Literature
- Grimm B (2007) Retrograde Signale der Chloroplasten. Humboldt-Spektrum 3/2007: 24-28
Project 1:
Prof. Dr. K.-J. Dietz
- Shaikhali J, Heiber I, Seidel T, Ströher E, Hiltscher H, Birkmann S, Dietz KJ, Baier M (2008) The redox-sensitive transcription factor Rap2.4a controls nuclear expression of 2-Cys peroxiredoxin A and other chloroplast antioxidant enzymes. BMC Plant Biology 8, 48 (p. 1-16).
- Stenbaek A, Hansson A, Wulff RP, Hansson M, Dietz KJ, Jensen PE (2008) NADPH-dependent thioredoxin reductase and 2-Cys peroxiredoxins are needed for the protection of Mg-protoporphyrin monomethyl ester cyclase. FEBS Lett 582, 2773-2778.
- Ströher E, Wang XJ, Roloff N, Klein P, Husemann A, Dietz KJ (2009) Redox-dependent regulation of the stress-induced Zinc-finger protein SAP12 in Arabidopsis thaliana. Molecular Plant 2, 357-367
- Bräutigam K, Dietzel L, Kleine T, Stroeher E, Wormuth D, Dietz KJ, Radke D, Wirtz M, Hell R, Dörmann P, Nunes-Nesi A, Schauer N, Fernie AR, Oliver SN, Geigenberger P, Leister D, Pfannschmidt T (2009) Dynamic plastid redox signals integrate gene expression and metabolism to induce distinct metabolic states in photosynthetic acclimation in Arabidopsis. Plant Cell 21, 2715-2732.
- Voigt C, Oster U, Börnke F, Jahns P, Dietz KJ, Leister D, Kleine T (2010) In-depth analysis of the distinctive effects of norflurazon implies that tetrapyrrole biosynthesis, organellar gene expression and ABA cooperate in the GUN-type of plastid signalling. Physiologia Plantarum [Epub ahead of print]
- Peter E, Rothbart M, Oelze ML, Shalygo N, Dietz KJ, Grimm B (2010) Mg protoporphyrin monomethylester cyclase deficiency caused photooxidation to different extent in light/dark or continuous light growth. Plant Cell Physiology [2010 May 11, Epub ahead of print]
Methods papers
- Klein P, Dietz KJ (2010) Identification of DNA-binding proteins and protein-protein interactions by Yeast One-Hybrid and Yeast Two-Hybrid screen. In: Methods in Molecular Biology. Plant Stress Tolerance, Chapter 10, 639:171-92.
- Muthuramalingam M, Dietz KJ, Elke Ströher E (2010) Redox proteomics of thiol-disulfide proteins. In: Methods in Molecular Biology. Plant Stress Tolerance 639: 219-238.
- Oelze ML, Kandlbinder A, Dietz KJ (2008) Redox regulation and overreduction control in the photosynthesizing cell: Complexity in redox regulatory networks. Biochimica et Biophysica Acta 1780, 1261-1270.
- Dietz KJ, Vogel MO, Kandlbinder A (2010) AP2/EREBP transcription factors are part of gene regulatory networks and integrate metabolic, hormonal and environmental signals in stress acclimation and retrograde signaling. Protoplasma [2010 Apr 22, Epub ahead of print]
Subproject 2:
Prof. Dr. B. Grimm
- Hedtke B, Alawady A, Chen S, Börnke F and Grimm B (2007) Silencing of Glutamyl-tRNA Reductase by HEMA RNAi Represses Activity of Mg Chelatase and Ferrochelatase in Nicotiana tabacum. Plant Mol Biol 64: 733-742
- Gromoff von ED, Alawaday A, Meinecke L, Grimm B, and Beck C (2008) Heme, a Plastid-Derived Regulator of Nuclear Gene Expression in Chlamydomonas. Plant Cell 20: 552-567
- Peter E,
- Hedtke B and Grimm B (2009) Silencing of a plant gene by transcriptional interference. Nucl Acids Res 37: 3739-3746.
