All Publications

1.

Journal Article

Apriyanto, A.; Compart, J.; Zimmermann, V.; Alseekh, S.; Fernie, A. R.; Fettke, J.: Indication that starch and sucrose are biomarkers for oil yield in oil palm (Elaeis guineensis Jacq.). FOOD CHEMISTRY 393, 133361 (2022)

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Mehring, A.; Zayed, A.; Salem, M.A.; Alseekh, S.; Fernie, A.; Ulber, R.: Time-dependent behaviour of methyl jasmonate elicited cell suspension cultures of Ocimum species via untargeted mass spectrometry-based metabolomics. Industrial Crops and Products 187 (Part A), 115414 (2022)

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3.

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Yin, Z.; Dong, T.; Huang, W.; Du, M.; Chen, D.; Fernie, A. R.; Yi, G.; Yan, S.: Spatially resolved metabolomics reveals variety-specific metabolic changes in banana pulp during postharvest senescence. FOOD CHEMISTRY: X 15, 100371 (2022)

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4.

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Brigante, F. I.; Lucini Mas, A.; Erban, A.; Fehrle, I.; Martinez-Seidel, F.; Kopka, J.; Wunderlin, D. A.; Baroni, M. V.: Authenticity assessment of commercial bakery products with chia, flax and sesame seeds: Application of targeted and untargeted metabolomics results from seeds and lab-scale cookies. Food control 140, 109114 (2022)

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5.

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Sato, H.; Köhler, C.: Genomic imprinting regulates establishment and release of seed dormancy. Current Opinion in Plant Biology 69, 102264 (2022)

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6.

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Tiozon, R.J.N.; Sartagoda, K. J. D.; Serrano, L. M. N.; Fernie, A. R.; Sreenivasulu, N.: Metabolomics based inferences to unravel phenolic compound diversity in cereals and its implications for human gut health. Trends in Food Science & Technology 127, pp. 14 - 25 (2022)

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7.

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Wang, Y.; Li, W.; Wang, L.; Yan, J.; Lu, G.; Yang, N.; Xu, J.; Wang, Y.; Gui, S.; Chen, G. et al.; Li, S.; Wu, C.; Guo, T.; Xiao, Y.; Warburton, M. L.; Fernie, A. R.; Dresselhaus, T.; Yan, J.: Three types of genes underlying the Gametophyte factor1 locus cause unilateral cross incompatibility in maize. Nature Communications 13 (1), 4498 (2022)

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8.

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Feitosa-Araujo, E.; da Fonseca-Pereira, P.; Pena, M.; Lana-Costa, J.; Coelho, D.; Silva, F.; Medeiros, D.B.; Linka, N.; Araujo, W.; Weber, A. et al.; Fernie, A. R.; Nunes-Nesi, A.: Mitochondrial and peroxisomal NAD(+) uptake are important for improved photosynthesis and seed yield under elevated CO2 concentrations. The Plant Journal 111 (3), pp. 713 - 730 (2022)

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9.

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Ishihara, H.; Alseekh, S.; Feil, R.; Perera, P.; George, G. M.; Niedzwiecki, P.; Arrivault, S.; Zeeman, S. C.; Fernie, A. R.; Lunn, J. E. et al.; Smith, A. M.; Stitt, M.: Rising rates of starch degradation during daytime and trehalose 6-phosphate optimize carbon availability. Plant Physiology 189 (4), pp. 1976 - 2000 (2022)

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10.

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Moraes, T. A.; Mengin, V.; Peixoto, B.; Encke, B.; Krohn, N.; Höhne, M.; Krause, U.; Stitt, M.: The circadian clock mutant lhy cca1 elf3 paces starch mobilization to dawn despite severely disrupted circadian clock function. Plant Physiology 189, pp. 2332 - 2356 (2022)

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11.

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Hashemi, S.; Razaghi-Moghadam, Z.; Laitinen, R.A.E.; Nikoloski, Z.: Relative flux trade-offs and optimization of metabolic network functionalities. Computational and Structural Biotechnology Journal 20, pp. 3963 - 3971 (2022)

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12.

