Publications of Alisdair Fernie

Journal Article (53)

1.
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)
2.
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)
3.
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)
4.
Journal Article
Araujo, W. L.; Fernie, A. R.; Nunes-Nesi, A.: Control of stomatal aperture: A renaissance of the old guard. Plant Signaling & Behavior 6 (9), pp. 1305 - 1311 (2011)
5.
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)
6.
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)
7.
Journal Article
Araujo, W. L.; Nunes-Nesi, A.; Osorio, S.; Usadel, B.; Fuentes, D.; Nagy, R.; Balbo, I.; Lehmann, M.; Studart-Witkowski, C.; Tohge, T. et al.; Martinoia, E.; Jordana, X.; DaMatta, F. M.; Fernie, A. R.: Antisense Inhibition of the Iron-Sulphur Subunit of Succinate Dehydrogenase Enhances Photosynthesis and Growth in Tomato via an Organic Acid-Mediated Effect on Stomatal Aperture. The Plant Cell 23 (2), pp. 600 - 627 (2011)
8.
Journal Article
Araujo, W. L.; Tohge, T.; Ishizaki, K.; Leaver, C. J.; Fernie, A. R.: Protein degradation - an alternative respiratory substrate for stressed plants. Trends in Plant Science 16 (9), pp. 489 - 498 (2011)
9.
Journal Article
Bazzini, A. A.; Manacorda, C. A.; Tohge, T.; Conti, G.; Rodriguez, M. C.; Nunes-Nesi, A.; Villanueva, S.; Fernie, A. R.; Carrari, F.; Asurmendi, S.: Metabolic and miRNA Profiling of TMV Infected Plants Reveals Biphasic Temporal Changes. PLoS One 6 (12), p. e28466 (2011)
10.
Journal Article
Caldana, C.; Degenkolbe, T.; Cuadros-Inostroza, A.; Klie, S.; Sulpice, R.; Leisse, A.; Steinhauser, D.; Fernie, A. R.; Willmitzer, L.; Hannah, M. A.: High-density kinetic analysis of the metabolomic and transcriptomic response of Arabidopsis to eight environmental conditions. The Plant Journal 67 (5), pp. 869 - 884 (2011)
11.
Journal Article
Centeno, D. C.; Osorio, S.; Nunes-Nesi, A.; Bertolo, A. L. F.; Carneiro, R. T.; Araujo, W. L.; Steinhauser, M.-C.; Michalska, J.; Rohrmann, J.; Geigenberger, P. et al.; Oliver, S. N.; Stitt, M.; Carrari, F.; Rose, J. K. C.; Fernie, A. R.: Malate Plays a Crucial Role in Starch Metabolism, Ripening, and Soluble Solid Content of Tomato Fruit and Affects Postharvest Softening. The Plant Cell 23 (1), pp. 162 - 184 (2011)
12.
Journal Article
Csukasi, F.; Osorio, S.; Gutierrez, J. R.; Kitamura, J.; Giavalisco, P.; Nakajima, M.; Fernie, A. R.; Rathjen, J. P.; Botella, M. A.; Valpuesta, V. et al.; Medina-Escobar, N.: Gibberellin biosynthesis and signalling during development of the strawberry receptacle. New Phytologist 191 (2), pp. 376 - 390 (2011)
13.
Journal Article
Dal Cin, V.; Tieman, D. M.; Tohge, T.; McQuinn, R.; de Vos, R. C. H.; Osorio, S.; Schmelz, E. A.; Taylor, M. G.; Smits-Kroon, M. T.; Schuurink, R. C. et al.; Haring, M. A.; Giovannoni, J.; Fernie, A. R.; Klee, H. J.: Identification of Genes in the Phenylalanine Metabolic Pathway by Ectopic Expression of a MYB Transcription Factor in Tomato Fruit. The Plant Cell 23 (7), pp. 2738 - 2753 (2011)
14.
Journal Article
Debast, S.; Nunes-Nesi, A.; Hajirezaei, M.-R.; Hofmann, J.; Sonnewald, U.; Fernie, A. R.; Bornke, F.: Altering Trehalose-6-Phosphate Content in Transgenic Potato Tubers Affects Tuber Growth and Alters Responsiveness to Hormones during Sprouting. Plant Physiology 156 (4), pp. 1754 - 1771 (2011)
15.
Journal Article
Degu, A.; Hatew, B.; Nunes-Nesi, A.; Shlizerman, L.; Zur, N.; Katz, E.; Fernie, A. R.; Blumwald, E.; Sadka, A.: Inhibition of aconitase in citrus fruit callus results in a metabolic shift towards amino acid biosynthesis. Planta 234 (3), pp. 501 - 513 (2011)
16.