- Shalygo N, Czarnecki O, Peter E, Grimm B (2009) Expression of chlorophyll synthase is also involved in feedback-control of chlorophyll biosynthesis. Plant Mol Biol 71:425-436
- Peter E and Grimm B (2009) GUN4 is required for posttranslational control of plant tetrapyrrole biosynthesis. Mol Plant 2:1198-1210
- Richter A, Peter E, Pörs Y, Grimm B* and Czarnecki O (2009) Rapid dark repression of 5-aminolevulinic acid synthesis in green barley leaves is mediated by protochlorophyllide accumulation. Plant Cell Physiol 51: 670-681.
- Peter E, Rothbart M, Oelze, ML, Shalygo N, Dietz KJ and Grimm B (2009) Mg protoporphyrin monomethylester cyclase deficiency caused photooxidation to different extent in light/dark or continuous light growth, Plant Cell Physiol 2010
May 11. [Epub ahead of print]PMID: 20460500
- Meinecke L, Alawady A, Willows R, Schroda M, Grimm B and Beck CF (2009) Chlorophyll-deficient Mutants of Chlamydomonas blocked in Magnesium Protoporphyrin IX Methyltransferase , Plant Mol Biol 72: 643-58.
- Mochizuki N, Tanaka R, Grimm B, Masuda T, Moulin M, Smith AG, Tanaka A and Terry MJ. (2010) The cell biology of tetrapyrroles: a life and death struggle, in press, Trends Plant Sci
Subproject 3:
PD Dr. T. Pfannschmidt
- Schütze, K., Steiner, S. and Pfannschmidt, T. (2008) Redox regulation of the plastocyanin promoter in tobacco. Physiol. Plant. 133, 557-565.
- Wagner, R., Dietzel, L., Bräutigam, K., Fischer, W., Pfannschmidt, T. (2008). Long-term light quality acclimation is important for optimising photosynthetic performance of Arabidopsis thaliana under low light conditions. Planta, 228, 573-587.
- Dietzel, L. and Pfannschmidt, T. (2008) Photosynthetic acclimation to light quality comes out of shade. Plant Signal Behav. 3, 1116-1118.
- Steiner, S., Pfannschmidt, T. (2009) Fluorescence-based electrophoretic mobility shift assays in the analysis of DNA-binding proteins. Methods Mol. Biol. 479, 273-289.
- Pfannschmidt, T. Bräutigam, K., Wagner, R., Dietzel, L., Schroeter, Y., Steiner, S., Nykytenko, A. (2009) Potential regulation of gene expression in photosynthetic cells by redox and energy state – approaches towards better understanding. Ann. Bot. 103, 599-607. Epub 2008 May 20.
- Steiner, S., Dietzel, L., Schröter, Y., Fey, V., Wagner, R., Pfannschmidt, T. (2009) Specific changes in phosphorylation state and kinase activity of chloroplast DNA-binding protein fractions of mustard (Sinapis alba) during redox-controlled photosynthetic acclimation. Mol. Plant 2, 416-429.
- Paolo Pesaresi, P., Hertle, A., Pribil, M., Kleine, T., Wagner, R., Strissel, H., Ihnatowicz, A., Bonardi, V., Scharfenberg, M., Schneider, A., Pfannschmidt, T. and Leister, D. (2009) Arabidopsis STN7 kinase provides a link between short-term and long-term photosynthetic acclimation. Plant Cell 21, 2402-2423.
- Bräutigam, K., Dietzel, L., Kleine, T., Ströher, E., Wormuth, D., Dietz, K.-J., Radke, D., Dörmann, P., Nunes-Nesi, A., Schauer, N., Fernie, A., Oliver, S., Geigenberger, P., Leister, D. and Pfannschmidt, T. (2009). Dynamic plastid redox signals integrate gene expression and metabolism to induce distinct metabolic states in photosynthetic acclimation in Arabidopsis. Plant Cell 21, 2715-2732.