Journal Article

Chew, Y. H.; Seaton, D. D.; Mengin, V.; Flis, A.; Mugford, S. T.; George, G. M.; Moulin, M.; Hume, A.; Zeeman, S. C.; Fitzpatrick, T. B. et al.; Smith, A. M.; Stitt, M.; Millar, A. J.: The Arabidopsis Framework Model version 2 predicts the organism-level effects of circadian clock gene mis-regulation. in silico Plants 4 (2), diac010 (2022)

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13.

Journal Article

Golczyk, H.; Hřibová, E.; Doležel, J.; Cuadrado, Á.; Garbsch, F.; Greiner, S.; Janeczko, M.; Szklarczyk, M.; Masłyk, M.; Kubiński, K.: Migration of repetitive DNAs during evolution of the permanent translocation heterozygosity in the oyster plant (Tradescantia section Rhoeo). Chromosoma: Biology of the Nucleus (2022)

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14.

Journal Article

Mulugeta Aneley, G.; Haas, M.; Koehl, K. I.: LIDAR-Based Phenotyping for Drought Response and Drought Tolerance in Potato. Potato Research (2022)

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15.

Journal Article

Rivas, F.J.M.; Blanco-Portales, R.; Molina-Hidalgo, F.; Caballero, J.; de Souza, L. P.; Alseekh, S.; Fernie, A. R.; Munoz-Blanco, J.; Rodriguez-Franco, A.: Azacytidine arrests ripening in cultivated strawberry (Fragaria x ananassa) by repressing key genes and altering hormone contents. BMC Plant Biology 22 (1), 278 (2022)

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16.

Journal Article

Wei, S.; Li, X.; Lu, Z.; Zhang, H.; Ye, X.; Zhou, Y.; Li, J.; Yan, Y.; Pei, H.; Duan, F. et al.; Wang, D.; Chen, S.; Wang, P.; Zhang, C.; Shang, L.; Zhou, Y.; Yan, P.; Zhao, M.; Huang, J.; Bock, R.; Qian, Q.; Zhou, W.: A transcriptional regulator that boosts grain yields and shortens the growth duration of rice. Science 377, 6604 (2022)

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17.

Journal Article

Lopez, L. S.; Völkner, C.; Day, P. M.; Lewis, C. M.; Lewis, C. L.; Schneider, D.; Correa Galvis, V.; Cruz, J. A.; Armbruster, U.; Kramer, D. M. et al.; Kunz, H.-H.: The Arabidopsis T-DNA mutant SALK_008491 carries a 14-kb deletion on chromosome 3 that provides rare insights into the plant response to dynamic light stress. Plant Direct 6 (7), e429 (2022)

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18.

Journal Article

Tan, J.; Forner, J.; Karcher, D.; Bock, R.: DNA base editing in nuclear and organellar genomes. Trends in Genetics (2022)

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19.

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Pereira, A. M.; Martins, A. O.; Batista-Silva, W.; Condori-Apfata, J. A.; Nascimento, V. L.; Silva, V. F.; Oliveira, L. A.; Medeiros, D.B.; Martins, S. C. V.; Fernie, A. R. et al.; Nunes-Nesi, A.; Araújo, W. L.: Elevated carbon assimilation and metabolic reprogramming in tomato high pigment mutants support the increased production of pigments. Plant Cell Reports (2022)

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20.

Journal Article

Sandoval-Ibanez, O.; Rolo, D.; Ghandour, R.; Hertle, A. P.; Armarego-Marriott, T.; Sampathkumar, A.; Zoschke, R.; Bock, R.: De-etiolation-induced protein 1 (DEIP1) mediates assembly of the cytochrome b6f complex in Arabidopsis. Nature Communications 13 (1), 4045 (2022)

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21.

Journal Article

Barros, J. A. S.; Cavalcanti, J. H. F.; Pimentel, K. G.; Medeiros, D.B.; Silva, J. C. F.; Condori-Apfata, J. A.; Lapidot-Cohen, T.; Brotman, Y.; Nunes-Nesi, A.; Fernie, A. R. et al.; Avin-Wittenberg, T.; Araújo, W. L.: The Significance of WRKY45 Transcription Factor in Metabolic Adjustments During Dark-induced Leaf Senescence. Plant, Cell and Environment (2022)

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22.