Journal Article
Djamei, A.; Schipper, K.; Rabe, F.; Ghosh, A.; Vincon, V.; Kahnt, J.; Osorio, S.; Tohge, T.; Fernie, A. R.; Feussner, I. et al.; Feussner, K.; Meinicke, P.; Stierhof, Y. D.; Schwarz, H.; Macek, B.; Mann, M.; Kahmann, R.: Metabolic priming by a secreted fungal effector. Nature 478 (7369), pp. 395 - 398 (2011)
17.
Journal Article
Fait, A.; Nunes Nesi, A.; Angelovici, R.; Lehmann, M.; Pham, P. A.; Song, L.; Haslam, R. P.; Napier, J. A.; Galili, G.; Fernie, A. R.: Targeted Enhancement of Glutamate-to-gamma-Aminobutyrate Conversion in Arabidopsis Seeds Affects Carbon-Nitrogen Balance and Storage Reserves in a Development-Dependent Manner. Plant Physiology 157 (3), pp. 1026 - 1042 (2011)
18.
Journal Article
Fernie, A. R.; Klee, H. J.: The use of natural genetic diversity in the understanding of metabolic organization and regulation. Frontiers in Plant Science 2, p. 59 (2011)
19.
Journal Article
Fettke, J.; Nunes-Nesi, A.; Fernie, A. R.; Steup, M.: Identification of a novel heteroglycan-interacting protein, HIP 1.3, from Arabidopsis thaliana. Journal of Plant Physiology 168 (12), pp. 1415 - 1425 (2011)
20.
Journal Article
Fuentes, D.; Meneses, M.; Nunes-Nesi, A.; Araujo, W.; Tapia, R.; Gomez, I.; Holuigue, L.; Gutierrez, R. A.; Fernie, A. R.; Jordana, X.: A Deficiency in the Flavoprotein of Arabidopsis Mitochondrial Complex II Results in Elevated Photosynthesis and Better Growth in Nitrogen-Limiting Conditions. Plant Physiology 157 (3), pp. 1114 - 1127 (2011)
21.
Journal Article
Gupta, K. J.; Fernie, A. R.; Kaiser, W. M.; van Dongen, J. T.: On the origins of nitric oxide. Trends in Plant Science 16 (3), pp. 160 - 168 (2011)
22.
Journal Article
Gur, A.; Semel, Y.; Osorio, S.; Friedmann, M.; Seekh, S.; Ghareeb, B.; Mohammad, A.; Pleban, T.; Gera, G.; Fernie, A. R. et al.; Zamir, D.: Yield quantitative trait loci from wild tomato are predominately expressed by the shoot. Theoretical and Applied Genetics 122 (2), pp. 405 - 420 (2011)
23.
Journal Article
Haferkamp, I.; Fernie, A. R.; Neuhaus, H. E.: Adenine nucleotide transport in plants: much more than a mitochondrial issue. Trends in Plant Science 16 (9), pp. 507 - 515 (2011)
24.
Journal Article
Howard, T. P.; Fryer, M. J.; Singh, P.; Metodiev, M.; Lytovchenko, A.; Obata, T.; Fernie, A. R.; Kruger, N. J.; Quick, W. P.; Lloyd, J. C. et al.; Raines, C. A.: Antisense Suppression of the Small Chloroplast Protein CP12 in Tobacco Alters Carbon Partitioning and Severely Restricts Growth. Plant Physiology 157 (2), pp. 620 - 631 (2011)
25.
Journal Article
Karlova, R.; Rosin, F. M.; Busscher-Lange, J.; Parapunova, V.; Do, P. T.; Fernie, A. R.; Fraser, P. D.; Baxter, C.; Angenent, G. C.; de Maagd, R. A.: Transcriptome and Metabolite Profiling Show That APETALA2a Is a Major Regulator of Tomato Fruit Ripening. The Plant Cell 23 (3), pp. 923 - 941 (2011)
26.
Journal Article
Kochevenko, A.; Fernie, A. R.: The genetic architecture of branched-chain amino acid accumulation in tomato fruits. Journal of Experimental Botany 62 (11), pp. 3895 - 3906 (2011)
27.
Journal Article
Krueger, S.; Giavalisco, P.; Krall, L.; Steinhauser, M.-C.; Buessis, D.; Usadel, B.; Fluegge, U.-I.; Fernie, A. R.; Willmitzer, L.; Steinhauser, D.: A Topological Map of the Compartmentalized Arabidopsis thaliana Leaf Metabolome. PLoS One 6 (3), p. e17806 (2011)
28.
Journal Article
Kusano, M.; Tohge, T.; Fukushima, A.; Kobayashi, M.; Hayashi, N.; Otsuki, H.; Kondou, Y.; Goto, H.; Kawashima, M.; Matsuda, F. et al.; Niida, R.; Matsui, M.; Saito, K.; Fernie, A. R.: Metabolomics reveals comprehensive reprogramming involving two independent metabolic responses of Arabidopsis to UV-B light. The Plant Journal 67 (2), pp. 354 - 369 (2011)
29.