- Bräutigam, K., Dietzel, L., and Pfannschmidt, T. (2010). Hypothesis - A binary redox control mode as universal regulator of photosynthetic light acclimation. Plant Signal Behav. 5 (in press).
- Schröter, Y., Steiner, S., Matthäi, K., Pfannschmidt, T. (2010) Analysis of oligomeric protein complexes in the chloroplast sub-proteome of nucleic acid binding proteins from mustard reveals potential redox regulators of plastid gene expression. Proteomics 10, 2194-2204.
- Pfannschmidt, T. (2010) Plastidial retrograde signalling – a true “plastid factor” or just metabolite signatures? Trends Plant Sci, (in press).
Subproject 4:
Dr. R. Häusler, Prof. Dr. U.-I. Flügge
- Van der Graaff, E., Schwacke, R., Schneider, A., Desimone, M., Flügge, U.I., Kunze, R. (2006). Transcription analysis of Arabidopsis membrane transporters and hormone pathways during developmental and induced leaf senescence. Plant Physiol. 141, 776-792.
- Rollwitz, I., Santaella, M., Hille, D., Flügge, U.I., Fischer, K. (2006). Characterization of AtNST-KT1, a novel UDP-galactose transporter from Arabidopsis thaliana. FEBS Letters 580, 4246-4251.
- Schneider, A, Kirch, T, Gigolashvili, T., Mock, H.-P., Sonnewald, U., Simon, R., Flügge, U.I., Werr, W. (2005).
A transposon-based activation-tagging population in Arabidopsis thaliana (TAMARA) and its application in the identification of dominant developmental and metabolic mutations. FEBS Lett. 579, 4622-4628.
- Wheeler, M.C.G., Tronconi, M.A., Drincovich, M.F., Andreo, C.S., Flügge, U.I., Maurino, V.G. (2005).
A comprehensive analysis of the NADP-malic enzyme gene family of Arabidopsis thaliana. Plant Physiol. 139, 39-51.
- Schneidereit J, Häusler RE, Fiene G, Kaiser WM, Weber APM (2006) Antisense repression reveals a crucial role of the plastidic 2-oxoglutarate/malate translocator DiT1 at the interface between carbon and nitrogen metabolism. Plant J. 45, 206-224
- Neuhaus HE, Häusler RE, Sonnewald U (2005).No need to shift the paradigm on the metabolic pathway to transitory starch in leaves. Trends Plant Sci. 10, 154-6.
- Flügge UI, Häusler RE, Ludewig F, Fischer K (2003) Functional genomics of phosphate antiport systems of plastids. Physiol. Plant. 118, 475-482.
- Häusler RE, Geimer S, Kunz HH, Schmitz J, Dörmann P, Bell K, Hetfeld S, Guballa A, Flügge UI. (2009) Chlororespiration and grana hyperstacking: how an Arabidopsis double mutant can survive despite defects in starch biosynthesis and daily carbon export from chloroplasts. Plant Physiol. 149, 515-533. Epub 2008 Oct 31.
