Publications of Alisdair Fernie

851.

Journal Article

Tohge, T.; Fernie, A. R.: Co-expression and co-responses: within and beyond transcription. Frontiers in Plant Science 3, 248 (2012)

MPG.PuRe

DOI

Full

ZIP

852.

Journal Article

Alejandro, S.; Lee, Y.; Tohge, T.; Sudre, D.; Osorio, S.; Park, J.; Bovet, L.; Lee, Y.; Geldner, N.; Fernie, A. R. et al.; Martinoia, E.: AtABCG29 Is a Monolignol Transporter Involved in Lignin Biosynthesis. Current Biology 22 (13), pp. 1207 - 1212 (2012)

MPG.PuRe

DOI

853.

Journal Article

Amid, A.; Lytovchenko, A.; Fernie, A. R.; Warren, G.; Thorlby, G. J.: The sensitive to freezing3 mutation of Arabidopsis thaliana is a cold-sensitive allele of homomeric acetyl-CoA carboxylase that results in cold-induced cuticle deficiencies. Journal of Experimental Botany 63 (14), pp. 5289 - 5299 (2012)

MPG.PuRe

DOI

Full

854.

Journal Article

Araujo, W. L.; Fernie, A. R.: Systems biology of gibberellin induced plant cell growth. Frontiers in Plant Science 3, p. 173 (2012)

MPG.PuRe

DOI

855.

Journal Article

Araujo, W. L.; Nunes-Nesi, A.; Nikoloski, Z.; Sweetlove, L. J.; Fernie, A. R.: Metabolic control and regulation of the tricarboxylic acid cycle in photosynthetic and heterotrophic plant tissues. Plant, Cell and Environment 35 (1), pp. 1 - 21 (2012)

MPG.PuRe

DOI

856.

Journal Article

Araujo, W. L.; Tohge, T.; Nunes-Nesi, A.; Daloso, D. M.; Nimick, M.; Krahnert, I.; Bunik, V. I.; Moorhead, G. B.; Fernie, A. R.: Phosphonate analogs of 2-oxoglutarate perturb metabolism and gene expression in illuminated Arabidopsis leaves. Frontiers in plant science 3, p. 114 (2012)

MPG.PuRe

DOI

857.

Journal Article

Araujo, W. L.; Tohge, T.; Osorio, S.; Lohse, M.; Balbo, I.; Krahnert, I.; Sienkiewicz-Porzucek, A.; Usadel, B.; Nunes-Nesi, A.; Fernie, A. R.: Antisense Inhibition of the 2-Oxoglutarate Dehydrogenase Complex in Tomato Demonstrates Its Importance for Plant Respiration and during Leaf Senescence and Fruit Maturation. The Plant Cell 24 (6), pp. 2328 - 2351 (2012)

MPG.PuRe

DOI

Full

858.

Journal Article

Caldana, C.; Fernie, A. R.; Willmitzer, L.; Steinhauser, D.: Unraveling retrograde signaling pathways: finding candidate signaling molecules via metabolomics and systems biology driven approaches. Frontiers in Plant Science 3, p. 267 (2012)

MPG.PuRe

DOI

859.

Journal Article

Chen, L. Q.; Qu, X. Q.; Hou, B. H.; Sosso, D.; Osorio, S.; Fernie, A. R.; Frommer, W. B.: Sucrose Efflux Mediated by SWEET Proteins as a Key Step for Phloem Transport. Science 335 (6065), pp. 207 - 211 (2012)

MPG.PuRe

DOI

860.

Journal Article

Colmsee, C.; Mascher, M.; Czauderna, T.; Hartmann, A.; Schluter, U.; Zellerhoff, N.; Schmitz, J.; Brautigam, A.; Pick, T. R.; Alter, P. et al.; Gahrtz, M.; Witt, S.; Fernie, A. R.; Bornke, F.; Fahnenstich, H.; Bucher, M.; Dresselhaus, T.; Weber, A. P.; Schreiber, F.; Scholz, U.; Sonnewald, U.: OPTIMAS-DW: A comprehensive transcriptomics, metabolomics, ionomics, proteomics and phenomics data resource for maize. BMC plant biology 12 (1), p. 245 (2012)

MPG.PuRe

DOI

Full

861.