Journal Article
Lombardo, V. A.; Osorio, S.; Borsani, J.; Lauxmann, M. A.; Bustamante, C. A.; Budde, C. O.; Andreo, C. S.; Lara, M. V.; Fernie, A. R.; Drincovich, M. F.: Metabolic profiling during peach fruit development and ripening reveals the metabolic networks that underpin each developmental stage. Plant Physiology 157 (4), pp. 1696 - 1710 (2011)
30.
Journal Article
Lytovchenko, A.; Eickmeier, I.; Pons, C.; Osorio, S.; Szecowka, M.; Lehmberg, K.; Arrivault, S.; Tohge, T.; Pineda, B.; Anton, M. T. et al.; Hedtke, B.; Lu, Y.; Fisahn, J.; Bock, R.; Stitt, M.; Grimm, B.; Granell, A.; Fernie, A. R.: Tomato fruit photosynthesis is seemingly unimportant in primary metabolism and ripening but plays a considerable role in seed development. Plant Physiology 157 (4), pp. 1650 - 1663 (2011)
31.
Journal Article
Matas, A. J.; Yeats, T. H.; Buda, G. J.; Zheng, Y.; Chatterjee, S.; Tohge, T.; Ponnala, L.; Adato, A.; Aharoni, A.; Stark, R. et al.; Fernie, A. R.; Fei, Z.; Giovannoni, J. J.; Rose, J. K. C.: Tissue- and Cell-Type Specific Transcriptome Profiling of Expanding Tomato Fruit Provides Insights into Metabolic and Regulatory Specialization and Cuticle Formation. The Plant Cell 23 (11), pp. 3893 - 3910 (2011)
32.
Journal Article
Meitzel, T.; Radchuk, R.; Nunes-Nesi, A.; Fernie, A. R.; Link, W.; Weschke, W.; Weber, H.: Hybrid embryos of Vicia faba develop enhanced sink strength, which is established during early development. Plant Journal 65 (4), pp. 517 - 531 (2011)
33.
Journal Article
Michaeli, S.; Fait, A.; Lagor, K.; Nunes-Nesi, A.; Grillich, N.; Yellin, A.; Bar, D.; Khan, M.; Fernie, A. R.; Turano, F. J. et al.; Fromm, H.: A mitochondrial GABA permease connects the GABA shunt and the TCA cycle, and is essential for normal carbon metabolism. The Plant Journal 67 (3), pp. 485 - 498 (2011)
34.
Journal Article
Mutwil, M.; Klie, S.; Tohge, T.; Giorgi, F. M.; Wilkins, O.; Campbell, M. M.; Fernie, A. R.; Usadel, B.; Nikoloski, Z.; Persson, S.: PlaNet: Combined Sequence and Expression Comparisons across Plant Networks Derived from Seven Species. The Plant Cell 23 (3), pp. 895 - 910 (2011)
35.
Journal Article
Nafati, M.; Cheniclet, C.; Hernould, M.; Do, P. T.; Fernie, A. R.; Chevalier, C.; Gevaudant, F.: The specific overexpression of a cyclin-dependent kinase inhibitor in tomato fruit mesocarp cells uncouples endoreduplication and cell growth. The Plant Journal 65 (4), pp. 543 - 556 (2011)
36.
Journal Article
Nunes-Nesi, A.; Araujo, W. L.; Fernie, A. R.: Targeting Mitochondrial Metabolism and Machinery as a Means to Enhance Photosynthesis. Plant Physiology 155 (1), pp. 101 - 107 (2011)
37.
Journal Article
Obata, T.; Matthes, A.; Koszior, S.; Lehmann, M.; Araujo, W. L.; Bock, R.; Sweetlove, L. J.; Fernie, A. R.: Alteration of mitochondrial protein complexes in relation to metabolic regulation under short-term oxidative stress in Arabidopsis seedlings. Phytochemistry 72 (10), pp. 1081 - 1091 (2011)
38.
Journal Article
Osorio, S.; Alba, R.; Damasceno, C. M. B.; Lopez-Casado, G.; Lohse, M.; Zanor, M. I.; Tohge, T.; Usadel, B.; Rose, J. K. C.; Fei, Z. J. et al.; Giovannoni, J. J.; Fernie, A. R.: Systems Biology of Tomato Fruit Development: Combined Transcript, Protein, and Metabolite Analysis of Tomato Transcription Factor (nor, rin) and Ethylene Receptor (Nr) Mutants Reveals Novel Regulatory Interactions. Plant Physiology 157 (1), pp. 405 - 425 (2011)
39.
