Publications of the MPI

1.

Journal Article

Gutjahr, C.; Riemann, M.; Muller, A.; Duchting, P.; Weiler, E.; Nick, P.: Cholodny-Went revisited: a role for jasmonate in gravitropism of rice coleoptiles. Planta 222 (4), pp. 575 - 585 (2005)

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2.

Journal Article

Shenhav, B.; Bar-Even, A.; Kafri, R.; Lancet, D.: Polymer GARD: Computer simulation of covalent bond formation in reproducing molecular assemblies. Origins of Life and Evolution of the Biosphere 35 (2), pp. 111 - 133 (2005)

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3.

Journal Article

Kafri, R.; Bar-Even, A.; Pilpel, Y.: Transcription control reprogramming in genetic backup circuits. Nature Genetics 37 (3), pp. 295 - 299 (2005)

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4.

Journal Article

Akesson, A.; Persson, S.; Love, J.; Boss, W. F.; Widell, S.; Sommarin, M.: Overexpression of the Ca2+-binding protein calreticulin in the endoplasmic reticulum improves growth of tobacco cell suspensions (Nicotiana tabacum) in high-Ca2+ medium. Physiologia Plantarum 123 (1), pp. 92 - 99 (2005)

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5.

Journal Article

Balduin, M.; Sierra, S.; Daumer, M. P.; Rockstroh, J. K.; Oette, M.; Fatkenheuer, G.; Kupfer, B.; Beerenwinkel, N.; Hoffmann, D.; Selbig, J. et al.; Pfister, H. J.; Kaiser, R.: Evolution of HIV resistance during treatment interruption in experienced patients and after restarting a new therapy. Journal of Clinical Virology 34 (4), pp. 277 - 287 (2005)

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6.

Journal Article

Baxter, C. J.; Carrari, F.; Bauke, A.; Overy, S.; Hill, S. A.; Quick, W. P.; Fernie, A. R.; Sweetlove, L. J.: Fruit carbohydrate metabolism in an introgression line of tomato with increased fruit soluble solids. Plant and Cell Physiology 46 (3), pp. 425 - 437 (2005)

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7.

Journal Article

Beerenwinkel, N.; Daumer, M.; Sing, T.; Rahnenfuhrer, J.; Lengauer, T.; Selbig, J.; Hoffmann, D.; Kaiser, R.: Estimating HIV evolutionary pathways and the genetic barrier to drug resistance. Journal of Infectious Diseases 191 (11), pp. 1953 - 1960 (2005)

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8.

Journal Article

Beerenwinkel, N.; Rahnenfuhrer, J.; Kaiser, R.; Hoffmann, D.; Selbig, J.; Lengauer, T.: Mtreemix: a software package for learning and using mixture models of mutagenetic trees. Bioinformatics 21 (9), pp. 2106 - 2107 (2005)

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9.

Journal Article

Bellucci, M.; De Marchis, F.; Mannucci, R.; Bock, R.; Arcioni, S.: Cytoplasm and chloroplasts are not suitable subcellular locations for beta-zein accumulation in transgenic plants. Journal of Experimental Botany 56 (414), pp. 1205 - 1212 (2005)

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10.

Journal Article

Berger, I. J.; Carraro, D. M.; Bock, R.; Azevedo, R. A.; Carrer, H.: Cloning and sequence analysis of tomato cpDNA fragments: towards developing homologous chloroplast transformation vectors. Brazilian Journal of Plant Physiology 17 (2), pp. 239 - 246 (2005)

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11.

Journal Article

Blaesing, O. E.; Gibon, Y.; Guenther, M.; Hoehne, M.; Morcuende, R.; Osuna, D.; Thimm, O.; Usadel, B.; Scheible, W.-R.; Stitt, M.: Sugars and circadian regulation make major contributions to the global regulation of diurnal gene expression in Arabidopsis. Plant Cell 17 (12), pp. 3257 - 3281 (2005)

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12.

Journal Article

Boelling, C.; Fiehn, O.: Metabolite profiling of Chlamydomonas reinhardtii under nutrient deprivation. Plant Physiology 139 (4), pp. 1995 - 2005 (2005)

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13.

Journal Article

Boldt, R.; Edner, C.; Kolukisaoglu, U.; Hagemann, M.; Weckwerth, W.; Wienkoop, S.; Morgenthal, K.; Bauwe, H.: D-GLYCERATE 3-KINASE, the last unknown enzyme in the photorespiratory cycle in Arabidopsis, belongs to a novel kinase family. Plant Cell 17 (8), pp. 2413 - 2420 (2005)

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14.

