Publications of J. Kopka

Strassburg, K., Walther, D., Takahashi, H., Kanaya, S. & Kopka, J. Dynamic Transcriptional and Metabolic Responses in Yeast Adapting to Temperature Stress. Omics-a Journal of Integrative Biology 14, 249–259 (2010).

Strehmel, N., Praeger, U., Koenig, C., Fehrle, I., Erban, A., Geyer, M., Kopka, J. & van Dongen, J. T. Time course effects on primary metabolism of potato (Solanum tuberosum) tuber tissue after mechanical impact. Postharvest Biology and Technology 56, 109–116 (2010).

Walther, D., Strassburg, K., Durek, P. & Kopka, J. Metabolic Pathway Relationships Revealed by an Integrative Analysis of the Transcriptional and Metabolic Temperature Stress-Response Dynamics in Yeast. OMICS: A Journal of Integrative Biology 14, 261–274 (2010).

Weichert, N., Saalbach, I., Weichert, H., Kohl, S., Erban, A., Kopka, J., Hause, B., Varshney, A., Sreenivasulu, N., Strickert, M., Kumlehn, J., Weschke, W. & Weber, H. Increasing Sucrose Uptake Capacity of Wheat Grains Stimulates Storage Protein Synthesis. Plant Physiology 152, 698–710 (2010).

Wulff-Zottele, C., Gatzke, N., Kopka, J., Orellana, A., Hoefgen, R., Fisahn, J. & Hesse, H. Photosynthesis and metabolism interact during acclimation of Arabidopsis thaliana to high irradiance and sulphur depletion. Plant Cell and Environment 33, 1974–1988 (2010).

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, 479–496 (2009).

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, 1663–1678 (2009).

Hernandez, G., Valdes-Lopez, O., Ramirez, M., Goffard, N., Weiller, G., Aparicio-Fabre, R., Fuentes, S. I., Erban, A., Kopka, J., Udvardi, M. K. & Vance, C. P. Global Changes in the Transcript and Metabolic Profiles during Symbiotic Nitrogen Fixation in Phosphorus-Stressed Common Bean Plants. Plant Physiology 151, 1221–1238 (2009).

Kempa, S., Hummel, J., Schwemmer, T., Pietzke, M., Strehmel, N., Wienkoop, S., Kopka, J. & Weckwerth, W. An automated GCxGC-TOF-MS protocol for batch-wise extraction and alignment of mass isotopomer matrixes from differential C-13-labelling experiments: a case study for photoautotrophic-mixotrophic grown Chlamydomonas reinhardtii cells. Journal of Basic Microbiology 49, 82–91 (2009).

Lugan, R., Niogret, M. F., Kervazo, L., Larher, F. R., Kopka, J. & Bouchereau, A. Metabolome and water status phenotyping of Arabidopsis under abiotic stress cues reveals new insight into ESK1 function. Plant Cell and Environment 32, 95–108 (2009).

Mrosk, C., Forner, S., Hause, G., Kuester, H., Kopka, J. & Hause, B. Composite Medicago truncatula plants harbouring Agrobacterium rhizogenes-transformed roots reveal normal mycorrhization by Glomus intraradices. Journal of Experimental Botany 60, 3797–3807 (2009).

Pedreschi, R., Franck, C., Lammertyn, J., Erban, A., Kopka, J., Hertog, M., Verlinden, B. & Nicolai, B. Metabolic profiling of 'Conference' pears under low oxygen stress. Postharvest Biology and Technology 51, 123–130 (2009).

van Dongen, J. T., Frohlich, A., Ramirez-Aguilar, S. J., Schauer, N., Fernie, A. R., Erban, A., Kopka, J., Clark, J., Langer, A. & Geigenberger, P. Transcript and metabolite profiling of the adaptive response to mild decreases in oxygen concentration in the roots of arabidopsis plants. Annals of Botany 103, 269–280 (2009).

Boettcher, C., Centeno, D., Freitag, J., Hoefgen, R., Koehl, K. I., Kopka, J., Kroymann, J., Matros, A., Mock, H.-P., Neumann, S., Pfalz, M., von Roepenack-Lahaye, E., Schauer, N., Trenkamp, S., Zurbriggen, M. & Fernie, A. R. Teaching (and learning from) metabolomics: The 2006 PlantMetaNet ETNA Metabolomics Research School. Physiologia Plantarum 132, 136–149 (2008).

Cartieaux, F., Contesto, C., Gallou, A., Desbrosses, G., Kopka, J., Taconnat, L., Renou, J. P. & Touraine, B. Simultaneous interaction of Arabidopsis thaliana with Bradyrhizobium sp strain ORS278 and Pseudomonas syriugae pv. tomato DC3000 leads to complex transcriptome changes. Molecular Plant-Microbe Interactions 21, 244–259 (2008).

Eisenhut, M., Huege, J., Schwarz, D., Bauwe, H., Kopka, J. & Hagemann, M. Metabolome Phenotyping of Inorganic Carbon Limitation in Cells of the Wild Type and Photorespiratory Mutants of the Cyanobacterium Synechocystis sp Strain PCC 6803. Plant Physiology 148, 2109–2120 (2008).

Hoehenwarter, W., van Dongen, J. T., Wienkoop, S., Steinfath, M., Hummel, J., Erban, A., Sulpice, R., Regierer, B., Kopka, J., Geigenberger, P. & Weckwerth, W. A rapid approach for phenotype-screening and database independent detection of cSNP/protein polymorphism using mass accuracy precursor alignment. Proteomics 8, 4214–4225 (2008).

Kempa, S., Krasensky, J., Dal Santo, S., Kopka, J. & Jonak, C. A Central Role of Abscisic Acid in Stress-Regulated Carbohydrate Metabolism. PLoS One 3, e3935 (2008).

Levine, L. H., Kasahara, H., Kopka, J., Erban, A., Fehrle, I., Kaplan, F., Zhao, W., Littell, R. C., Guy, C., Wheeler, R., Sager, J., Mills, A. & Levine, H. G. Physiologic and metabolic responses of wheat seedlings to elevated and super-elevated carbon dioxide. Advances in Space Research 42, 1917–1928 (2008).

Lüdemann, A., Strassburg, K., Erban, A. & Kopka, J. TagFinder for the quantitative analysis of gas chromatography - mass spectrometry (GC-MS)-based metabolite profiling experiments. Bioinformatics 24, 732–737 (2008).