Subproject 5:
Prof. Dr. D. Leister, Dr. T. Kleine
Original papers
- Voigt C, Oster U, Börnke F, Jahns P, Dietz KJ, Leister D, Kleine T (2010) In-depth analysis of the distinctive effects of norflurazon implies that tetrapyrrole biosynthesis, organellar gene expression and ABA cooperate in the GUN-type of plastid signalling. Physiol Plant [Epub ahead of print]
- Bräutigam K, Dietzel L, Kleine T, Ströher E, Wormuth D, Dietz KJ, Radke D, Wirtz M, Hell R, Dörmann P, Nunes-Nesi A, Schauer N, Fernie AR, Oliver SN, Geigenberger P, Leister D, Pfannschmidt T (2009)
- Dynamic plastid redox signals integrate gene expression and metabolism to induce distinct metabolic states in photosynthetic acclimation in Arabidopsis. Plant Cell 21: 2715-2732
- Pesaresi P, Hertle A, Pribil M, Kleine T, Wagner R, Strissel H, Ihnatowicz A, Bonardi V, Scharfenberg M, Schneider A, Pfannschmidt T, Leister D (2009) Arabidopsis STN7 kinase provides a link between short- and long-term photosynthetic acclimation. Plant Cell 21: 2402-2423
Reviews
- Pesaresi P, Hertle A, Pribil M, Schneider A, Kleine T, Leister D (2010) Optimizing photosynthesis under fluctuating light: The role of the Arabidopsis STN7 kinase. Plant Signal Behav 5(1). [Epub ahead of print]
- Kleine T, Voigt C, Leister D (2009) Plastid signalling to the nucleus: messengers still lost in the mists? Trends Genet 25: 85-192
- Pesaresi P, Schneider A, Kleine T, Leister D (2007) Interorganellar communication. Curr Opin Plant Biol 10: 600-606
- Pesaresi P, Masiero S, Eubel H, Braun HP, Bhushan S, Glaser E, Salamini F, Leister D (2006) Nuclear photosynthetic gene expression is synergistically modulated by rates of protein synthesis in chloroplasts and mitochondria. Plant Cell 18:970-991.
- Klimmek F, Sjödin A, Noutsos C, Leister D, Jansson S (2006) Abundantly and rarely expressed Lhc protein genes exhibit distinct regulation patterns in plants. Plant Physiol 140:793-804.
- Bonardi V, Pesaresi P, Becker T, Schleiff E, Wagner R, Pfannschmidt T, Jahns P, Leister D (2005) Photosystem II core phosphorylation and photosynthetic acclimation require two different protein kinases. Nature 437: 1179-1182.
- Noutsos C, Richly E, Leister D (2005) Generation and evolutionary fate of insertions of organelle DNA in the nuclear genomes of flowering plants. Genome Res 15:616-628
- Biehl A, Richly E, Noutsos C, Salamini F, Leister D (2005) Analysis of 101 nuclear transcriptomes reveals 23 distinct regulons and their relationship to metabolism, chromosomal gene distribution and co-ordination of nuclear and plastid gene expression. Gene 344: 33-41
- Deuschle KH, Funck D, Forlani G, Stransky H, Biehl A, Leister D, van der Graaff E, Kunze R, Frommer WB (2004) The role of 1-pyrroline-5-carboxylate dehydrogenase in proline degradation. Plant Cell 16: 3413-3425
Subproject 6:
Prof. Dr. R. Bock
- Apel, W., Schulze, W. X. and Bock, R. (2010). Identification of protein stability determinants in chloroplasts. Plant J., in press.
- Valkov, V. T., Scotti, N., Kahlau, S., MacLean, D., Grillo, M.S., Gray, J. C., Bock, R. and Cardi, T. (2009). Genome-wide analysis of plastid gene expression in potato leaf chloroplasts and tuber amyloplasts: transcriptional and post-transcriptional control. Plant Physiol., 150, 2030-2044.
- Karcher, D. and Bock, R. (2009). Identification of the chloroplast adenosine-to-inosine tRNA editing enzyme. RNA, 15, 1251-1257.
- Oey, M., Lohse, M., Kreikemeyer, B. and Bock, R. (2009). Exhaustion of the chloroplast protein synthesis capacity by massive expression of a highly stable protein antibiotic. Plant J., 57, 436-445.
- Rogalski, M., Schöttler, M. A., Thiele, W., Schulze, W. X. and Bock, R. (2008). Rpl33, a non-essential plastid-encoded ribosomal protein in tobacco, is required under cold stress conditions. Plant Cell, 20, 2221-2237.
- Kahlau, S. and Bock, R. (2008). Plastid transcriptomics and translatomics of tomato fruit development and chloroplast-to-chromoplast differentiation: Chromoplast gene expression largely serves the production of a single protein. Plant Cell, 20, 856-874.
