Students publications

The Best Paper Award

Each year IGSDHD students who published a paper within a specified period of time can apply for the award. The judging panel consisting of the IGSDHD faculty members selects the winner. 

The awardee presents the paper during an official ceremony and receives a prize of 500 EUR.

Publications of our students

Publications awarded with the Best Paper Award are marked in red.


Kurian L, Palanimurugan R, Gödderz D, Dohmen RJ.: Polyamine sensing by nascent ornithine decarboxylase antizyme stimulates decoding of its mRNA. Nature. 2011 Sep 7;477(7365):490-4 Link

Ranjan A., Fiene G, Fackendahl P, Hoecker U.: The Arabidopsis repressor of light signaling SPA1 acts in the phloem to regulate seedling de-etiolation, leaf expansion and flowering time. Development. 2011 May;138(9):1851-62. Epub 2011 Mar 29 Link

Welz P.S., Wullaert A, Vlantis K, Kondylis V, Fernández-Majada V, Ermolaeva M, Kirsch P, Sterner-Kock A, van Loo G, Pasparakis M.: FADD prevents RIP3-mediated epithelial cell necrosis and chronic intestinal inflammation. Nature. 2011 Jul 31;477(7364):330-4 Link  The Best Paper Award during the First GSfBS PhD Day, 14-15 July, 2011 in Cologne.

Saedler K, Hochgeschwender U.: Impaired neonatal survival of pro-opiomelanocortin null mutants. Mol Cell Endocrinol. 2011 Apr 10;336(1-2):6-13


Potting C, Wilmes C, Engmann T, Osman C, Langer T.: Regulation of mitochondrial phospholipids by Ups1/PRELI-like proteins depends on proteolysis and Mdm35. EMBO J. 2010 Sep 1;29(17):2888-98. Epub 2010 Jul 23. Link

Prabhakar V, Löttgert T, Geimer S, Dörmann P, Krüger S, Vijayakumar V, Schreiber L, Göbel C, Feussner K, Feussner I, Marin K, Staehr P, Bell K, Flügge UI, Häusler RE.: Phosphoenolpyruvate provision to plastids is essential for gametophyte and sporophyte development in Arabidopsis thaliana. Plant Cell. 2010 Aug;22(8):2594-617. Epub 2010 Aug 26 Link

Motameny S.Wolters S.Nürnberg P.and Björn SchumacherNext Generation Sequencing of miRNAs – Strategies, Resources and Methods. Genes 20101(1), 70-84 Link

Mondal S, Burgute B, Rieger D, Müller R, Rivero F, Faix J, Schleicher M, Noegel AA.: Regulation of the actin cytoskeleton by an interaction of IQGAP related protein GAPA with filamin and cortexillin I. PLoS One. 2010 Nov 10;5(11):e15440  Link


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. Cell Microbiol. 2010 Jul;12(7):939-61. Link

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. Link

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. Link

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. Link

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. Link

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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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, Grumati P., Urciuolo A., Bonaldo P., Kobbe B., Koch M., 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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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. 

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

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

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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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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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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.

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