Publications of the institute

Journal Article (139)

1.
Journal Article
Armbruster, U.; Hertle, A.; Makarenko, E.; Zuehlke, J.; Pribil, M.; Dietzmann, A.; Schliebner, I.; Aseeva, E.; Fenino, E.; Scharfenberg, M. et al.; Voigt, C.; Leister, D.: Chloroplast Proteins without Cleavable Transit Peptides: Rare Exceptions or a Major Constituent of the Chloroplast Proteome? Molecular Plant 2 (6), pp. 1325 - 1335 (2009)
2.
Journal Article
Börner, T.; Ostersetzer-Biran, O.; Schmitz-Linneweber, C.; Zoschke, R.: Analysis of the regulation of MatK gene expression. Endocytobiosis and cell research: journal of the International Society of Endocytobiology 19, pp. 127 - 135 (2009)
3.
Journal Article
Horbach, R.; Graf, A.; Weihmann, F.; Antelo, L.; Mathea, S.; Liermann, J. C.; Opatz, T.; Thines, E.; Aguirre, J.; Deising, H. B.: Sfp-Type 4′-Phosphopantetheinyl Transferase Is Indispensable for Fungal Pathogenicity[W]. The Plant Cell 21 (10), pp. 3379 - 3396 (2009)
4.
Journal Article
Tillich, M.; Hardel, S. L.; Kupsch, C.; Armbruster, U.; Delannoy, E.; Gualberto, J. M.; Lehwark, P.; Leister, D.; Small, I. D.; Schmitz-Linneweber, C.: Chloroplast ribonucleoprotein CP31A is required for editing and stability of specific chloroplast mRNAs. Proceedings of the National Academy of Sciences of the United States of America 106 (14), pp. 6002 - 6007 (2009)
5.
Journal Article
Abasolo, W.; Eder, M.; Yamauchi, K.; Obel, N.; Reinecke, A.; Neumetzler, L.; Dunlop, J. W. C.; Mouille, G.; Pauly, M.; Hofte, H. et al.; Burgert, I.: Pectin May Hinder the Unfolding of Xyloglucan Chains during Cell Deformation: Implications of the Mechanical Performance of Arabidopsis Hypocotyls with Pectin Alterations. Molecular Plant 2 (5), pp. 990 - 999 (2009)
6.
Journal Article
Afzal, A. J.; Natarajan, A.; Saini, N.; Iqbal, M. J.; Geisler, M.; El Shemy, H. A.; Mungur, R.; Willmitzer, L.; Lightfoot, D. A.: The Nematode Resistance Allele at the rhg1 Locus Alters the Proteome and Primary Metabolism of Soybean Roots. Plant Physiology 151 (3), pp. 1264 - 1280 (2009)
7.
Journal Article
Ahlert, D.; Stegemann, S.; Kahlau, S.; Ruf, S.; Bock, R.: Insensitivity of chloroplast gene expression to DNA methylation. Molecular Genetics and Genomics 282 (1), pp. 17 - 24 (2009)
8.
Journal Article
Allwood, J. W.; Erban, A.; de Koning, S.; Dunn, W. B.; Lüdemann, A.; Lommen, A.; Kay, L.; Loscher, R.; Kopka, J.; Goodacre, R.: Inter-laboratory reproducibility of fast gas chromatography-electron impact-time of flight mass spectrometry (GC-EI-TOF/MS) based plant metabolomics. Metabolomics 5 (4), pp. 479 - 496 (2009)
9.
Journal Article
Andorf, S.; Gaertner, T.; Steinfath, M.; Witucka-Wall, H.; Altmann, T.; Repsilber, D.: Towards Systems Biology of Heterosis: A Hypothesis about Molecular Network Structure Applied for the Arabidopsis Metabolome. EURASIP Journal on Bioinformatics and Systems Biology, p. 147157 (2009)
10.
Journal Article
Angelovici, R.; Fait, A.; Zhu, X. H.; Szymanski, J.; Feldmesser, E.; Fernie, A. R.; Galili, G.: Deciphering Transcriptional and Metabolic Networks Associated with Lysine Metabolism during Arabidopsis Seed Development. Plant Physiology 151 (4), pp. 2058 - 2072 (2009)
11.
Journal Article
Apel, W.; Bock, R.: Enhancement of Carotenoid Biosynthesis in Transplastomic Tomatoes by Induced Lycopene-to-Provitamin A Conversion. Plant Physiology 151 (1), pp. 59 - 66 (2009)
12.
Journal Article
Armengaud, P.; Sulpice, R.; Miller, A. J.; Stitt, M.; Amtmann, A.; Gibon, Y.: Multilevel Analysis of Primary Metabolism Provides New Insights into the Role of Potassium Nutrition for Glycolysis and Nitrogen Assimilation in Arabidopsis Roots. Plant Physiology 150 (2), pp. 772 - 785 (2009)
13.