- Rogalski, M., Karcher, D. and Bock, R. (2008). Superwobbling facilitates translation with reduced tRNA sets. Nature Struct. Mol. Biol., 15, 192-198.
- Rogalski, M., Ruf, S. and Bock, R. (2006). Tobacco plastid ribosomal protein S18 is essential for cell survival. Nucleic Acids Res., 34, 4537-4545.
- Ahlert, D., Ruf, S. and Bock, R. (2003). Plastid protein synthesis is required for plant development in tobacco. Proc. Natl. Acad. Sci. USA, 100, 15730-15735.
Subproject 7:
Dr. K. Mayer, Prof. Dr. D. Leister
- Yu Wang, Tobias Hindemitt and Klaus F.X. Mayer, Significant sequence similarities in promoters and precursors of Arabidopsis thaliana non-conserved microRNAs sequence, Bioinformatics, in press (2006)
- Steven B. Cannon, Lieven Sterck, Stephane Rombauts, Shusei Sato, Xiaohong Wang, Joann Mudge, Jayprakash Vasdewani, Foo Cheung, Jerome P. Gouzy, Thomas Schiex, Manuel Spannagl, Heiko Schoof, Christine Nicholson, Sean Humphays, Klaus F.X. Mayer, Jane Rogers, Francis Quetier, Giles E. Oldroyd, Frederic Debelle, Douglas R. Cook, Christopher D. Town, Bruce A. Roe, Satoshi Tabata, Yves Van de Peer, Nevin D. Young, Legume genome evolution viewed through the Medicago truncatula and Lotus japonicus genomes., Proc. Natl. Acad. Sci., in press
- H.W. Mewes, D. Frishman, Klaus F.X. Mayer Münsterkötter, O. Nobibou, P. Pagel, T. Rattei , M. Oesterheld, A. Ruepp, V. Stümpflen, MIPS: analysis and annotation of proteins from whole genomes – progress report, Nucleic Acids Research, 34 (Database Issue), D169-172 (2006)
- Claire Domoney, Gérard Duc, T.H. Noel Ellis, Cristina Ferrańdiz, Christian Firnhaber, Karine Gallardo,Julie Hofer, Joachim Kopka, Helge Küster, Franciso Madueño, Nathalie G. Munier-Jolain, Klaus F.X. Mayer, Richard Thompson, Michael Udvardi and Christophe Salon, Genomic analysis of legume flowers and seeds, Current Opinion in Plant Biology, 9(2), 133-141 (2006)
- Igor V. Tetko, Georg Haberer, Stephen Rudd, Blake C. Meyers, Hans-Werner Mewes, Klaus F. X. Mayer, Spatio- / Temporal Expression Control mediated through intragenic Scaffold Matrix Attachment Regions (S/MARs) in Arabidopsis thaliana, PloS Computational Biology, 2(3) e21 (2006)
- Stephen Rudd, Heiko Schoof and Klaus F.X. Mayer, PlantMarkers – a database of predicted molecular markers from plants. Nucleic Acids Research;33 Database Issue:D628-32 (2005)
- Heiko Schoof, Manuel Spannagl, Li Yang, Rebecca Ernst, Heidrun Gundlach, Dirk Haase, Georg Haberer and Klaus F. X. Mayer, MIPS plant genome resurces: A framework for integrative and comparative analyses, Plant Physiology, 138, 1301-1309 (2005)
- Georg Haberer, Sarah Young, Arvind Bharti, Heidrun Gundlach, Christina Raymond, Galina Fuks, Ed Butler, Rod Wing, Steve Rounsley, Chad Nussbaum, Bruce Birren Klaus F.X. Mayer and Joachim Messing,Structure and Architecture of the Maize Genome., Plant Physiology, 139, 1612-1624 (2005)
- Tobias Hindemitt and Klaus F.X. Mayer, CREDO: a web-based tool for computational detection of conserved sequence motifs in noncoding sequences, Bioinformatics, 21 (23), 4304-4306 (2005)