Publications of the Group

Journal Article (818)

1.

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da Fonseca-Pereira, P.; Souza, P. V.L.; Hou, L.-Y.; Schwab, S.; Geigenberger, P.; Nunes-Nesi, A.; Timm, S.; Fernie, A. R.; Thormählen, I.; Araújo, W. L. et al.; Daloso, D. M.: Thioredoxin h2 contributes to the redox regulation of mitochondrial photorespiratory metabolism. Plant, Cell and Environment 43 (1), pp. 188 - 208 (2020)
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Devkar, V.; Thirumalaikumar, V. P.; Xue, G.-P.; Vallarino, J. G.; Turečková, V.; Strnad, M.; Fernie, A. R.; Hoefgen, R.; Mueller-Roeber, B.; Balazadeh, S.: Multifaceted regulatory function of tomato SlTAF1 in the response to salinity stress. New Phytologist 225 (4), pp. 1681 - 1698 (2020)
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Fernández-Marín, B.; Gulías, J.; Figueroa, C. M.; Iñiguez, C.; Clemente-Moreno, M. J.; Nunes-Nesi, A.; Fernie, A. R.; Cavieres, L. A.; Bravo, L. A.; García-Plazaola, J. I. et al.; Gago, J.: How do vascular plants perform photosynthesis in extreme environments? An integrative ecophysiological and biochemical story. The Plant Journal (accepted)
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Fernie, A. R.; Bauwe, H.: Wasteful, essential, evolutionary stepping stone? The multiple personalities of the photorespiratory pathway. The Plant Journal (accepted)
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Florez-Sarasa, I.; Fernie, A. R.; Gupta, K.J.: Does the alternative respiratory pathway offer protection against the adverse effects resulting from climate change? Journal of Experimental Botany 71 (2), pp. 465 - 469 (2020)
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Fraser, P. D.; Aharoni, A.; Hall, R. D.; Huang, S.; Giovannoni, J. J.; Sonnewald, U.; Fernie, A. R.: Metabolomics should be deployed in identification and characterization of gene-edited crops. The Plant Journal (accepted)
7.

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Gupta, K. J.; Mur, L. A. J.; Wany, A.; Kumari, A.; Fernie, A. R.; Ratcliffe, R. G.: The role of nitrite and nitric oxide under low oxygen conditions in plants. New Phytologist 225 (SI-3), pp. 1143 - 1151 (2020)
8.

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Liu, J.; Fernie, A. R.; Yan, J.: The past, present and future of maize improvement – domestication, genomics and functional genomic routes towards crop enhancement. Plant Communications 1, 100010 (2020)
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Medeiros, D.B.; Barros, J. A.S.; Fernie, A. R.; Araújo, W. L.: Eating Away at ROS to Regulate Stomatal Opening. Trends in Plant Science (2020)
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Rosa-Téllez, S.; Anoman, A.D.; Alcántara-Enguídanos, A.; Garza-Aguirre, R.A.; Alseekh, S.; Ros, R.: PGDH family genes differentially affect Arabidopsis tolerance to salt stress. Plant Science 290, 110284 (2020)
11.

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Rosado-Souza, L.; Fernie, A. R.; Aarabi, F.: Ascorbate and Thiamin: Metabolic Modulators in Plant Acclimation Responses. Plants 9 (SI-1), 101 (2020)
12.

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Suzuki, M.; Wu, S.; Mimura, M.; Alseekh, S.; Fernie, A. R.; Hanson, A. D.; McCarty, D. R.: Construction and applications of a B vitamin genetic resource for investigation of vitamin dependent metabolism in maize. The Plant Journal 101 (2), pp. 442 - 454 (2020)
13.

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Toleco, M.R.; Naake, T.; Zhang, Y.; Heazlewood, J. L.; Fernie, A. R.: Plant Mitochondrial Carriers: Molecular Gatekeepers That Help to Regulate Plant Central Carbon Metabolism. Plants 9 (SI- 1), 117 (2020)
14.

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de Souza, L. P.; Garbowicz, K.; Brotman, Y.; Tohge, T.; Fernie, A. R.: The acetate pathway supports flavonoid and lipid biosynthesis in Arabidopsis. Plant Physiology (2019)
15.

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Domingues Júnior, A.P.; Daloso, D. M.; Machado, M.; Rosado-Souza, L.; de Souza, L. P.; Fernie, A. R.; Mazzafera, P.: A cold change: how short low temperature exposure affects primary metabolism in leaves and stems of two eucalyptus species. Theoretical and Experimental Plant Physiology 31 (4), pp. 429 - 444 (2019)
16.