Journal Article
Armengaud, P.; Zambaux, K.; Hills, A.; Sulpice, R.; Pattison, R. J.; Blatt, M. R.; Amtmann, A.: EZ-Rhizo: integrated software for the fast and accurate measurement of root system architecture. The Plant Journal 57 (5), pp. 945 - 956 (2009)
14.
Journal Article
Arrivault, S.; Guenther, M.; Ivakov, A.; Feil, R.; Vosloh, D.; van Dongen, J. T.; Sulpice, R.; Stitt, M.: Use of reverse-phase liquid chromatography, linked to tandem mass spectrometry, to profile the Calvin cycle and other metabolic intermediates in Arabidopsis rosettes at different carbon dioxide concentrations. Plant Journal 59 (5), pp. 824 - 839 (2009)
15.
Journal Article
Baessler, O. Y.; Weiss, J.; Wienkoop, S.; Lehmann, K.; Scheler, C.; Dolle, S.; Schwarz, D.; Franken, P.; George, E.; Worm, M. et al.; Weckwerth, W.: Evidence for Novel Tomato Seed Allergens: IgE-Reactive Legumin and Vicilin Proteins Identified by Multidimensional Protein Fractionation-Mass Spectrometry and in Silico Epitope Modeling. Journal of Proteome Research 8 (3), pp. 1111 - 1122 (2009)
16.
Journal Article
Barratt, D. H. P.; Derbyshire, P.; Findlay, K.; Pike, M.; Wellner, N.; Lunn, J.; Feil, R.; Simpson, C.; Maule, A. J.; Smith, A. M.: Normal growth of Arabidopsis requires cytosolic invertase but not sucrose synthase. Proceedings of the National Academy of Sciences of the United States of America 106 (31), pp. 13124 - 13129 (2009)
17.
Journal Article
Baruah, A.; Simkova, K.; Hincha, D. K.; Apel, K.; Laloi, C.: Modulation of O-1(2)-mediated retrograde signaling by the PLEIOTROPIC RESPONSE LOCUS 1 (PRL1) protein, a central integrator of stress and energy signaling. The Plant Journal 60 (1), pp. 22 - 32 (2009)
18.
Journal Article
Bischoff, V.; Cookson, S. J.; Wu, S.; Scheible, W.-R.: Thaxtomin A affects CESA-complex density, expression of cell wall genes, cell wall composition, and causes ectopic lignification in Arabidopsis thaliana seedlings. Journal of Experimental Botany 60 (3), pp. 955 - 965 (2009)
19.
Journal Article
Bleidorn, C.; Hill, N.; Erseus, C.; Tiedemann, R.: On the role of character loss in orbiniid phylogeny (Annelida): Molecules vs. morphology. Molecular Phylogenetics and Evolution 52 (1), pp. 57 - 69 (2009)
20.
Journal Article
Bleidorn, C.; Podsiadlowski, L.; Zhong, M.; Eeckhaut, I.; Hartmann, S.; Halanych, K. M.; Tiedemann, R.: On the phylogenetic position of Myzostomida: can 77 genes get it wrong? BMC Evolutionary Biology 9, p. 150 (2009)
21.
Journal Article
Bortesi, L.; Rossato, M.; Schuster, F.; Raven, N.; Stadlmann, J.; Avesani, L.; Falorni, A.; Bazzoni, F.; Bock, R.; Schillberg, S. et al.; Pezzotti, M.: Viral and murine interleukin-10 are correctly processed and retain their biological activity when produced in tobacco. BMC Biotechnology 9, p. 22 (2009)
22.
Journal Article
Brautigam, K.; Dietzel, L.; Kleine, T.; Stroher, E.; Wormuth, D.; Dietz, K. J.; Radke, D.; Wirtz, M.; Hell, R.; Doermann, P. et al.; Nunes-Nesi, A.; Schauer, N.; Fernie, A. R.; Oliver, S. N.; Geigenberger, P.; Leister, D.; Pfannschmidt, T.: Dynamic Plastid Redox Signals Integrate Gene Expression and Metabolism to Induce Distinct Metabolic States in Photosynthetic Acclimation in Arabidopsis. The Plant Cell 21 (9), pp. 2715 - 2732 (2009)
23.
Journal Article
Brotman, Y.; Makovitzki, A.; Shai, Y.; Chet, I.; Viterbo, A.: Synthetic Ultrashort Cationic Lipopeptides Induce Systemic Plant Defense Responses against Bacterial and Fungal Pathogens. Applied and Environmental Microbiology 75 (16), pp. 5373 - 5379 (2009)
24.
