Journal Article (198)

101.
Journal Article
Kleessen, S.; Antonio, C.; Sulpice, R.; Laitinen, R.; Fernie, A. R.; Stitt, M.; Nikoloski, Z.: Structured patterns in geographic variability of metabolic phenotypes in Arabidopsis thaliana. Nature Communications 3, p. 1319 (2012)
102.
Journal Article
Kleessen, S.; Araujo, W. L.; Fernie, A. R.; Nikoloski, Z.: Model-based Confirmation of Alternative Substrates of Mitochondrial Electron Transport Chain. Journal of Biological Chemistry 287 (14), pp. 11122 - 11131 (2012)
103.
Journal Article
Kleessen, S.; Fernie, A. R.; Nikoloski, Z.: A computational framework for evaluating the efficiency of Arabidopsis accessions in response to nitrogen stress reveals important metabolic mechanisms. Frontiers in Plant Science 3, p. 217 (2012)
104.
Journal Article
Kleessen, S.; Nikoloski, Z.: Dynamic regulatory on/off minimization for biological systems under internal temporal perturbations. BMC Systems Biology 6 (1), p. 16 (2012)
105.
Journal Article
Klie, S.; Caldana, C.; Nikoloski, Z.: Compromise of multiple time-resolved transcriptomics experiments identifies tightly regulated functions. Frontiers in Plant Science 3, p. 249 (2012)
106.
Journal Article
Klie, S.; Mutwil, M.; Persson, S.; Nikoloski, Z.: Inferring gene functions through dissection of relevance networks: interleaving the intra- and inter-species views. Molecular BioSystems 8 (9), pp. 2233 - 2241 (2012)
107.
Journal Article
Klie, S.; Nikoloski, Z.: The Choice between MapMan and Gene Ontology for Automated Gene Function Prediction in Plant Science. Frontiers in Genetics 3, p. 115 (2012)
108.
Journal Article
Kochevenko, A.; Araujo, W. L.; Maloney, G. S.; Tieman, D. M.; Do, P. T.; Taylor, M. G.; Klee, H. J.; Fernie, A. R.: Catabolism of Branched Chain Amino Acids Supports Respiration but Not Volatile Synthesis in Tomato Fruits. Molecular Plant 5 (2), pp. 366 - 375 (2012)
109.
Journal Article
Kochevenko, A.; Klee, H. J.; Fernie, A. R.; Araújo, W. L.: Molecular identification of a further branched-chain aminotransferase 7 (BCAT7) in tomato plants. Journal of Plant Physiology 169 (5), pp. 437 - 443 (2012)
110.
Journal Article
Köhler, C.; Wolff, P.; Spillane, C.: Epigenetic Mechanisms Underlying Genomic Imprinting in Plants. Annual Review of Plant Biology 63, pp. 331 - 352 (2012)
111.
Journal Article
Krech, K.; Ruf, S.; Masduki, F. F.; Thiele, W.; Bednarczyk, D.; Albus, C. A.; Tiller, N.; Hasse, C.; Schöttler, M. A.; Bock, R.: The plastid genome-encoded Ycf4 protein functions as a non-essential assembly factor for photosystem I in higher plants. Plant Physiology 159 (2), pp. 579 - 591 (2012)
112.
Journal Article
Kruegel, U.; He, H. X.; Gier, K.; Reins, J.; Chincinska, I.; Grimm, B.; Schulze, W. X.; Kuehn, C.: The Potato Sucrose Transporter StSUT1 Interacts with a DRM-Associated Protein Disulfide Isomerase. Molecular Plant 5 (1), pp. 43 - 62 (2012)
113.
Journal Article
Kueger, S.; Steinhauser, D.; Willmitzer, L.; Giavalisco, P.: High-resolution plant metabolomics: from mass spectral features to metabolites and from whole-cell analysis to subcellular metabolite distributions. The Plant Journal 70 (1), pp. 39 - 50 (2012)
114.
Journal Article
Lai, A. G.; Doherty, C. J.; Mueller-Roeber, B.; Kay, S. A.; Schippers, J. H. M.; Dijkwel, P. P.: CIRCADIAN CLOCK-ASSOCIATED 1 regulates ROS homeostasis and oxidative stress responses. Proceedings of the National Academy of Sciences of the United States of America 109 (42), pp. 17129 - 17134 (2012)
115.
Journal Article
Lambers, H.; Cawthray, G. R.; Giavalisco, P.; Kuo, J.; Laliberte, E.; Pearse, S. J.; Scheible, W.-R.; Stitt, M.; Teste, F.; Turner, B. L.: Proteaceae from severely phosphorus-impoverished soils extensively replace phospholipids with galactolipids and sulfolipids during leaf development to achieve a high photosynthetic phosphorus-use-efficiency. New Phytologist 196 (4), pp. 1098 - 1108 (2012)
116.