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Condori-Apfata, J. A.; Batista-Silva, W.; Medeiros, D. B.; Vargas, J. R.; Valente, L. M. L.; Heyneke, E.; Pérez-Diaz, J. L.; Fernie, A. R.; Araújo, W. L.; Nunes-Nesi, A.: The Arabidopsis E1 subunit of the 2-oxoglutarate dehydrogenase complex modulates plant growth and seed production. Plant Molecular Biology 101 (1), pp. 183 - 202 (2019)
17.

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Gago, J.; Carriquí, M.; Nadal, M.; Clemente-Moreno, M. J.; Coopman, R. E.; Fernie, A. R.; Flexas, J.: Photosynthesis Optimized across Land Plant Phylogeny. Trends in Plant Science 24 (10), pp. 947 - 958 (2019)
18.

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Li, K.; Wen, W.; Alseekh, S.; Yang, X.; Guo, H.; Li, W.; Wang, L.; Pan, Q.; Zhan, W.; Liu, J. et al.; Li, Y.; Wu, X.; Brotman, Y.; Willmitzer, L.; Li, J.; Fernie, A. R.; Yan, J.: Large-scale metabolite quantitative trait locus analysis provides new insights for high-quality maize improvement. The Plant Journal 99 (2), pp. 216 - 230 (2019)
19.

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Liu, T.-Y.; Chen, M.-X.; Zhang, Y.; Zhu, F.-Y.; Liu, Y.-G.; Tian, Y.; Fernie, A. R.; Ye, N.; Zhang, J.: Comparative metabolite profiling of two switchgrass ecotypes reveals differences in drought stress responses and rhizosheath weight. Planta 250 (4), pp. 1355 - 1369 (2019)
20.

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Sujeeth, N.; Mehterov, N.; Gupta, S.; Qureshi, M. K.; Fischer, A.; Proost, S.; Omidbakhshfard, M. A.; Obata, T.; Benina, M.; Staykov, N. et al.; Balazadeh, S.; Walther, D.; Fernie, A. R.; Mueller-Roeber, B.; Hille, J.; Gechev, T. S.: A novel seed plants gene regulates oxidative stress tolerance in Arabidopsis thaliana. Cellular and Molecular Life Sciences (accepted)
21.

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Liang, Y.; Kong, F.; Torres-Romero, I.; Burlacot, A.; Cuine, S.; Légeret, B.; Billon, E.; Brotman, Y.; Alseekh, S.; Fernie, A. R. et al.; Beisson, F.; Peltier, G.; Li-Beisson, Y.: Branched-Chain Amino Acid Catabolism Impacts Triacylglycerol Homeostasis in Chlamydomonas reinhardtii. Plant Physiology 179 (4), pp. 1502 - 1514 (2019)
22.

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Arrivault, S.; Moraes, T. A.; Obata, T.; Medeiros, D.B.; Fernie, A. R.; Boulouis, A.; Ludwig, M.; Lunn, J. E.; Borghi, G.L.; Schlereth, A. et al.; Guenther, M.; Stitt, M.: Metabolite profiles reveal interspecific variation in operation of the Calvin–Benson cycle in both C4 and C3 plants. Journal of Experimental Botany 70 (6), pp. 1843 - 1858 (2019)
23.

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de Souza, L. P.; Scossa, F.; Proost, S.; Bitocchi, E.; Papa, R.; Tohge, T.; Fernie, A. R.: Multi-tissue integration of transcriptomic and specialized metabolite profiling provides tools for assessing the common bean (Phaseolus vulgaris) metabolome. The Plant Journal 97 (6), pp. 1132 - 1153 (2019)
24.

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Fernie, A. R.: Resolving the role of strigolactone in the early steps of rice axillary bud dormancy. The Plant Journal 97 (6), pp. 1003 - 1005 (2019)
25.

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Anoman, A. D.; Flores-Tornero, M.; Benstein, R. M.; Blau, S.; Rosa-Tellez, S.; Braeutigam, A.; Fernie, A. R.; Munoz-Bertomeu, J.; Schilasky, S.; Meyer, A. J. et al.; Kopriva, S.; Segura, J.; Krueger, S.; Ros roc, R.: Deficiency in the Phosphorylated Pathway of Serine Biosynthesis Perturbs Sulfur Assimilation. Plant Physiology 180 (1), pp. 153 - 170 (2019)
26.

