Publications of Graduate School fellows

Each year the Graduate School awards the best paper author with a prize of 500 euro

2010

Khaminets A., Hunn J.P., Könen-Waisman S., Zhao Yang O., Preukschat D., Coers J., Boyle J. P., Ong Y-C., Boothroyd J.C., Reichmann G., Howard J.C.: Coordinated Loading of IRG Resistance GTPases on to the Toxoplasma gondii Parasitophorous Vacuole. Cellular Microbiology, Accepted article.

2009

Prabhakar V., Löttgert T., Gigolashvili T., Bell K., Flügge U.I., Häusler R.E.: Molecular and functional characterization of the plastid-localized Phosphoenolpyruvate enolase (ENO1) from Arabidopsis thaliana. FEBS Lett. 2009 Mar 18; 583(6):983-91.

Zhao Y.O., Khaminets A., Hunn J.P., Howard J.C.: Disruption of the Toxoplasma gondii parasitophorous vacuole by IFNgamma-inducible immunity-related GTPases (IRG proteins) triggers necrotic cell death. PLoS Pathog. 2009 Feb;5(2):e1000288.

Marques A.J., Palanimurugan R., Matias A.C., Ramos P.C., Dohmen R.J.: Catalytic mechanism and assembly of the proteasome. Chem Rev. 2009 Apr;109(4):1509-36.

Bekpen C., Marques-Bonet T., Alkan C., Antonacci F., Leogrande M.B., Ventura M., Kidd J.M., Siswara P., Howard J.C., Eichler E.E.: Death and resurrection of the human IRGM gene. PLoS Genet. 2009 Mar;5(3):e1000403.

Osman C., Haag M., Potting C., Rodenfels J., Dip P.V., Wieland F. T., Brügger B., Westermann B., Langer T.: The genetic interactome of prohibitins: coordinated control of cardiolipin and phosphatidyl ethanolamine by conserved regulators in mitochondria. J Cell Biol, 2009 Feb 23;184(4):583-96.

Sankar T.S., Neelakanta G, Sangal V, Plum G, Achtman M, Schnetz K.: Fate of the H-NS repressed bgl operon in evolution of Escherichia coli. PLoS Genet. 2009 Mar;5(3):e1000405.

Hussain A.*, Saraiva L.R.*, Korsching S.I.: Positive Darwinian selection and the birth of an olfactory receptor clade in teleosts.Proc. Natl. Acad. Sci USA, 2009 Mar 17;106(11):4313-8 *joined first authorship

Oka Y., Saraiva L.R., Kwan Y.Y., Korsching S.I.: The fifth class of G alpha proteins. Proc. Natl. Acad. Sci, USA Jan. 2009, 106:1484-1489

Henry S.C., Daniell X.G., Burroughs A.R., Indaram M., Howell D.N., Coers J., Starnbach M.N., Hunn J.P., Howard J.C., Feng C.G., Sher A., Taylor G.A.: Balance of Irgm protein activities determines IFN-{gamma}-induced host defense. J Leukoc Biol. 2009 Jan 27.

Neelakanta G., Sankar T.S., Schnetz K.: Characterization of a beta-glucoside operon (bgc) prevalent in septicemic and uropathogenic Escherichia coli strains. Appl Environ Microbiol. 2009 Apr;75(8):2284-93.

Wester K., Digiuni S., Geier F., Timmer J., Fleck C., Hülskamp M.: Functional diversity of R3 single-repeat genes in trichome development. Development. 2009 May;136(9):1487-96.

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2008

Papic N., Hunn J. P., Pawlowski N., Zerrahn J., Howard J.C.: Inactive and active states of the interferon-inducible resistance GTPase, Irga6, In Vivo. J Biol Chem. 2008, Sep 10.

Hunn J.P., Koenen-Waisman S., Papic N., Schroeder N., Pawlowski N., Lange R., Kaiser F., Zerrahn J., Martens S., Howard J.C.: Regulatory interaction between IRG resistance GTPases in the cellular response to Toxoplasma gondii. EMBO J. 2008 Oct 8;27(19):2495-509.

Digiuni S., Schellmann S., Geier F., Greese B., Pesch M., Wester K., Dartan B., Mach V., Srinivas B.P., Timmer J., Fleck C., Hulskamp M.: A competitive complex formation mechanism underlies trichome patterning on Arabidopsis leaves. Mol Syst Biol. 2008;4:217.