Journal Article

Cronje, C.; George, G. M.; Fernie, A. R.; Bekker, J.; Kossmann, J.; Bauer, R.: Manipulation of L: -ascorbic acid biosynthesis pathways in Solanum lycopersicum: elevated GDP-mannose pyrophosphorylase activity enhances L: -ascorbate levels in red fruit. Planta 235 (3), pp. 553 - 564 (2012)

MPG.PuRe

DOI

862.

Journal Article

Detmann, K. C.; Araujo, W. L.; Martins, S. C. V.; Sanglard, L. M. V. P.; Reis, J. V.; Detmann, E.; Rodrigues, F. A.; Nunes-Nesi, A.; Fernie, A. R.; DaMatta, F. M.: Silicon nutrition increases grain yield, which, in turn, exerts a feed-forward stimulation of photosynthetic rates via enhanced mesophyll conductance and alters primary metabolism in rice. New Phytologist 196 (3), pp. 752 - 762 (2012)

MPG.PuRe

DOI

863.

Journal Article

Draffehn, A. M.; Durek, P.; Nunes-Nesi, A.; Stich, B.; Fernie, A. R.; Gebhardt, C.: Tapping natural variation at functional level reveals allele specific molecular characteristics of potato invertase Pain-1. Plant, Cell and Environment 35 (12), pp. 2143 - 2154 (2012)

MPG.PuRe

DOI

864.

Journal Article

Fernie, A. R.; Stitt, M.: On the discordance of metabolomics with proteomics and transcriptomics: coping with increasing complexity in logic, chemistry, and network interactions scientific correspondence. Plant Physiology 158 (3), pp. 1139 - 1145 (2012)

MPG.PuRe

DOI

865.

Journal Article

Florez-Sarasa, I.; Araujo, W. L.; Wallstrom, S. V.; Rasmusson, A. G.; Fernie, A. R.; Ribas-Carbo, M.: Light-responsive metabolite and transcript levels are maintained following a dark-adaptation period in leaves of Arabidopsis thaliana. New Phytologist 195 (1), pp. 136 - 148 (2012)

MPG.PuRe

DOI

866.

Journal Article

Gechev, T. S.; Benina, M.; Obata, T.; Tohge, T.; Sujeeth, N.; Minkov, I.; Hille, J.; Temanni, M. R.; Marriott, A. S.; Bergstrom, E. et al.; Thomas-Oates, J.; Antonio, C.; Mueller-Roeber, B.; Schippers, J. H.; Fernie, A. R.; Toneva, V.: Molecular mechanisms of desiccation tolerance in the resurrection glacial relic Haberlea rhodopensis. Cellular and Molecular Life Sciences 70 (4), pp. 689 - 709 (2012)

MPG.PuRe

DOI

867.

Journal Article

Geisler, D. A.; Päpke, C.; Obata, T.; Nunes-Nesi, A.; Matthes, A.; Schneitz, K.; Maximova, E.; Araujo, W. L.; Fernie, A. R.; Persson, S.: Downregulation of the delta-Subunit Reduces Mitochondrial ATP Synthase Levels, Alters Respiration, and Restricts Growth and Gametophyte Development in Arabidopsis. The Plant Cell 24 (7), pp. 2792 - 2811 (2012)

MPG.PuRe

DOI

Full

868.

Journal Article

Gomez, S.; Steinbrenner, A. D.; Osorio, S.; Schueller, M.; Ferrieri, R. A.; Fernie, A. R.; Orians, C. M.: From shoots to roots: transport and metabolic changes in tomato after simulated feeding by a specialist lepidopteran. Entomologia Experimentalis et Applicata 144 (1), pp. 101 - 111 (2012)

MPG.PuRe

DOI

869.

Journal Article

Gouws, L. M.; Botes, E.; Wiese, A. J.; Trenkamp, S.; Torres-Jerez, I.; Tang, Y.; Hills, P. N.; Usadel, B.; Lloyd, J. R.; Fernie, A. R. et al.; Kossmann, J.; van der Merwe, M. J.: The plant growth promoting substance, lumichrome, mimics starch, and ethylene-associated symbiotic responses in lotus and tomato roots. Frontiers in Plant Science 3, p. 120 (2012)

MPG.PuRe

DOI

870.

Journal Article

Hampp, C.; Richter, A.; Osorio, S.; Zellnig, G.; Sinha, A. K.; Jammer, A.; Fernie, A. R.; Grimm, B.; Roitsch, T.: Establishment of a Photoautotrophic Cell Suspension Culture of Arabidopsis thaliana for Photosynthetic, Metabolic, and Signaling Studies. Molecular Plant 5 (2), pp. 524 - 527 (2012)

MPG.PuRe

DOI

871.