Journal Article
Osorio, S.; Bombarely, A.; Giavalisco, P.; Usadel, B.; Stephens, C.; Araguez, I.; Medina-Escobar, N.; Botella, M. A.; Fernie, A. R.; Valpuesta, V.: Demethylation of oligogalacturonides by FaPE1 in the fruits of the wild strawberry Fragaria vesca triggers metabolic and transcriptional changes associated with defence and development of the fruit. Journal of Experimental Botany 62 (8), pp. 2855 - 2873 (2011)
40.
Journal Article
Palmieri, F.; Pierri, C. L.; De Grassi, A.; Nunes-Nesi, A.; Fernie, A. R.: Evolution, structure and function of mitochondrial carriers: a review with new insights. The Plant Journal 66 (1), pp. 161 - 181 (2011)
41.
Journal Article
Quadrana, L.; Rodriguez, M. C.; Lopez, M.; Bermudez, L.; Nunes-Nesi, A.; Fernie, A. R.; Descalzo, A.; Asis, R.; Rossi, M.; Asurmendi, S. et al.; Carrari, F.: Coupling Virus-Induced Gene Silencing to Exogenous Green Fluorescence Protein Expression Provides a Highly Efficient System for Functional Genomics in Arabidopsis and across All Stages of Tomato Fruit Development. Plant Physiology 156 (3), pp. 1278 - 1291 (2011)
42.
Journal Article
Rashke, M.; Boycheva, S.; Crèvecoeur, M.; Nunes-Nesi, A.; Witt, S.; Fernie, A. R.; Amrhein, N.; Fitzpatrick, T. B.: Enhanced levels of vitamin B6 increase aerial organ size and positively affect stress tolerance in Arabidopsis. The Plant Journal 66 (3), pp. 414 - 432 (2011)
43.
Journal Article
Reiland, S.; Grossmann, J.; Baerenfaller, K.; Gehrig, P.; Nunes-Nesi, A.; Fernie, A. R.; Gruissem, W.; Baginsky, S.: Integrated proteome and metabolite analysis of the de-etiolation process in plastids from rice (Oryza sativa L.). Proteomics 11 (9), pp. 1751 - 1763 (2011)
44.
Journal Article
Rohrmann, J.; Tohge, T.; Alba, R.; Osorio, S.; Caldana, C.; McQuinn, R.; Arvidsson, S.; van der Merwe, M. J.; Riano-Pachon, D. M.; Mueller-Roeber, B. et al.; Fei, Z.; Nunes-Nesi, A.; Giovannoni, J. J.; Fernie, A. R.: Combined transcription factor profiling, microarray analysis and metabolite profiling reveals the transcriptional control of metabolic shifts occurring during tomato fruit development. The Plant Journal 68 (6), pp. 999 - 1013 (2011)
45.
Journal Article
Skirycz, A.; Memmi, S.; de Bodt, S.; Maleux, K.; Obata, T.; Fernie, A. R.; Devreese, B.; Inze, D.: A Reciprocal (15)N-Labeling Proteomic Analysis of Expanding Arabidopsis Leaves Subjected to Osmotic Stress Indicates Importance of Mitochondria in Preserving Plastid Functions. Journal of Proteome Research 10 (3), pp. 1018 - 1029 (2011)
46.
Journal Article
Steinbrenner, A. D.; Gomez, S.; Osorio, S.; Fernie, A. R.; Orians, C. M.: Herbivore-Induced Changes in Tomato (Solanum lycopersicum) Primary Metabolism: A Whole Plant Perspective. Journal of Chemical Ecology 37 (12), pp. 1294 - 1303 (2011)
47.
Journal Article
Steinhauser, M.-C.; Steinhauser, D.; Gibon, Y.; Bolger, M.; Arrivault, S.; Usadel, B.; Zamir, D.; Fernie, A. R.; Stitt, M.: Identification of Enzyme Activity Quantitative Trait Loci in a Solanum lycopersicum X Solanum pennellii Introgression Line Population. Plant Physiology 157 (3), pp. 998 - 1014 (2011)
48.
Journal Article
Timm, S.; Florian, A.; Jahnke, K.; Nunes-Nesi, A.; Fernie, A. R.; Bauwe, H.: The Hydroxypyruvate-Reducing System in Arabidopsis: Multiple Enzymes for the Same End. Plant Physiology 155 (2), pp. 694 - 705 (2011)
49.
Journal Article
Tohge, T.; Kusano, M.; Fukushima, A.; Saito, K.; Fernie, A. R.: Transcriptional and metabolic programs following exposure of plants to UV-B irradiation. Plant Signaling & Behavior 6 (12), pp. 1987 - 1992 (2011)
50.
Journal Article
Tohge, T.; Mettler, T.; Arrivault, S.; Carroll, A. J.; Stitt, M.; Fernie, A. R.: From models to crop species: caveats and solutions for translational metabolomics. Frontiers in Plant Science 2, p. 61 (2011)
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