Gebauer J.M., Müller S., Hanisch F.G., Paulsson M., Wagener R.: O-glucosylation and O-fucosylation occur together in close proximity on the first epidermal growth factor repeat of AMACO (VWA2 protein). J Biol Chem. 2008, Jun 27; 283 (26): 17846-17854

Aranda M., Marques-Souza H., Bayer T., Tautz D.: The role of the segmentation gene hairy in Tribolium. Dev Genes Evol. 2008 Sep;218(9):465-77.

Marques-Souza H., Aranda M., Tautz D.: Delimiting the conserved features of hunchback function for the trunk organization of insects. Development. 2008 Mar;135(5):881-8.

Blumbach K., Niehoff A., Paulsson M., Zaucke F.: Ablation of collagen IX and COMP disrupts epiphyseal cartilage architecture. Matrix Biol. 2008 May;27(4):306-18.

Bouyer D., Geier F., Kragler F., Schnittger A., Pesch M., Wester K., Balkunde R., Timmer J., Fleck Ch., Hülskamp M.: Two-Dimensional Patterning by a Trapping/ Depletion Mechanism: The Role of TTG1 and GL3 in Arabidopsis Trichome Formation. PLoS Biology, 2008, Jun 6 (6):e141

Stratmann T., Madhusudan S., Schnetz K.: Regulation of the yjjQ-bglJ operon, encoding LuxR-type transcription factors, and the divergent yjjP gene by H-NS and LeuO. J Bacteriol. 2008 Feb;190(3):926-35.

Nunes da Fonseca R., von Levetzow C, Kalscheuer P, Basal A, van der Zee M., Roth S.: Self-regulatory circuits in dorsoventral axis formation of the short-germ beetle Tribolium castaneum. Dev Cell. 2008 Apr;14(4):605-15.

Matthew S.P. Ho, Bose K., Mokkapati S., Nischt R., and Smyth N.: Nidogens--Extracellular Matrix Linker Molecules.  Microscopy Research and Technique, May 2008; 71: 387-395, Review.

Sudheer Kumar Gara, Paolo Grumati, Anna Urciuolo, Paolo Bonaldo, Birgit Kobbe, Manuel Koch, Mats Paulsson, and Raimund Wagener. Three Novel Collagen VI Chains with High Homology to the {alpha}3 Chain. J Biol Chem., Apr 2008; 283: 10658 - 10670. 

van der Zee M, da Fonseca RN, Roth S.: TGFbeta signaling in Tribolium: vertebrate-like components in a beetle. Dev Genes Evol. 2008 Apr; 218 (3-4):203-13

Tribolium Genome Sequencing Consortium (co-authoring students van der Zee, M, da Fonseca R.N. and Marques-Souza H.). The genome of the model beetle and pest Tribolium castaneum. Nature, 2008 Apr 24; 452(7190):949-55

Nowack E.C.M., Melkonian M., and Glöckner G.: Chromatophore genome sequence of Paulinella sheds light on acquisition of photosynthesis by eukaryotes. Curr. Biol., 2008, March 25; 18 (6), 410-418.

Kraemer A.M., Saraiva L.R. & Korsching S.I.: Structural and functional diversification in the teleost S100 family of calcium-binding proteins. BMC Evolutionary Biology, 2008 Feb 14; 8:48

Y. Wang and Riechmann V.: Microtubule anchoring by cortical actin bundles prevents streaming of the oocyte cytoplasm. Mechanisms of Development, Jan-Feb 2008; 125(1-2):142-52.

Rybakin V., Rastetter R.H., Stumpf M., Uetrecht A.C., Bear J.E., Noegel A.A., Clemen C.S.: Molecular mechanism underlying the association of Coronin-7 with Golgi membranes. Cell Mol Life Sci. 2008 Aug;65(15):2419-30.

Lu W., Gotzmann J., Sironi L., Jaeger V.M., Schneider M., Lüke Y., Uhlén M., Szigyarto C.A., Brachner A., Ellenberg J., Foisner R., Noegel A.A., Karakesisoglou I.: Sun1 forms immobile macromolecular assemblies at the nuclear envelope.  Biochim Biophys Acta. 2008 Dec; 1783(12):2415-26. 

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2007

Marques A.J, Glanemann C., Ramos P.C, Dohmen R.J.: The C-terminal extension of the beta7 subunit and activator complexes stabilize nascent 20 S proteasomes and promote their maturation. J Biol Chem. 2007 Nov 30;282(48):34869-76.