Journal Article

Brotman, Y.; Kovalski, I.; Dogimont, C.; Pitrat, M.; Portnoy, V.; Katzir, N.; Perl-Treves, R.: Molecular markers linked to papaya ring spot virus resistance and Fusarium race 2 resistance in melon. Theoretical and Applied Genetics 110 (2), pp. 337 - 345 (2005)

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15.

Journal Article

Carrari, F.; Coll-Garcia, D.; Schauer, N.; Lytovchenko, A.; Palacios-Rojas, N.; Balbo, I.; Rosso, M.; Fernie, A. R.: Deficiency of a plastidial adenylate kinase in Arabidopsis results in elevated photosynthetic amino acid biosynthesis and enhanced growth. Plant Physiology 137 (1), pp. 70 - 82 (2005)

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16.

Journal Article

Catchpole, G. S.; Beckmann, M.; Enot, D. P.; Mondhe, M.; Zywicki, B.; Taylor, J.; Hardy, N.; Smith, A.; King, R. D.; Kell, D. B. et al.; Fiehn, O.; Draper, J.: Hierarchical metabolomics demonstrates substantial compositional similarity between genetically modified and conventional potato crops. Proceedings of the National Academy of Sciences of the United States of America 102 (40), pp. 14458 - 14462 (2005)

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17.

Journal Article

Colditz, F.; Braun, H. P.; Jacquet, C.; Niehaus, K.; Krajinski, F.: Proteomic profiling unravels insights into the molecular background underlying increased Aphanomyces euteiches tolerance of Medicago truncatula. Plant Molecular Biology 59 (3), pp. 387 - 406 (2005)

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18.

Journal Article

Czechowski, T.; Stitt, M.; Altmann, T.; Udvardi, M. K.; Scheible, W.-R.: Genome-wide identification and testing of superior reference genes for transcript normalization in Arabidopsis. Plant Physiology 139 (1), pp. 5 - 17 (2005)

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19.

Journal Article

Damiani, I.; Morreel, K.; Danoun, S.; Goeminne, G.; Yahiaoui, N.; Marque, C.; Kopka, J.; Messens, E.; Goffner, D.; Boerjan, W. et al.; Boudet, A. M.; Rochange, S.: Metabolite profiling reveals a role for atypical cinnamyl alcohol dehydrogenase CAD1 in the synthesis of coniferyl alcohol in tobacco xylem. Plant Molecular Biology 59 (5), pp. 753 - 769 (2005)

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20.

Journal Article

Davies, H. V.; Shepherd, L. V. T.; Burrell, M. M.; Carrari, F.; Urbanczyk-Wochniak, E.; Leisse, A.; Hancock, R. D.; Taylor, M.; Viola, R.; Ross, H. et al.; McRae, D.; Willmitzer, L.; Fernie, A. R.: Modulation of fructokinase activity of potato (Solanum tuberosum) results in substantial shifts in tuber metabolism. Plant and Cell Physiology 46 (7), pp. 1103 - 1115 (2005)

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21.

Journal Article

Degenkolbe, T.; Hannah, M. A.; Freund, S.; Hincha, D. K.; Heyer, A. G.; Koehl, K. I.: A quality-controlled microarray method for gene expression profiling. Analytical Biochemistry 346 (2), pp. 217 - 224 (2005)

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22.

Journal Article

Desbrosses, G. G.; Kopka, J.; Udvardi, M. K.: Lotus japonicus metabolic profiling. Development of gas chromatography-mass spectrometry resources for the study of plant-microbe interactions. Plant Physiology 137 (4), pp. 1302 - 1318 (2005)

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23.

Journal Article

Desbrosses-Fonrouge, A.-G.; Voigt, K.; Schroeder, A.; Arrivault, S.; Thomine, S.; Kraemer, U.: Arabidopsis thaliana MTP1 is a Zn transporter in the vacuolar membrane which mediates Zn detoxification and drives leaf Zn accumulation. FEBS Letters 579 (19), pp. 4165 - 4174 (2005)

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24.

Journal Article

Dettmer, J.; Schubert, D.; Calvo-Weimar, O.; Stierhof, Y. D.; Schmidt, R.; Schumacher, K.: Essential role of the V-ATPase in male gametophyte development. Plant Journal 41 (1), pp. 117 - 124 (2005)

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25.