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Batista-Silva, W.; Medeiros, D. B.; Rodrigues-Salvador, A.; Daloso, D. M.; Omena-Garcia, R. P.; Oliveira, F. S.; Pino, L. E.; Pereira Peres, L. E.; Nunes-Nesi, A.; Fernie, A. R. et al.; Zsogon, A.; Araujo, W. L.: Modulation of auxin signalling through DIAGETROPICA and ENTIRE differentially affects tomato plant growth via changes in photosynthetic and mitochondrial metabolism. Plant, Cell and Environment 42 (2), pp. 448 - 465 (2019)
27.

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Battat, M.; Eitan, A.; Rogachev, I.; Hanhineva, K.; Fernie, A. R.; Tohge, T.; Beekwilder, J.; Aharoni, A.: A MYB Triad Controls Primary and Phenylpropanoid Metabolites for Pollen Coat Patterning. Plant Physiology 180 (1), pp. 87 - 108 (2019)
28.

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Beshir, W. F.; Tohge, T.; Watanabe, M.; Hertog, M. L. A. T. M.; Hoefgen, R.; Fernie, A. R.; Nicolaï, B. M.: Non-aqueous fractionation revealed changing subcellular metabolite distribution during apple fruit development. Horticulture Research 6 (1), 98 (2019)
29.

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Bogusławska, J.; Popławski, P.; Alseekh, S.; Koblowska, M.; Iwanicka-Nowicka, R.; Rybicka, B.; Kędzierska, H.; Głuchowska, K.; Hanusek, K.; Tański, Z. et al.; Fernie, A. R.; Piekiełko-Witkowska, A.: MicroRNA-Mediated Metabolic Reprograming in Renal Cancer. Cancers 11 (12), 1825 (2019)
30.

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Borghi, M.; de Souza, L. P.; Yoshida, T.; Fernie, A. R.: Flowers and climate change: a metabolic perspective. New Phytologist 224 (4), pp. 1425 - 1441 (2019)
31.

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Bovdilova, A.; Alexandre, B. M.; Höppner, A.; Matias Luis, I.; Alvarez, C. E.; Bickel, D.; Gohlke, H.; Decker, C.; Nagel-Steger, L.; Alseekh, S. et al.; Fernie, A. R.; Drincovich, M. F.; Abreu, I. A.; Maurino, V. G.: Posttranslational modification of the NADP-malic enzyme involved in C4 photosynthesis fine-tunes the enzymatic activity during the day. The Plant Cell 31 (10), pp. 2525 - 2539 (2019)
32.

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Brog, Y. M.; Osorio, S.; Yichie, Y.; Alseekh, S.; Bensal, E.; Kochevenko, A.; Zamir, D.; Fernie, A. R.: A Solanum neorickii introgression population providing a powerful complement to the extensively characterized Solanum pennellii population. The Plant Journal 97 (2), pp. 391 - 403 (2019)
33.

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Chaves, I. d. S.; Feitosa-Araujo, E.; Florian, A.; Medeiros, D. B.; da Fonseca-Pereira, P.; Charton, L.; Heyneke, E.; Apfata, J. A. C.; Pires V, M.; Mettler-Altmann, T. et al.; Araujo, W. L.; Neuhaus, H. E.; Palmieri, F.; Obata, T.; Weber, A. P. M.; Linka, N.; Fernie, A. R.; Nunes-Nesi, A.: The mitochondrial NAD(+) transporter (NDT1) plays important roles in cellular NAD(+) homeostasis in Arabidopsis thaliana. The Plant Journal 100 (3), pp. 487 - 504 (2019)
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Chen, M.-X.; Zhu, F.-Y.; Gao, B.; Ma, K.-L.; Zhang, Y.; Fernie, A. R.; Chen, X.; Dai, L.; Ye, N.-H.; Zhang, X. et al.; Tian, Y.; Zhang, D.; Xiao, S.; Zhang, J.; Liu, Y.-G.: Full-length transcript-based proteogenomics of rice improves its genome and proteome annotation. Plant Physiology (2019)
35.

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Clemente-Moreno, M.J.; Gago, J.; Díaz-Vivancos, P.; Bernal, A.; Miedes, E.; Bresta, P.; Liakopoulos, G.; Fernie, A. R.; Hernández, J.A.; Flexas, J.: The apoplastic antioxidant system and altered cell wall dynamics influence mesophyll conductance and the rate of photosynthesis. The Plant Journal 99 (6), pp. 1031 - 1046 (2019)
36.

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Clemente-Moreno, J. M.; Omranian, N.; Sáez, P.; Figueroa, C. M.; Del-Saz, N.; Elso, M.; Poblete, L.; Orf, I.; Cuadros-Inostroza, A.; Cavieres, L. et al.; Bravo, L.; Fernie, A. R.; Ribas-Carbó, M.; Flexas, J.; Nikoloski, Z.; Brotman, Y.; Gago, J.: Cytochrome respiration pathway and sulphur metabolism sustain stress tolerance to low temperature in the Antarctic species Colobanthus quitensis. New Phytologist 225 (2) (2019)
37.