Dohmen RJ, Willers I, Marques A.J.: Biting the hand that feeds: Rpn4-dependent feedback regulation of proteasome function. Biochim Biophys Acta. 2007 Nov;1773(11):1599-604. Review

Stein C., Caccamo M., Laird G., Leptin M.: Conservation and divergence of gene families encoding components of innate immune response systems in the zebrafish. Genome Biol. 2007; 27;8 (11). R251

Shravage B.V., Altmann G, Technau M, Roth S.: The role of Dpp and its inhibitors during eggshell patterning in Drosophila. Development. 2007 Jun;134(12):2261-71.

Uzunova K., Göttsche K., Miteva M., Weisshaar S.R., Glanemann C., Schnellhardt M., Niessen M., Scheel H., Hofmann K., Johnson E.S., Praefcke G.J., Dohmen R.J.: Ubiquitin-dependent proteolytic control of SUMO conjugates. J Biol Chem. 2007 Nov 23;282(47):34167-75.

V. Nagarajavel, S. Madhusudan, Dole S., Rahmouni A. R., and Schnetz K.: Repression by binding of H-NS within the transcription unit. J.Biol.Chem. 282 (32):23622-23630, 2007

Saraiva L.R. & Korsching, S.I.: A novel olfactory receptor gene family in teleost fish. Genome Research, 2007 Oct., 17:1448-57

Y. Wang and Riechmann V.: The role of the actomyosin cytoskeleton in coordination of tissue growth during Drosophila oogenesis. Current Biology, 2007 Aug7; 17(15): 1349-1355

Baer M.M., Bilstein A, Leptin M.: A clonal genetic screen for mutants causing defects in larval tracheal morphogenesis in Drosophila. Genetics 2007 Aug, 176(4):2279-91.

Chanut-Delalande H., Jung A.C., Lin L., Baer M.M., Bilstein A., Cabernard C., Leptin M., Affolter M. A.: Genetic mosaic analysis with a repressible cell marker screen to identify genes involved in tracheal cell migration during Drosophila air sac morphogenesis. Genetics 2007 Aug; 176(4):2177-87.

Mann H.H., Sengle G., Gebauer J.M., Eble J.A., Paulsson M., Wagener R.: Matrilins mediate weak cell attachment without promoting focal adhesion formation. Matrix Biology, Apr 2007; 26(3): 167-174

Na J., Tunggal B, Eichinger L.: STATc is a key regulator of the transcriptional response to hyperosmotic shock. BMC Genomics. 2007 May 21;8:123

V. Nagarajavel, S. Madhusudan, Dole S., Rahmouni A. R., and Schnetz K.: Repression by binding of H-NS within the transcription unit. J.Biol.Chem. 2007, 282 (32):23622-23630

Graef M., Seewald G., Langer T.: Substrate recognition by AAA+ ATPases: distinct substrate binding modes in ATP-dependent protease Yme1 of the mitochondrial intermembrane space. Mol Cell Biol. 2007 Apr;27(7):2476-85.

Marin B., Nowack E.C.M., Glöckner G., and Melkonian M.: The ancestor of the Paulinella chromatophore obtained a carboxysomal operon by horizontal gene transfer from a Nitrococcus-like gamma-proteobacterium. BMC Evol. Biol. 2007 Jun 5, 7, 85.

Osman C., Wilmes C., Tatsuta T. and Langer T.: Prohibitins interact genetically with Atp23,a novel processing peptidase and chaperone for the F1FO -ATP synthase. Mol Biol Cell. 2007 Feb;18(2):627-35.

Koppen M.*, Metodiev M.*, Casari G., Rugarli E., Langer, T.: Variable and tissue-specific subunit composition of mitochondrial m-AAA protease complexes linked to hereditary spastic paraplegia. Mol Cell Biol. 2007 Jan;27(2):758-67. *joined first authorship

Kandert S., Lüke Y., Kleinhenz T., Neumann S., Lu W., Jaeger V.M., Munck M., Wehnert M., Müller C.R., Zhou Z., Noegel A.A., Dabauvalle M.C., Karakesisoglou I.: Nesprin-2 giant safeguards nuclear envelope architecture in LMNA S143F progeria cells.  Hum Mol Genet. 2007 Dec 1;16(23):2944-59

Nicolae C, Ko YP, Miosge N, Niehoff A, Studer D, Enggist L, Hunziker EB, Paulsson M, Wagener R, Aszodi A.: Abnormal collagen fibrils in cartilage of matrilin-1/matrilin-3-deficient mice. J Biol Chem. 2007 Jul 27;282(30):22163-75.