Journal Article

Ebenhoeh, O.; Handorf, T.; Heinrich, R.: A cross species comparison of metabolic network functions. Genome Informatics 16 (1), pp. 203 - 213 (2005)

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26.

Journal Article

Fernie, A. R.; Geigenberger, P.; Stitt, M.: Flux an important, but neglected, component of functional glenomics. Current Opinion in Plant Biology 8 (2), pp. 174 - 182 (2005)

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27.

Journal Article

Fettke, J.; Eckermann, N.; Tiessen, A.; Geigenberger, P.; Steup, M.: Identification, subcellular localization and biochemical characterization of water-soluble heteroglycans (SHG) in leaves of Arabidopsis thaliana L.: distinct SHG reside in the cytosol and in the apoplast. Plant Journal 43 (4), pp. 568 - 585 (2005)

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28.

Journal Article

Fettke, J.; Poeste, S.; Eckermann, N.; Tiessen, A.; Pauly, M.; Geigenberger, P.; Steup, M.: Analysis of cytosolic heteroglycans from leaves of transgenic potato (Solanum tuberosum L.) plants that under- or overexpress the Pho 2 phosphorylase isozyme. Plant and Cell Physiology 46 (12), pp. 1987 - 2004 (2005)

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29.

Journal Article

Fieulaine, S.; Lunn, J. E.; Borel, F.; Ferrer, J. L.: The structure of a cyanobacterial sucrose-phosphatase reveals the sugar tongs that release free sucrose in the cell. Plant Cell 17 (7), pp. 2049 - 2058 (2005)

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30.

Journal Article

Forner, J.; Weber, B.; Wietholter, C.; Meyer, R. C.; Binder, S.: Distant sequences determine 5 ' end formation of cox3 transcripts in Arabidopsis thaliana ecotype C24. Nucleic Acids Research 33 (15), pp. 4673 - 4682 (2005)

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31.

Journal Article

Frenzel, A.; Manthey, K.; Perlick, A. M.; Meyer, F.; Puehler, A.; Kuester, H.; Krajinski, F.: Combined transcriptome profiling reveals a novel family of arbuscular mycorrhizal-specific Medicago truncatula lectin genes. Molecular Plant-Microbe Interactions 18 (8), pp. 771 - 782 (2005)

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32.

Journal Article

Geigenberger, P.; Regierer, B.; Nunes-Nesi, A.; Leisse, A.; Urbanczyk-Wochniak, E.; Springer, F.; van Dongen, J. T.; Kossmann, J.; Fernie, A. R.: Inhibition of de novo pyrimidine synthesis in growing potato tubers leads to a compensatory stimulation of the pyrimidine salvage pathway and a subsequent increase in biosynthetic performance. Plant Cell 17 (7), pp. 2077 - 2088 (2005)

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33.

Journal Article

Giavalisco, P.; Nordhoff, E.; Kreitler, T.; Kloppel, K. D.; Lehrach, H.; Klose, J.; Gobom, J.: Proteome analysis of Arabidopsis thaliana by two-dimensional gel electrophoresis and matrix-assisted laser desorption/ionisation-time of flight mass spectrometry. Proteomics 5 (7), pp. 1902 - 1913 (2005)

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34.

Journal Article

Giavalisco, P.; Wilson, D.; Kreitler, T.; Lehrach, H.; Klose, J.; Gobom, J.; Fucini, P.: High heterogeneity within the ribosomal proteins of the Arabidopsis thaliana 80S ribosome. Plant Molecular Biology 57 (4), pp. 577 - 591 (2005)

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35.

Journal Article

Gibeaut, D. M.; Pauly, M.; Bacic, A.; Fincher, G. B.: Changes in cell wall polysaccharides in developing barley (Hordeum vulgare) coleoptiles. Planta 221 (5), pp. 729 - 738 (2005)

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36.

Journal Article

Glinski, M.; Weckwerth, W.: Differential Multisite Phosphorylation of the Trehalose-6-phosphate Synthase Gene Family in Arabidopsis thaliana: A Mass Spectrometry-based Process for Multiparallel Peptide Library Phosphorylation Analysis. Molecular & Cellular Proteomics 4 (10), pp. 1614 - 1625 (2005)

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37.