Journal Article
Larhlimi, A.; David, L.; Selbig, J.; Bockmayr, A.: F2C2: a fast tool for the computation of flux coupling in genome-scale metabolic networks. Bmc Bioinformatics 13, p. 57 (2012)
117.
Journal Article
Lee, Y. P.; Babakov, A.; de Boer, B.; Zuther, E.; Hincha, D. K.: Comparison of freezing tolerance, compatible solutes and polyamines in geographically diverse collections of Thellungiella sp. and Arabidopsis thaliana accessions. BMC Plant Biology 12, p. 131 (2012)
118.
Journal Article
Lehmann, M.; Laxa, M.; Sweetlove, L. J.; Fernie, A. R.; Obata, T.: Metabolic recovery of Arabidopsis thaliana roots following cessation of oxidative stress. Metabolomics 8 (1), pp. 143 - 153 (2012)
119.
Journal Article
Li, J. W.; Robison, K.; Martin, M.; Sjodin, A.; Usadel, B.; Young, M.; Olivares, E. C.; Bolser, D. M.: The SEQanswers wiki: a wiki database of tools for high-throughput sequencing analysis. Nucleic Acids Research 40 (Database issue), pp. D1313 - D1317 (2012)
120.
Journal Article
Lisso, J.; Schroder, F.; Schippers, J. H.; Mussig, C.: NFXL2 modifies cuticle properties in Arabidopsis. Plant Signaling & Behavior 7 (5), pp. 551 - 555 (2012)
121.
Journal Article
Lohse, M.; Bolger, A. M.; Nagel, A.; Fernie, A. R.; Lunn, J. E.; Stitt, M.; Usadel, B.: RobiNA: a user-friendly, integrated software solution for RNA-Seq-based transcriptomics. Nucleic Acids Research 40 (W1), pp. W622 - W627 (2012)
122.
Journal Article
Marshall, A.; Aalen, R. B.; Audenaert, D.; Beeckman, T.; Broadley, M. R.; Butenko, M. A.; Cano-Delgado, A. I.; de Vries, S.; Dresselhaus, T.; Felix, G. et al.; Graham, N. S.; Foulkes, J.; Granier, C.; Greb, T.; Grossniklaus, U.; Hammond, J. P.; Heidstra, R.; Hodgman, C.; Hothorn, M.; Inze, D.; Ostergaard, L.; Russinova, E.; Simon, R.; Skirycz, A.; Stahl, Y.; Zipfel, C.; De Smete, I.: Tackling Drought Stress: RECEPTOR-LIKE KINASES Present New Approaches. Plant Cell 24 (6), pp. 2262 - 2278 (2012)
123.
Journal Article
Mastrobuoni, G.; Irgang, S.; Pietzke, M.; Assmus, H. E.; Wenzel, M.; Schulze, W. X.; Kempa, S.: Proteome dynamics and early salt stress response of the photosynthetic organism Chlamydomonas reinhardtii. BMC Genomics 13, p. 215 (2012)
124.
Journal Article
Mehterov, N.; Balazadeh, S.; Hille, J.; Toneva, V.; Mueller-Roeber, B.; Gechev, T.: Oxidative stress provokes distinct transcriptional responses in the stress-tolerant atr7 and stress-sensitive loh2 Arabidopsis thaliana mutants as revealed by multi-parallel quantitative real-time PCR analysis of ROS marker and antioxidant genes. Plant Physiology and Biochemistry 59, pp. 20 - 29 (2012)
125.
Journal Article
Meissner, M.; Orsini, E.; Ruschhaupt, M.; Melchinger, A. E.; Hincha, D. K.; Heyer, A. G.: Mapping quantitative trait loci for freezing tolerance in a recombinant inbred line population of Arabidopsis thaliana accessions Tenela and C24 reveals REVEILLE1 as negative regulator of cold acclimation. Plant Cell and Environment 36, pp. 1256 - 1267 (2012)
126.
Journal Article
Meyer, R. C.; Witucka-Wall, H.; Becher, M.; Blacha, A.; Boudichevskaia, A.; Doermann, P.; Fiehn, O.; Friedel, S.; von Korff, M.; Lisec, J. et al.; Melzer, M.; Repsilber, D.; Schmidt, R.; Scholz, M.; Selbig, J.; Willmitzer, L.; Altmann, T.: Heterosis manifestation during early Arabidopsis seedling development is characterized by intermediate gene expression and enhanced metabolic activity in the hybrids. The Plant Journal 71 (4), pp. 669 - 683 (2012)
127.