Prabhu Y., Mondal S., Eichinger L., Noegel A.A.: A GPCR involved in post aggregation events in Dictyostelium discoideum. Dev Biol. (2007) 312(1): 29-43

Prabhu Y., Müller R., Anjard C., Noegel A.A.: GrlJ, a Dictyostelium GABAB-like receptor with roles in post-aggregation development. BMC Dev Biol. (2007) 7:44

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2006

Spitzer C., Schellmann S., Sabovljevic A., Shahriari M., Keshavaiah C., Bechtold N., Herzog M., Muller S., Hanisch F.G., Hulskamp M.: The Arabidopsis elch mutant reveals functions of an ESCRT component in cytokinesis. Development, 2006 Dec;133(23):4679-89.

Graef M., Langer T.: Substrate specific consequences of central pore mutations in the i-AAA protease Yme1 on substrate engagement. J Struct Biol. 2006 Oct;156(1):101-8.

van der Zee M, Stockhammer O, Levetzow C, Fonseca R.N., Roth S.: Sog/Chordin is required for ventral-to-dorsal Dpp/BMP transport and head formation in a short germ insect. Proc Natl Acad Sci USA, 2006 Oct. 31. 103 (44): 16307-12.

Marko M., Prabhu Y., Muller R., Blau-Wasser R., Schleicher M., Noegel A.A.: The annexins of Dictyostelium. Eur J Cell Biol., 2006 Sep;85(9-10):1011-22.

Rybakin V., Gounko N.V., Spate K., Honing S., Majoul I.V., Duden R., Noegel A.A.: Crn7 interacts with AP-1 and is required for the maintenance of Golgi morphology and protein export from the Golgi. J Biol Chem. 2006 Oct 13;281(41):31070-8.

Prabhu Y., Eichinger L.: The Dictyostelium repertoire of seven transmembrane domain receptors. Eur J Cell Biol. (2006) 85(9-10): 937-46 (Review)

Madhusudan S., Paukner A., Klingen Y, Schnetz K.: Independent regulation of H-NS-mediated silencing of the bgl operon at two levels: upstream by BglJ and LeuO and downstream by DnaKJ. Microbiology. 2005 Oct;151(Pt 10):3349-59.

Savard J., Marques-Souza M., Aranda M. and Tautz D.: A Segmentation Gene in Tribolium Produces a Polycistronic mRNA that Codes for Multiple Conserved Peptides. Cell, August 2006, Volume 126, Issue 3, 4; 559-569.

Köhling R., Nischt R., Vasudevan A., Ho M., Weiergräber M., Schneider T., Smyth N.: Nidogen and nidogen-associated basement membrane proteins and neuronal plasticity. Neurodegener. Dis. 2006;3(1-2):56-61. Review.

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2005

Marin B., Nowack E.C., Melkonian M.: A plastid in the making: evidence for a second primary endosymbiosis. Protist. 2005 Dec;156(4):425-32. Epub 2005 Oct 12.

Wagener R., Ehlen H.W., Ko Y.P., Kobbe B., Mann H.H., Sengle G., Paulsson M.: The matrilins-adaptor proteins in the extracellular matrix. FEBS Lett., 2005 Jun 13;579(15):3323-9. Review.

Hoef-Emden K., Tran H.D., Melkonian M.: Lineage-specific variations of congruent evolution among DNA sequences from three genomes, and relaxed selective constraints on rbcL in Cryptomonas (Cryptophyceae). BMC Evol Biol., 2005 Oct 18;5:56.

Rybakin V., Clemen C.S.: Coronin proteins as multifunctional regulators of the cytoskeleton and membrane trafficking. Bioessays., 2005 Jun; 27(6):625-32. Review.

Madhusudan S., Paukner A., Klingen Y., Schnetz K.: Independent regulation of H-NS-mediated silencing of the bgl operon at two levels: upstream by BglJ and LeuO and downstream by DnaKJ. Microbiology. 2005 Oct;151(Pt 10):3349-59.