Journal Article

Gomez-Merino, F. C.; Arana-Ceballos, F. A.; Trejo-Tellez, L. I.; Skirycz, A.; Brearley, C. A.; Doermann, P.; Mueller-Roeber, B.: Arabidopsis AtDGK7, the smallest member of plant diacylglycerol kinases (DGKs), displays unique biochemical features and saturates at low substrate concentration - The DGK inhibitor R59022 differentially affects AtDGK2 and AtDGK7 activity in vitro and alters plant growth and development. Journal of Biological Chemistry 280 (41), pp. 34888 - 34899 (2005)

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38.

Journal Article

Gruhler, A.; Schulze, W. X.; Matthiesen, R.; Mann, M.; Jensen, O. N.: Stable isotope labeling of Arabidopsis thaliana cells and quantitative proteomics by mass spectrometry. Molecular & Cellular Proteomics 4 (11), pp. 1697 - 1709 (2005)

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39.

Journal Article

Handorf, T.; Ebenhoeh, O.; Heinrich, R.: Expanding metabolic networks: scopes of compounds, robustness, and evolution. Journal of Molecular Evolution 61 (4), pp. 498 - 512 (2005)

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40.

Journal Article

Hannah, M. A.; Heyer, A. G.; Hincha, D. K.: A global survey of gene regulation during cold acclimation in Arabidopsis thaliana. PLoS Genetics 1 (2), p. e26 (2005)

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41.

Journal Article

Havaux, M.; Eymery, F.; Porfirova, S.; Rey, P.; Doermann, P.: Vitamin E protects against photoinhibition and photooxidative stress in Arabidopsis thaliana. Plant Cell 17 (12), pp. 3451 - 3469 (2005)

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42.

Journal Article

Hopkins, L.; Parmar, S.; Baszczyk, A.; Hesse, H.; Hoefgen, R.; Hawkesford, M. J.: O-acetylserine and the regulation of expression of genes encoding components for sulfate uptake and assimilation in potato. Plant Physiology 138 (1), pp. 433 - 440 (2005)

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43.

Journal Article

Hummel, J.; Keshvari, N.; Weckwerth, W.; Selbig, J.: Species-specific analysis of protein sequence motifs using mutual information. BMC Bioinformatics 6, p. 164 (2005)

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44.

Journal Article

Ishizaki, K.; Larson, T. R.; Schauer, N.; Fernie, A. R.; Graham, I. A.; Leaver, C. J.: The critical role of Arabidopsis electron-transfer flavoprotein: Ubiquinone oxidoreductase during dark-induced starvation. Plant Cell 17 (9), pp. 2587 - 2600 (2005)

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45.

Journal Article

Kanter, U.; Usadel, B.; Guerineau, F.; Li, Y.; Pauly, M.; Tenhaken, R.: The inositol oxygenase gene family of Arabidopsis is involved in the biosynthesis of nucleotide sugar precursors for cell-wall matrix polysaccharides. Planta 221 (2), pp. 243 - 254 (2005)

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46.

Journal Article

Kanwischer, M.; Porfirova, S.; Bergmueller, E.; Doermann, P.: Alterations in tocopherol cyclase activity in transgenic and mutant plants of arabidopsis affect tocopherol content, tocopherol composition, and oxidative stress. Plant Physiology 137 (2), pp. 713 - 723 (2005)

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47.

Journal Article

Kehr, J.; Buhtz, A.; Giavalisco, P.: Analysis of xylem sap proteins from Brassica napus. BMC Plant Biology 5, p. 11 (2005)

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48.

Journal Article

Koetting, O.; Pusch, K.; Tiessen, A.; Geigenberger, P.; Steup, M.; Ritte, G.: Identification of a novel enzyme required for starch metabolism in Arabidopsis leaves. The phosphoglucan, water dikinase. Plant Physiology 137 (1), pp. 242 - 252 (2005)

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49.

Journal Article

Köhler, C.; Page, D. R.; Gagliardini, V.; Grossniklaus, U.: The Arabidopsis thaliana MEDEA Polycomb group protein controls expression of PHERES1 by parental imprinting. Nature Genetics 37 (1), pp. 28 - 30 (2005)

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50.

Journal Article

Kolbe, A.; Tiessen, A.; Schluepmann, H.; Paul, M.; Ulrich, S.; Geigenberger, P.: Trehalose 6-phosphate regulates starch synthesis via posttranslational redox activation of ADP-glucose pyrophosphorylase. Proceedings of the National Academy of Sciences of the United States of America 102 (31), pp. 11118 - 11123 (2005)

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Publications of the institute

Journal Article (110)