Journal Article

Hebbelmann, I.; Selinski, J.; Wehmeyer, C.; Goss, T.; Voss, I.; Mulo, P.; Kangasjarvi, S.; Aro, E.-M.; Oelze, M. L.; Dietz, K. J. et al.; Nunes-Nesi, A.; Do, P. T.; Fernie, A. R.; Talla, S. K.; Raghavendra, A. S.; Linke, V.; Scheibe, R.: Multiple strategies to prevent oxidative stress in Arabidopsis plants lacking the malate valve enzyme NADP-malate dehydrogenase. Journal of Experimental Botany 63 (3), pp. 1445 - 1459 (2012)

MPG.PuRe

DOI

Full

872.

Journal Article

Keren, I.; Tal, L.; des Francs-Small, C. C.; Araujo, W. L.; Shevtsov, S.; Shaya, F.; Fernie, A. R.; Small, I.; Ostersetzer-Biran, O.: nMAT1, a nuclear-encoded maturase involved in the trans-splicing of nad1 intron 1, is essential for mitochondrial complex I assembly and function. The Plant Journal 71 (3), pp. 413 - 426 (2012)

MPG.PuRe

DOI

873.

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)

MPG.PuRe

DOI

874.

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)

MPG.PuRe

DOI

875.

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)

MPG.PuRe

DOI

876.

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)

MPG.PuRe

DOI

877.

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)

MPG.PuRe

DOI

878.

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)

MPG.PuRe

DOI

Full

879.

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)

MPG.PuRe

DOI

880.

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)

MPG.PuRe

DOI

Full

881.

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)

MPG.PuRe

DOI

Full

882.

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)

MPG.PuRe

DOI

Full

883.

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)

MPG.PuRe

DOI

884.

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)

MPG.PuRe

DOI

Full

885.

Journal Article

Rohrmann, J.; McQuinn, R.; Giovannoni, J.; Fernie, A. R.; Tohge, T.: Tissue specificity and differential expression of transcription factors in tomato provide hints of unique regulatory networks during fruit ripening. Plant Signaling & Behavior 7 (12), pp. 1639 - 1647 (2012)

MPG.PuRe

DOI

886.

Journal Article

Steinhauser, D.; Fernie, A. R.; Araujo, W. L.: Unusual cyanobacterial TCA cycles: not broken just different. Trends in Plant Science 17 (9), pp. 503 - 509 (2012)

MPG.PuRe

DOI

887.

Journal Article

Szecowka, M.; Osorio, S.; Obata, T.; Araujo, W. L.; Rohrmann, J.; Nunes-Nesi, A.; Fernie, A. R.: Decreasing the Mitochondrial Synthesis of Malate in Potato Tubers Does Not Affect Plastidial Starch Synthesis, Suggesting That the Physiological Regulation of ADPglucose Pyrophosphorylase Is Context Dependent. Plant Physiology 160 (4), pp. 2227 - 2238 (2012)

MPG.PuRe

DOI

Full

888.

Journal Article

Timm, S.; Florian, A.; Arrivault, S.; Stitt, M.; Fernie, A. R.; Bauwe, H.: Glycine decarboxylase controls photosynthesis and plant growth. FEBS Letters 586 (20), pp. 3692 - 3697 (2012)

MPG.PuRe

DOI

889.

Journal Article

Timm, S.; Mielewczik, M.; Florian, A.; Frankenbach, S.; Dreissen, A.; Hocken, N.; Fernie, A. R.; Walter, A.; Bauwe, H.: High-to-Low CO2 Acclimation Reveals Plasticity of the Photorespiratory Pathway and Indicates Regulatory Links to Cellular Metabolism of Arabidopsis. PLoS One 7 (8), p. e42809 (2012)

MPG.PuRe

DOI

Full

890.

Journal Article

Tohge, T.; Fernie, A. R.: Annotation of plant gene function via combined genomics, metabolomics and informatics. Journal of visualized experiments (64), e3487, p. e3487 (2012)

MPG.PuRe

DOI

Full

891.

Journal Article

Toubiana, D.; Semel, Y.; Tohge, T.; Beleggia, R.; Cattivelli, L.; Rosental, L.; Nikoloski, Z.; Zamir, D.; Fernie, A. R.; Fait, A.: Metabolic Profiling of a Mapping Population Exposes New Insights in the Regulation of Seed Metabolism and Seed, Fruit, and Plant Relations. PLoS Genetics 8 (3), p. e1002612 (2012)

MPG.PuRe

DOI

892.