Journal Article
Morales, S. G.; Trejo-Tellez, L. I.; Gomez Merino, F. C.; Caldana, C.; Espinosa-Victoria, D.; Herrera Cabrera, B. E.: Growth, photosynthetic activity, and potassium and sodium concentration in rice plants under salt stress. ACTA SCIENTIARUM-AGRONOMY 34 (3), pp. 317 - 324 (2012)
128.
Journal Article
Mounet, F.; Moing, A.; Kowalczyk, M.; Rohrmann, J.; Petit, J.; Garcia, V.; Maucourt, M.; Yano, K.; Deborde, C.; Aoki, K. et al.; Berges, H.; Granell, A.; Fernie, A. R.; Bellini, C.; Rothan, C.; Lemaire-Chamley, M.: Down-regulation of a single auxin efflux transport protein in tomato induces precocious fruit development. Journal of Experimental Botany 63 (13), pp. 4901 - 4917 (2012)
129.
Journal Article
Neumetzler, L.; Humphrey, T.; Lumba, S.; Snyder, S.; Yeats, T. H.; Usadel, B.; Vasilevski, A.; Patel, J.; Rose, J. K. C.; Persson, S. et al.; Bonetta, D.: The FRIABLE1 Gene Product Affects Cell Adhesion in Arabidopsis. PLoS One 7 (8), p. e42914 (2012)
130.
Journal Article
Nguyen, H. C.; Hoefgen, R.; Hesse, H.: Improving the nutritive value of rice seeds: elevation of cysteine and methionine contents in rice plants by ectopic expression of a bacterial serine acetyltransferase. Journal of Experimental Botany 63 (16), pp. 5991 - 6001 (2012)
131.
Journal Article
Niessen, M.; Krause, K.; Horst, I.; Staebler, N.; Klaus, S.; Gaertner, S.; Kebeish, R.; Araujo, W. L.; Fernie, A. R.; Peterhansel, C.: Two alanine aminotranferases link mitochondrial glycolate oxidation to the major photorespiratory pathway in Arabidopsis and rice. Journal of Experimental Botany 63 (7), pp. 2705 - 2716 (2012)
132.
Journal Article
Noor, E.; Bar-Even, A.; Flamholz, A.; Lubling, Y.; Davidi, D.; Milo, R.: An integrated open framework for thermodynamics of reactions that combines accuracy and coverage. Bioinformatics 28 (15), pp. 2037 - 2044 (2012)
133.
Journal Article
Nordhues, A.; Schöttler, M. A.; Unger, A. K.; Geimer, S.; Schoenfelder, S.; Schmollinger, S.; Ruetgers, M.; Finazzi, G.; Soppa, B.; Sommer, F. et al.; Muehlhaus, T.; Roach, T.; Krieger-Liszkay, A.; Lokstein , H.; Crespo, J. L.; Schroda, M.: Evidence for a Role of VIPP1 in the Structural Organization of the Photosynthetic Apparatus in Chlamydomonas. The Plant Cell 24 (2), pp. 637 - 659 (2012)
134.
Journal Article
Obata, T.; Fernie, A. R.: The use of metabolomics to dissect plant responses to abiotic stresses. Cellular and Molecular Life Sciences 69 (19), pp. 3225 - 3243 (2012)
135.
Journal Article
Omidbakhshfard, M. A.; Omranian, N.; Ahmadi, F. S.; Nikoloski, Z.; Mueller-Roeber, B.: Effect of salt stress on genes encoding translation-associated proteins in Arabidopsis thaliana. Plant Signaling & Behavior 7 (9), pp. 1095 - 1102 (2012)
136.
Journal Article
Omranian, N.; Mueller-Roeber, B.; Nikoloski, Z.: PageRank-based identification of signaling crosstalk from transcriptomics data: the case of Arabidopsis thaliana. Molecular BioSystems 8 (4), pp. 1121 - 1127 (2012)
137.
Journal Article
Osorio, S.; Alba, R.; Nikoloski, Z.; Kochevenko, A.; Fernie, A. R.; Giovannoni, J. J.: Integrative Comparative Analyses of Transcript and Metabolite Profiles from Pepper and Tomato Ripening and Development Stages Uncovers Species-Specific Patterns of Network Regulatory Behavior. Plant Physiology 159 (4), pp. 1713 - 1729 (2012)
138.
Journal Article
Paparelli, E.; Gonzali, S.; Parlanti, S.; Novi, G.; Giorgi, F. M.; Licausi, F.; Kosmacz, M.; Feil, R.; Lunn, J. E.; Brust, H. et al.; van Dongen, J. T.; Steup, M.; Perata, P.: Misexpression of a Chloroplast Aspartyl Protease Leads to Severe Growth Defects and Alters Carbohydrate Metabolism in Arabidopsis. Plant Physiology 160 (3), pp. 1237 - 1250 (2012)
139.