Journal Article
Bulik, S.; Grimbs, S.; Huthmacher, C.; Selbig, J.; Holzhuetter, H. G.: Kinetic hybrid models composed of mechanistic and simplified enzymatic rate laws - a promising method for speeding up the kinetic modelling of complex metabolic networks. FEBS Journal 276 (2), pp. 410 - 424 (2009)
25.
Journal Article
Bunik, V. I.; Fernie, A. R.: Metabolic control exerted by the 2-oxoglutarate dehydrogenase reaction: a cross-kingdom comparison of the crossroad between energy production and nitrogen assimilation. Biochemical Journal 422 (3), pp. 405 - 421 (2009)
26.
Journal Article
Cheng, F. X.; Hartmann, S.; Gupta, M.; Ibrahim, J. G.; Vision, T. J.: A hierarchical model for incomplete alignments in phylogenetic inference. Bioinformatics 25 (5), pp. 592 - 598 (2009)
27.
Journal Article
Childs, L.; Nikoloski, Z.; May, P.; Walther, D.: Identification and classification of ncRNA molecules using graph properties. Nucleic Acids Research 37 (9), p. e66 (2009)
28.
Journal Article
Christian, N.; May, P.; Kempa, S.; Handorf, T.; Ebenhoeh, O.: An integrative approach towards completing genome-scale metabolic networks. Molecular Biosystems 5 (12), pp. 1889 - 1903 (2009)
29.
Journal Article
Cuadros-Inostroza, A.; Caldana, C.; Redestig, H.; Kusano, M.; Lisec, J.; Pena-Cortes, H.; Willmitzer, L.; Hannah, M. A.: TargetSearch - a Bioconductor package for the efficient preprocessing of GC-MS metabolite profiling data. BMC Bioinformatics 10, p. 428 (2009)
30.
Journal Article
DeBolt, S.; Scheible, W.-R.; Schrick, K.; Auer, M.; Beisson, F.; Bischoff, V.; Bouvier-Nave, P.; Carroll, A.; Hematy, K.; Li, Y. H. et al.; Milne, J.; Nair, M.; Schaller, H.; Zemla, M.; Somerville, C.: Mutations in UDP-Glucose:Sterol Glucosyltransferase in Arabidopsis Cause Transparent Testa Phenotype and Suberization Defect in Seeds. Plant Physiology 151 (1), pp. 78 - 87 (2009)
31.
Journal Article
Degenkolbe, T.; Do, P. T.; Zuther, E.; Repsilber, D.; Walther, D.; Hincha, D. K.; Koehl, K. I.: Expression profiling of rice cultivars differing in their tolerance to long-term drought stress. Plant Molecular Biology 69 (1-2), pp. 133 - 153 (2009)
32.
Journal Article
Depuydt, S.; Trenkamp, S.; Fernie, A. R.; Elftieh, S.; Renou, J. P.; Vuylsteke, M.; Holsters, M.; Vereecke, D.: An Integrated Genomics Approach to Define Niche Establishment by Rhodococcus fascians. Plant Physiology 149 (3), pp. 1366 - 1386 (2009)
33.
Journal Article
Dita, M. A.; Die, J. V.; Roman, B.; Krajinski, F.; Kuester, H.; Moreno, M. T.; Cubero, J. I.; Rubiales, D.: Gene expression profiling of Medicago truncatula roots in response to the parasitic plant Orobanche crenata. Weed Research 49, pp. 66 - 80 (2009)
34.
Journal Article
Durek, P.; Schudoma, C.; Weckwerth, W.; Selbig, J.; Walther, D.: Detection and characterization of 3D-signature phosphorylation site motifs and their contribution towards improved phosphorylation site prediction in proteins. BMC Bioinformatics 10, p. 117 (2009)
35.
Journal Article
Fernie, A. R.; Martinoia, E.: Malate. Jack of all trades or master of a few? Phytochemistry 70 (7), pp. 828 - 832 (2009)
36.
Journal Article
Fernie, A. R.; Schauer, N.: Metabolomics-assisted breeding: a viable option for crop improvement? Trends in Genetics 25 (1), pp. 39 - 48 (2009)
37.
Journal Article
Forde, B. G.; Walch-Liu, P.: Nitrate and glutamate as environmental cues for behavioural responses in plant roots. Plant Cell and Environment 32 (6), pp. 682 - 693 (2009)
38.
Journal Article
Fuehrs, H.; Goetze, S.; Specht, A.; Erban, A.; Gallien, S.; Heintz, D.; van Dorsselaer, A.; Kopka, J.; Braun, H. P.; Horst, W. J.: Characterization of leaf apoplastic peroxidases and metabolites in Vigna unguiculata in response to toxic manganese supply and silicon. Journal of Experimental Botany 60 (6), pp. 1663 - 1678 (2009)
39.