Journal Article

Trofimova, L. K.; Araujo, W. L.; Strokina, A. A.; Fernie, A. R.; Bettendorff, L.; Bunik, V. I.: Consequences of the alpha-Ketoglutarate Dehydrogenase Inhibition for Neuronal Metabolism and Survival: Implications for Neurodegenerative Diseases. Current Medicinal Chemistry 19 (34), pp. 5895 - 5906 (2012)

MPG.PuRe

893.

Journal Article

Witt, S.; Galicia, L.; Lisec, J.; Cairns, J.; Tiessen, A.; Araus, J. L.; Palacios-Rojas, N.; Fernie, A. R.: Metabolic and Phenotypic Responses of Greenhouse-Grown Maize Hybrids to Experimentally Controlled Drought Stress. Molecular Plant 5 (2), pp. 401 - 417 (2012)

MPG.PuRe

DOI

894.

Journal Article

Wormit, A.; Butt, S. M.; Chairam, I.; McKenna, J. F.; Nunes-Nesi, A.; Kjaer, L.; O'Donnelly, K.; Fernie, A. R.; Woscholski, R.; Barter, M. C. et al.; Hamann, T.: Osmosensitive changes of carbohydrate metabolism in response to cellulose biosynthesis inhibition. Plant Physiology 159 (1), pp. 105 - 117 (2012)

MPG.PuRe

DOI

895.

Journal Article

Wu, A.; Allu, A. D.; Garapati, P.; Siddiqui, H.; Dortay, H.; Zanor, M. I.; Asensi-Fabado, M. A.; Munne-Bosch, S.; Antonio, C.; Tohge, T. et al.; Fernie, A. R.; Kaufmann, K.; Xue, G. P.; Mueller-Roeber, B.; Balazadeh, S.: JUNGBRUNNEN1, a reactive oxygen species-responsive NAC transcription factor, regulates longevity in Arabidopsis. The Plant Cell 24 (2), pp. 482 - 506 (2012)

MPG.PuRe

DOI

Full

896.

Journal Article

Allen, A. E.; Dupont, C. L.; Obornik, M.; Horak, A.; Nunes-Nesi, A.; McCrow, J. P.; Zheng, H.; Johnson, D. A.; Hu, H. H.; Fernie, A. R. et al.; Bowler, C.: Evolution and metabolic significance of the urea cycle in photosynthetic diatoms. Nature 473 (7346), pp. 203 - 209 (2011)

MPG.PuRe

DOI

897.

Journal Article

Almeida, J.; Quadrana, L.; Asis, R.; Setta, N.; de Godoy, F.; Bermudez, L.; Otaiza, S. N.; da Silva, J. V. C.; Fernie, A. R.; Carrari, F. et al.; Rossi, M.: Genetic dissection of vitamin E biosynthesis in tomato. Journal of Experimental Botany 62 (11), pp. 3781 - 3798 (2011)

MPG.PuRe

DOI

Full

898.

Journal Article

Angelovici, R.; Fait, A.; Fernie, A. R.; Galili, G.: A seed high-lysine trait is negatively associated with the TCA cycle and slows down Arabidopsis seed germination. New Phytologist 189 (1), pp. 148 - 159 (2011)

MPG.PuRe

DOI

899.

Journal Article

Araujo, W. L.; Ishizaki, K.; Nunes-Nesi, A.; Tohge, T.; Larson, T. R.; Krahnert, I.; Balbo, I.; Witt, S.; Doermann, P.; Graham, I. A. et al.; Leaver, C. J.; Fernie, A. R.: Analysis of a Range of Catabolic Mutants Provides Evidence That Phytanoyl-Coenzyme A Does Not Act as a Substrate of the Electron-Transfer Flavoprotein/Electron-Transfer Flavoprotein:Ubiquinone Oxidoreductase Complex in Arabidopsis during Dark-Induced Senescence. Plant Physiology 157 (1), pp. 55 - 69 (2011)

MPG.PuRe

DOI

Full

900.

Journal Article

Araujo, W. L.; Nunes-Nesi, A.; Fernie, A. R.: Fumarate: Multiple functions of a simple metabolite. Phytochemistry 72 (9), pp. 838 - 843 (2011)

MPG.PuRe

DOI

Journal Article (1103)