Garcia A. A. F., Marques-Souza H., Kido E. A., Meza A. N.,Pinto L. R., Pastina M. M., Leite C. S., da Silva J. A. G., Ulian E. C., Figueira A. and Souza A. P.: Development of an integrated genetic map of a sugarcane (Saccharum spp.) commercial cross, based on a maximum-likelihood approach for estimation of linkage and linkage phases. Theor Appl Genet. 2005; 112(2):298-314

Bekpen C., Hunn J.P., Rohde C., Parvanova I., Guethlein L., Dunn D.M., Glowalla E., Leptin M., Howard J.C.: The interferon-inducible p47 (IRG) GTPases in vertebrates: loss of the cell autonomous resistance mechanism in the human lineage. Genome Biol. 2005; 6(11):R92.

Leonhardt R.M, Keusekotten K., Bekpen C., Knittler M.R.: Critical role for the tapasin-docking site of TAP2 in the functional integrity of the MHC class I-peptide-loading complex. J Immunol., 2005 Oct 15;175(8):5104-14.

Budde B., Blumbach K., Ylostalo J., Zaucke F., Ehlen H.W., Wagener R., Ala-Kokko L., Paulsson M., Bruckner P., Grassel S.: Altered integration of matrilin-3 into cartilage extracellular matrix in the absence of collagen IX. Mol Cell Biol., 2005 Dec; 25(23):10465-78.

van der Zee M., Berns N., Roth S.: Distinct Functions of the Tribolium zerknüllt Genes in Serosa Specification and Dorsal Closure. Current Biology 2005, 15(7); 624-636

Dohmen R.J., London M.K., Glanemann C., Ramos P.C.: Assays for proteasome assembly and maturation. In Cyr, DM and Patterson WC (Eds.) Ubiqutin-proteasome protocols. Methods Mol Biol. Humana Press, Totowa, 2005.

Ko Y.P., Kobbe B., Paulsson M., Wagener R.: Zebrafish (Danio rerio) matrilins: shared and divergent characteristics with their mammalian counterparts. Biochem J. 2005 Mar 1;386(Pt 2):367-79.

Padmakumar V.C., Libotte T., Lu W., Zaim H., Abraham S., Noegel A.A., Gotzmann J., Foisner R., Karakesisoglou I.: The inner nuclear membrane protein Sun1 mediates the anchorage of Nesprin-2 to the nuclear envelope.  J Cell Sci. 2005 Aug 1;118(Pt 15):3419-30.

Libotte T., Zaim H., Abraham S., Padmakumar V.C., Schneider M., Lu W., Munck M., Hutchison C., Wehnert M., Fahrenkrog B., Sauder U., Aebi U., Noegel AA., Karakesisoglou I.: Lamin A/C-dependent localization of Nesprin-2, a giant scaffolder at the nuclear envelope.   Mol Biol Cell. 2005 Jul;16(7):3411-24.

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2004

Palanimurugan R., Scheel H., Hofmann K., Dohmen R.J.: Polyamines regulate their synthesis by inducing expression and blocking degradation of ODC antizyme. EMBO J 2004 Dec 8;23(24):4857-67.

Rybakin V., Stumpf M., Schulze A., Majoul I.V., Noegel A.A., Hasse A.: Coronin 7, the mammalian POD-1 homologue, localizes to the Golgi apparatus. FEBS Lett. 2004 Aug 27;573(1-3):161-7.

Dole S., Klingen Y., Nagarajavel V., Schnetz K.: The Protease Lon and the RNA-Binding Protein Hfq Reduce Silencing of the Escherichia coli bgl Operon by H-NS. Journal of Bacteriology, 2004 May, p. 2708-2716, Vol. 186, No. 9

Dole S., Nagarajavel V., Schnetz K.: The histone-like nucleoid structuring protein H-NS represses the Escherichia coli bgl operon downstream of the promoter. Mol Microbiol., 2004 Apr;52(2):589-600.

Ramos P.C., Marques A.J., London M.K., Dohmen R.J.: Role of C-terminal extensions of subunits beta2 and beta7 in assembly and activity of eukaryotic proteasomes. J Biol Chem., 2004 Apr 2;279(14):14323-30. Epub 2004 Jan 13

Ko Y.P., Kobbe B., Nicolae C., Miosge N., Paulsson M., Wagener R., Aszodi A.: Matrilin-3 is dispensable for mouse skeletal growth and development. Mol Cell Biol., 2004 Feb;24(4):1691-9.