Publications of J. Kopka

Strehmel, N.; Hummel, J.; Erban, A.; Strassburg, K.; Kopka, J.: Retention index thresholds for compound matching in GC-MS metabolite profiling. Journal of Chromatography B-Analytical Technologies in the Biomedical and Life Sciences 871 (2), pp. 182 - 190 (2008)

Dauwe, R.; Morreel, K.; Goeminne, G.; Gielen, B.; Rohde, A.; van Beeumen, J.; Ralph, J.; Boudet, A. M.; Kopka, J.; Rochange, S. F. et al.; Halpin, C.; Messens, E.; Boerjan, W.: Molecular phenotyping of lignin-modified tobacco reveals associated changes in cell-wall metabolism, primary metabolism, stress metabolism and photorespiration. Plant Journal 52 (2), pp. 263 - 285 (2007)

Hannah, M. A.; Kraemer, K. M.; Geffroy, V.; Kopka, J.; Blair, M. W.; Erban, A.; Vallejos, C. E.; Heyer, A. G.; Sanders, F. E.; Millner, P. A. et al.; Pilbeam, D. J.: Hybrid weakness controlled by the dosage-dependent lethal (DL) gene system in common bean (Phaseolus vulgaris) is caused by a shoot-derived inhibitory signal leading to salicylic acid-associated root death. New Phytologist 176 (3), pp. 537 - 549 (2007)

Hernandez, G.; Ramirez, M.; Valdes-Lopez, O.; Tesfaye, M.; Graham, M. A.; Czechowski, T.; Schlereth, A.; Wandrey, M.; Erban, A.; Cheung, F. et al.; Wu, H. C.; Lara, M.; Town, C. D.; Kopka, J.; Udvardi, M. K.; Vance, C. P.: Phosphorus stress in common bean: Root transcript and metabolic responses. Plant Physiology 144 (2), pp. 752 - 767 (2007)

Huege, J.; Sulpice, R.; Gibon, Y.; Lisec, J.; Koehl, K. I.; Kopka, J.: GC-EI-TOF-MS analysis of in vivo carbon-partitioning into soluble metabolite pools of higher plants by monitoring isotope dilution after 13CO2 labelling. Phytochemistry 68 (16-18), pp. 2258 - 2272 (2007)

Kaplan, F.; Kopka, J.; Sung, D. Y.; Zhao, W.; Popp, M.; Porat, R.; Guy, C. L.: Transcript and metabolite profiling during cold acclimation of Arabidopsis reveals an intricate relationship of cold-regulated gene expression with modifications in metabolite content. Plant Journal 50 (6), pp. 967 - 981 (2007)

Kempa, S.; Rozhon, W.; Samaj, J.; Erban, A.; Baluska, F.; Becker, T.; Haselmayer, J.; Schleiff, E.; Kopka, J.; Hirt, H. et al.; Jonak, C.: A plastid-localized glycogen synthase kinase 3 modulates stress tolerance and carbohydrate metabolism. Plant Journal 49 (6), pp. 1076 - 1090 (2007)

Leple, J. C.; Dauwe, R.; Morreel, K.; Storme, V.; Lapierre, C.; Pollet, B.; Naumann, A.; Kang, K. Y.; Kim, H.; Ruel, K. et al.; Lefebvre, A.; Joseleau, J. P.; Grima-Pettenati, J.; De Rycke, R.; Andersson-Gunneras, S.; Erban, A.; Fehrle, I.; Petit-Conil, M.; Kopka, J.; Polle, A.; Messens, E.; Sundberg, B.; Mansfield, S. D.; Ralph, J.; Pilate, G.; Boerjan, W.: Downregulation of cinnamoyl-coenzyme a reductase in poplar: multiple-level phenotyping reveals effects on cell wall polymer metabolism and structure. Plant Cell 19 (11), pp. 3669 - 3691 (2007)

Parveen, I.; Moorby, J. M.; Fraser, M. D.; Allison, G. G.; Kopka, J.: Application of gas chromatography-mass spectrometry metabolite profiling techniques to the analysis of heathland plant diets of sheep. Journal of Agricultural and Food Chemistry 55 (4), pp. 1129 - 1138 (2007)

Schaarschmidt, S.; Kopka, J.; Ludwig-Mueller, J.; Hause, B.: Regulation of arbuscular mycorrhization by apoplastic invertases: enhanced invertase activity in the leaf apoplast affects the symbiotic interaction. Plant Journal 51 (3), pp. 390 - 405 (2007)

Sumner, L. W.; Amberg, A.; Barrett, D.; Beale, M. H.; Beger, R.; Daykin, C. A.; Fan, T. W. M.; Fiehn, O.; Goodacre, R.; Griffin, J. L. et al.; Hankemeier, T.; Hardy, N.; Harnly, J.; Higashi, R.; Kopka, J.; Lane, A. N.; Lindon, J. C.; Marriott, P.; Nicholls, A. W.; Reily, M. D.; Thaden, J. J.; Viant, M. R.: Proposed minimum reporting standards for chemical analysis. Metabolomics 3 (3), pp. 211 - 221 (2007)

Engelsberger, W. R.; Erban, A.; Kopka, J.; Schulze, W. X.: Metabolic labeling of plant cell cultures with K(15)NO3 as a tool for quantitative analysis of proteins and metabolites. Plant Methods 2, p. 14 (2006)

Kopka, J.: Current challenges and developments in GC-MS based metabolite profiling technology. Journal of Biotechnology 124 (1), pp. 312 - 322 (2006)

Lisec, J.; Schauer, N.; Kopka, J.; Willmitzer, L.; Fernie, A. R.: Gas chromatography mass spectrometry-based metabolite profiling in plants. Nature Protocols 1 (1), pp. 387 - 396 (2006)

Niehl, A.; Lacomme, C.; Erban, A.; Kopka, J.; Kraemer, U.; Fisahn, J.: Systemic Potato virus X infection induces defence gene expression and accumulation of beta-phenylethylamine-alkaloids in potato. Functional Plant Biology 33 (6), pp. 593 - 604 (2006)

Schauer, N.; Semel, Y.; Roessner, U.; Gur, A.; Balbo, I.; Carrari, F.; Pleban, T.; Perez-Melis, A.; Bruedigam, C.; Kopka, J. et al.; Willmitzer, L.; Zamir, D.; Fernie, A. R.: Comprehensive metabolic profiling and phenotyping of interspecific introgression lines for tomato improvement. Nature Biotechnology 24 (4), pp. 447 - 454 (2006)

Skirycz, A.; Reichelt, M.; Burow, M.; Birkemeyer, C.; Rolcik, J.; Kopka, J.; Zanor, M. I.; Gershenzon, J.; Strnad, M.; Szopa, J. et al.; Mueller-Roeber, B.; Witt, I.: DOF transcription factor AtDof1.1 (OBP2) is part of a regulatory network controlling glucosinolate biosynthesis in Arabidopsis. Plant Journal 47 (1), pp. 10 - 24 (2006)

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)

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)

Kopka, J.; Schauer, N.; Krueger, S.; Birkemeyer, C.; Usadel, B.; Bergmueller, E.; Doermann, P.; Weckwerth, W.; Gibon, Y.; Stitt, M. et al.; Willmitzer, L.; Fernie, A. R.; Steinhauser, D.: GMD@CSB.DB: the Golm Metabolome Database. Bioinformatics 21 (8), pp. 1635 - 1638 (2005)