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da Fonseca-Pereira, P.; Daloso, D. M.; Gago, J.; de Oliveira Silva, F.M.; Condori-Apfata, J.A.; Florez-Sarasa, I. D.; Tohge, T.; Reichheld, J.-P.; Nunes-Nesi, A.; Fernie, A. R. et al.; Araújo, W.L.: The Mitochondrial Thioredoxin System Contributes to the Metabolic Responses Under Drought Episodes in Arabidopsis. Plant and Cell Physiology 60 (1), pp. 213 - 229 (2019)
38.

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De Smet, B.; Willems, P.; Fernandez-Fernandez, A. D.; Alseekh, S.; Fernie, A. R.; Messens, J.; Van Breusegem, F.: In vivo detection of protein cysteine sulfenylation in plastids. The Plant Journal 97 (4), pp. 765 - 778 (2019)
39.

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de Souza, L. P.; Alseekh, S.; Naake, T.; Fernie, A. R.: Mass Spectrometry-Based Untargeted Plant Metabolomics. Current Protocols in Plant Biology 4 (4), e20100 (2019)
40.

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Diretto, G.; Frusciante, S.; Fabbri, C.; Schauer, N.; Busta, L.; Wang, Z.; Matas, A. J.; Fiore, A.; Rose, J. K.C.; Fernie, A. R. et al.; Jetter, R.; Mattei, B.; Giovannoni, J.; Giuliano, G.: Manipulation of β-carotene levels in tomato fruits results in increased ABA content and extended shelf-life. Plant Biotechnology Journal (accepted)
41.

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Fàbregas, N.; Fernie, A. R.: The metabolic response to drought. Journal of Experimental Botany 70 (4), pp. 1077 - 1085 (2019)
42.

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Fang, C.; Fernie, A. R.; Luo, J.: Exploring the Diversity of Plant Metabolism. Trends in Plant Science 24 (1), pp. 83 - 98 (2019)
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Fernie, A. R.; Gutierrez-Marcos, J.: From genome to phenome: genome-wide association studies and other approaches that bridge the genotype to phenotpe gap. Plant Journal 97 (1), pp. 5 - 7 (2019)
44.

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Fernie, A. R.; Yan, J.: De Novo Domestication: An Alternative Route toward New Crops for the Future. Molecular Plant 12 (5), pp. 615 - 631 (2019)
45.

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Fernie, A. R.: Evolution: An Early Role for Flavonoids in Defense against Oomycete Infection. Current Biology 29 (14), pp. R688 - R690 (2019)
46.

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Fernie, A. R.; Aharoni, A.: Pan-Genomic Illumination of Tomato Identifies Novel Gene–Trait Interactions. Trends in Plant Science 24 (10), pp. 882 - 884 (2019)
47.

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Ferrari, C.; Proost, S.; Janowski, M.; Becker, J.; Nikoloski, Z.; Bhattacharya, D.; Price, D.; Tohge, T.; Bar-Even, A.; Fernie, A. R. et al.; Stitt, M.; Mutwil, M.: Kingdom-wide comparison reveals the evolution of diurnal gene expression in Archaeplastida. Nature Communications 10 (2019)
48.

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Florez-Sarasa, I. D.; Obata, T.; Del-Saz, N. F.; Reichheld, J.-P.; Meyer, E. H.; Rodriguez-Concepcion, M.; Ribas-Carbo, M.; Fernie, A. R.: The Lack of Mitochondrial Thioredoxin TRXo1 Affects In Vivo Alternative Oxidase Activity and Carbon Metabolism under Different Light Conditions. Plant and Cell Physiology 60 (11), pp. 2369 - 2381 (2019)
49.

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Fort, A.; Lebrault, M.; Allaire, M.; Esteves-Ferreira, A. A.; McHale, M.; Lopez, F.; Farinas-Franco, J. M.; Alseekh, S.; Fernie, A. R.; Sulpice, R.: Extensive Variations in Diurnal Growth Patterns and Metabolism Among Ulva spp. Strains. Plant Physiology 180 (1), pp. 109 - 123 (2019)
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Heng, Z.; Sheng, O.; Huang, W.; Zhang, S.; Fernie, A. R.; Motorykin, I.; Kong, Q.; Yi, G.; Yan, S.: Integrated proteomic and metabolomic analysis suggests high rates of glycolysis are likely required to support high carotenoid accumulation in banana pulp. Food Chemistry 297, 125016 (2019)

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