Journal Article
Poorter, H.; Fiorani, F.; Stitt, M.; Schurr, U.; Finck, A.; Gibon, Y.; Usadel, B.; Munns, R.; Atkin, O. K.; Tardieu, F. et al.; Pons, T. L.: The art of growing plants for experimental purposes: a practical guide for the plant biologist Review. Functional Plant Biology 39 (10-11), pp. 821 - 838 (2012)
140.
Journal Article
Pribil, M.; Armbruster, U.; Rühle, T.; Leister, D.: Identification of novel regulators of plant photosynthesis: current state and open questions. Endocytobiosis and cell research: journal of the International Society of Endocytobiology (23), pp. 41 - 51 (2012)
141.
Journal Article
Pyl, E. T.; Piques, M.; Ivakov, A.; Schulze, W.; Ishihara, H.; Stitt, M.; Sulpice, R.: Metabolism and Growth in Arabidopsis Depend on the Daytime Temperature but Are Temperature-Compensated against Cool Nights. Plant Cell 24 (6), pp. 2443 - 2469 (2012)
142.
Journal Article
Ribeiro, D. M.; Araujo, W. L.; Fernie, A. R.; Schippers, J. H. M.; Mueller-Roeber, B.: Action of Gibberellins on Growth and Metabolism of Arabidopsis Plants Associated with High Concentration of Carbon Dioxide. Plant Physiology 160 (4), pp. 1781 - 1794 (2012)
143.
Journal Article
Ribeiro, D. M.; Araujo, W. L.; Fernie, A. R.; Schippers, J. H.; Mueller-Roeber, B.: Translatome and metabolome effects triggered by gibberellins during rosette growth in Arabidopsis. Journal of Experimental Botany 63 (7), pp. 2769 - 2786 (2012)
144.
Journal Article
Riedelsheimer, C.; Czedik-Eysenberg, A.; Grieder, C.; Lisec, J.; Technow, F.; Sulpice, R.; Altmann, T.; Stitt, M.; Willmitzer, L.; Melchinger, A. E.: Genomic and metabolic prediction of complex heterotic traits in hybrid maize. Nature Genetics 44 (2), pp. 217 - 220 (2012)
145.
Journal Article
Riedelsheimer, C.; Czedik-Eysenberg, A.; Grieder, C.; Lisec, J.; Technow, F.; Sulpice, R.; Altmann, T.; Stitt, M.; Willmitzer, L.; Melchinger, A. E.: Genomic and metabolic prediction of complex heterotic traits in hybrid maize. Nature Genetics 44, pp. 217 - 220 (2012)
146.
Journal Article
Riedelsheimer, C.; Lisec, J.; Czedik-Eysenberg, A.; Sulpice, R.; Flis, A.; Grieder, C.; Altmann, T.; Stitt, M.; Willmitzer, L.; Melchinger, A. E.: Genome-wide association mapping of leaf metabolic profiles for dissecting complex traits in maize. Proceedings of the National Academy of Sciences of the United States of America 109 (23), pp. 8872 - 8877 (2012)
147.
Journal Article
Riegler, H.; Herter, T.; Grishkovskaya, I.; Lude, A.; Ryngajllo, M.; Bolger, M. E.; Essigmann, B.; Usadel, B.: Crystal structure and functional characterization of a glucosamine-6-phosphate N-acetyltransferase from Arabidopsis thaliana. Biochemical Journal 443, pp. 427 - 437 (2012)
148.
Journal Article
Riewe, D.; Koohi, M.; Lisec, J.; Pfeiffer, M.; Lippmann, R.; Schmeichel, J.; Willmitzer, L.; Altmann, T.: A tyrosine aminotransferase involved in tocopherol synthesis in Arabidopsis. Plant Journal 71 (5), pp. 850 - 859 (2012)
149.
Journal Article
Roach, M.; Gerber, L.; Sandquist, D.; Gorzsas, A.; Hedenstrom, M.; Kumar, M.; Steinhauser, M. C.; Feil, R.; Daniel, G.; Stitt, M. et al.; Sundberg, B.; Niittyla, T.: Fructokinase is required for carbon partitioning to cellulose in aspen wood. Plant Journal 70 (6), pp. 967 - 977 (2012)
150.
Journal Article
Rohloff, J.; Kopka, J.; Erban, A.; Winge, P.; Wilson, R. C.; Bones, A. M.; Davik, J.; Randall, S. K.; Alsheikh, M. K.: Metabolite profiling reveals novel multi-level cold responses in the diploid model Fragaria vesca (woodland strawberry). Phytochemistry 77, pp. 99 - 109 (2012)
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