Journal Article
Gaertner, T.; Steinfath, M.; Andorf, S.; Lisec, J.; Meyer, R. C.; Altmann, T.; Willmitzer, L.; Selbig, J.: Improved Heterosis Prediction by Combining Information on DNA- and Metabolic Markers. PLoS One 4 (4), p. e5220 (2009)
40.
Journal Article
Gajdanowicz, P.; Garcia-Mata, C.; Gonzalez, W.; Morales-Navarro, S. E.; Sharma, T.; Gonzalez-Nilo, F. D.; Gutowicz, J.; Mueller-Roeber, B.; Blatt, M. R.; Dreyer, I.: Distinct roles of the last transmembrane domain in controlling Arabidopsis K+ channel activity. New Phytologist 182 (2), pp. 380 - 391 (2009)
41.
Journal Article
Garcia, V.; Stevens, R.; Gil, L.; Gilbert, L.; Gest, N.; Petit, J.; Faurobert, M.; Maucourt, M.; Deborde, C.; Moing, A. et al.; Poessel, J. L.; Jacob, D.; Bouchet, J. P.; Giraudel, J. L.; Gouble, B.; Page, D.; Alhagdow, M.; Massot, C.; Gautier, H.; Lemaire-Chamley, M.; de Daruvar, A.; Rolin, D.; Usadel, B.; Lahaye, M.; Causse, M.; Baldet, P.; Rothan, C.: An integrative genomics approach for deciphering the complex interactions between ascorbate metabolism and fruit growth and composition in tomato. Comptes Rendus Biologies 332 (11), pp. 1007 - 1021 (2009)
42.
Journal Article
Giavalisco, P.; Koehl, K. I.; Hummel, J.; Seiwert, B.; Willmitzer, L.: 13C isotope-labeled metabolomes allowing for improved compound annotation and relative quantification in liquid chromatography-mass spectrometry-based metabolomic research. Analytical Chemistry 81 (15), pp. 6546 - 6551 (2009)
43.
Journal Article
Gibon, Y.; Pyl, E. T.; Sulpice, R.; Lunn, J. E.; Hoehne, M.; Guenther, M.; Stitt, M.: Adjustment of growth, starch turnover, protein content and central metabolism to a decrease of the carbon supply when Arabidopsis is grown in very short photoperiods. Plant Cell and Environment 32 (7), pp. 859 - 874 (2009)
44.
Journal Article
Gilbert, L.; Alhagdow, M.; Nunes-Nesi, A.; Quemener, B.; Guillon, F.; Bouchet, B.; Faurobert, M.; Gouble, B.; Page, D.; Garcia, V. et al.; Petit, J.; Stevens, R.; Causse, M.; Fernie, A. R.; Lahaye, M.; Rothan, C.; Baldet, P.: GDP-d-mannose 3,5-epimerase (GME) plays a key role at the intersection of ascorbate and non-cellulosic cell-wall biosynthesis in tomato. The Plant Journal 60 (3), pp. 499 - 508 (2009)
45.
Journal Article
Gille, S.; Hansel, U.; Ziemann, M.; Pauly, M.: Identification of plant cell wall mutants by means of a forward chemical genetic approach using hydrolases. Proceedings of the National Academy of Sciences of the United States of America 106 (34), pp. 14699 - 14704 (2009)
46.
Journal Article
Gruber, V.; Blanchet, S.; Diet, A.; Zahaf, O.; Boualem, A.; Kakar, K.; Alunni, B.; Udvardi, M. K.; Frugier, F.; Crespi, M.: Identification of transcription factors involved in root apex responses to salt stress in Medicago truncatula. Molecular Genetics and Genomics 281 (1), pp. 55 - 66 (2009)
47.
Journal Article
Guenther, S.; von Eichborn, J.; May, P.; Preissner, R.: JAIL: a structure-based interface library for macromolecules. Nucleic Acids Research 37 (Database issue), pp. 338 - 341 (2009)
48.
Journal Article
Guether, M.; Balestrini, R.; Hannah, M. A.; He, J.; Udvardi, M. K.; Bonfante, P.: Genome-wide reprogramming of regulatory networks, transport, cell wall and membrane biogenesis during arbuscular mycorrhizal symbiosis in Lotus japonicus. New Phytologist 182 (1), pp. 200 - 212 (2009)
49.
Journal Article
Gupta, K. J.; Zabalza, A.; van Dongen, J. T.: Regulation of respiration when the oxygen availability changes. Physiologia Plantarum 137 (4), pp. 383 - 391 (2009)
50.
Journal Article
Gutjahr, C.; Novero, M.; Guether, M.; Montanari, O.; Udvardi, M. K.; Bonfante, P.: Presymbiotic factors released by the arbuscular mycorrhizal fungus Gigaspora margarita induce starch accumulation in Lotus japonicus roots. New Phytologist 183 (1), pp. 53 - 61 (2009)
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