, J.M. (2013):
    Benzo[a]pyrene affects Jurkat T cells in the activated state via the antioxidant response element dependent Nrf2 pathway leading to decreased IL-2 secretion and redirecting glutamine metabolism
    Toxicol. Appl. Pharmacol. 269 (3), 307 - 316
    full text (url)
  • Murugaiyan, J., Weise, C., von Bergen, M., Roesler, U. (2013):
    Two-dimensional proteome reference map of Prototheca zopfii revealed reduced metabolism and enhanced signal transduction as adaptation to an infectious life style
    Proteomics 13 (17), 2664 - 2669
    full text (url)
  • Murugesan, K., Baumann, S., Wissenbach, D.K., Kliemt, S., Kalkhof, S., Otto, W., Mögel, I., Kohajda, T., von Bergen, M., Tomm, J.M. (2013):
    Subtoxic and toxic concentrations of benzene and toluene induce Nrf-2 mediated anti-oxidative stress response and affect the central carbon metabolism in lung epithelial cells A549
    Proteomics 13 (21), 3211 - 3221
    full text (url)
  • Pérez-Cobas, A.E., Gosalbes, M.J., Friedrichs, A., Knecht, H., Artacho, A., Eismann, K., Otto, W., Rojo, D., Bargiela, R., von Bergen, M., Neulinger, S.C., Däumer, C., Heinsen, F.A., Latorre, A., Barbas, C., Seifert, J., Martins dos Santos, V., Ott, S.J., Ferrer, M., Moya, A. (2013):
    Gut microbiota disturbance during antibiotic therapy: a multi-omic approach
    Gut 62 , 1591 - 1601
    full text (url)
  • Seifert, J., Herbst, F.-A., Nielsen, P.H., Planes, F.J., Ferrer, M., von Bergen, M. (2013):
    Bioinformatic progress and applications in metaproteogenomics for bridging the gap between genomic sequences and metabolic functions in microbial communities
    Proteomics 13 (18-19), 2786 - 2804
    full text (url)
  • Siegert, M., Taubert, M., Seifert, J., von Bergen-Tomm, M., Basen, M., Bastida, F., Gehre, M., Richnow, H.-H., Krüger, M. (2013):
    The nitrogen cycle in anaerobic methanotrophic mats of the Black Sea is linked to sulfate reduction and biomass decomposition
    FEMS Microbiol.Ecol. 86 (2), 231 - 245
    full text (url)
  • Taubert, M., von Bergen-Tomm, M., Seifert, J. (2013):
    Limitations in detection of 15N incorporation by mass spectrometry in protein-based stable isotope probing (protein-SIP)
    Anal. Bioanal. Chem. 405 (12), 3989 - 3996
    full text (url)
  • Tomm, J.M., Krause, C., Simon, J.C., Treudler, R., von Bergen, M., Averbeck, M. (2013):
    Pyruvate kinase and phosphopyruvate hydratase as novel IgE reactive proteins in prawn
    J. Invest. Allergol. Clin. Immunol. 23 (6), 443 - 445
  • Tomm, J.M., van Do, T., Jende, C., Simon, J.C., Treudler, R., von Bergen, M., Averbeck, M. (2013):
    Identification of new potential allergens from Nile perch (Lates niloticus) and Cod (Gadus morhua)
    J. Invest. Allergol. Clin. Immunol. 23 (3), 159 - 167
  • von Bergen, M., Jehmlich, N., Taubert, M., Vogt, C., Bastida, F., Herbst, F.-A., Schmidt, F., Richnow, H.-H., Seifert, J. (2013):
    Insights from quantitative metaproteomics and protein-stable isotope probing into microbial ecology
    ISME J. 7 (10), 1877 - 1885
    full text (url)
  • Weisse, K., Winkler, S., Hirche, F., Herberth, G., Hinz, D., Bauer, M., Röder, S., Rolle-Kampczyk, U., von Bergen, M., Olek, S., Richter, T., Diez, U., Borte, M., Stangl, G.I., Lehmann, I. (2013):
    Maternal and newborn vitamin D status and its impact on food allergy development in the German LINA cohort study
    Allergy 68 (2), 220 - 228
    full text (url)

2012 (25)

  • Baumgarten, T., Sperling, S., Seifert, J., von Bergen, M., Steiniger, F., Wick, L.Y., Heipieper, H.J. (2012):
    Membrane vesicle formation as multiple stress response mechanism enhances cell surface hydrophobicity and biofilm formation of Pseudomonas putida DOT-T1E
    Appl. Environ. Microb. 78 (17), 6217 - 6224
    full text (url)
  • Bönisch, U., Böhme, A., Kohajda, T., Mögel, I., Schütze, N., von Bergen, M., Simon, J.C., Lehmann, I., Polte, T. (2012):
    Volatile organic compounds enhance allergic airway inflammation in an experimental mouse model
    PLoS One 7 (7), e39817
    full text (url)
  • Bozinovski, D., Herrmann, S., Richnow, H.-H., von Bergen, M., Seifert, J., Vogt, C. (2012):
    Functional analysis of an anaerobic m-xylene-degrading enrichment culture using protein-based stable isotope probing
    FEMS Microbiol.Ecol. 81 (1), 134 - 144
    full text (url)
  • Goettsch, C., Kliemt, S., Sinningen, K., von Bergen, M., Hofbauer, L.C., Kalkhof, S. (2012):
    Quantitative proteomics reveals novel functions of osteoclast-associated receptor in STAT signaling and cell adhesion in human endothelial cells
    J. Mol. Cell. Cardiol. 53 (6), 829 - 837
    full text (url)
  • Gündel, U., Kalkhof, S., Zitzkat, D.P., von Bergen, M., Altenburger, R., Küster, E. (2012):
    Concentration-response concept in ecotoxicoproteomics: effects of different phenanthrene concentrations to the zebrafish (Danio rerio) embryo proteome
    Ecotox. Environ. Safe. 76 (1), 11 - 22
    full text (url)
  • Haange, S.-B., Oberbach, A., Schlichting, N., Hugenholtz, F., Smidt, H., von Bergen, M., Till, H., Seifert, J. (2012):
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  • Weisse, K., Lehmann, I., Heroux, D., Kohajda, T., Herberth, G., Röder, S., von Bergen, M., Borte, M., Denburg, J. (2012):
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