Journal Article

Blankenagel, S.; Eggels, S.; Frey, M.; Grill, E.; Bauer, E.; Dawid, C.; Fernie, A. R.; Haberer, G.; Hammerl, R.; Medeiros, D.B. et al.; Ouzunova, M.; Presterl, T.; Ruß, V.; Schäufele, R.; Schlüter, U.; Tardieu, F.; Urbany, C.; Urzinger, S.; Weber, A. P. M.; Schön, C.-C.; Avramova, V.: Natural alleles of the abscisic acid catabolism gene ZmAbh4 modulate water use efficiency and carbon isotope discrimination in maize. The Plant Cell (2022)

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23.

Journal Article

Mbebi, A. J.; Breitler, J.-C.; Bordeaux, M.; Sulpice, R.; McHale, M.; Tong, H.; Toniutti, L.; Castillo, J. A.; Bertrand, B.; Nikoloski, Z.: A comparative analysis of genomic and phenomic predictions of growth-related traits in three-way coffee hybrids. G3: Genes, Genomes, Genetics, jkac170 (2022)

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24.

Journal Article

Alshareef, N. O.; Otterbach, S. L.; Allu, A. D.; Woo, Y. H.; de Werk, T.; Kamranfar, I.; Mueller-Roeber, B.; Tester, M.; Balazadeh, S.; Schmöckel, S. M.: NAC transcription factors ATAF1 and ANAC055 affect the heat stress response in Arabidopsis. Scientific Reports 12, 11264 (2022)

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25.

Journal Article

Dong, Y.; Wu, M.; Zhang, Q.; Fu, J.; Loiacono, F.V.; Yang, Y.; Wang, Z.; Li, S.; Chang, L.; Bock, R. et al.; Zhang, J.: Control of a sap-sucking insect pest by plastid-mediated RNA interference. Molecular Plant 15 (7), pp. 1176 - 1191 (2022)

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26.

Journal Article

Hamon-Josse, M.; Villaecija-Aguilar, J.; Ljung, K.; Leyser, O.; Gutjahr, C.; Bennett, T.: KAI2 regulates seedling development by mediating light-induced remodelling of auxin transport. New Phytologist 235 (1), pp. 126 - 140 (2022)

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27.

Journal Article

Huß, S.; Judd, R. S.; Koper, K.; Maeda, H. A.; Nikoloski, Z.: An automated workflow that generates atom mappings for large scale metabolic models and its application to Arabidopsis thaliana. The Plant Journal (2022)

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28.

Journal Article

Rivas, F.J.M.; Blanco-Portales, R.; Moyano, E.; Alseekh, S.; Caballero, J. L.; Schwab, W.; Fernie, A. R.; Muñoz-Blanco, J.; Molina-Hidalgo, F. J.: Strawberry fruit FanCXE1 carboxylesterase is involved in the catabolism of volatile esters during the ripening process. Horticulture Research 9, uhac095 (2022)

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29.

Journal Article

Sageman-Furnas, K.; Nurmi, M.; Contag, M.; Plötner, B.; Alseekh, S.; Wiszniewski, A.A.G.; Fernie, A. R.; Smith, L. M.; Laitinen, R. A.: A. thaliana Hybrids Develop Growth Abnormalities Through Integration of Stress, Hormone and Growth Signalling. Plant and Cell Physiology 63 (7), pp. 944 - 954 (2022)

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30.

Journal Article

Vyse, K.; Schaarschmidt, S.; Erban, A.; Kopka, J.; Zuther, E.: Specific CBF transcription factors and cold-responsive genes fine-tune the early triggering response after acquisition of cold priming and memory. Physiologia Plantarum 174 (4), e13740 (2022)

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31.

Journal Article

Medeiros, D.B.; Ishihara, H.; Guenther, M.; Rosado-Souza, L.; Fernie, A. R.; Stitt, M.; Arrivault, S.: 13CO2 Labelling Kinetics in Maize Reveal Impaired Efficiency of C4 Photosynthesis under Low Irradiance. Plant Physiology, kiac306 (2022)

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32.

Journal Article

Kariñho-Betancourt, E.; Carlson, D.; Hollister, J.; Fischer, A.; Greiner, S.; Johnson, M. T. J.: The evolution of multi-gene families and metabolic pathways in the evening primroses (Oenothera: Onagraceae): A comparative transcriptomics approach. PLoS One 17 (6), e0269307 (2022)

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33.

Journal Article

Batista-Silva, W.; de Oliveira; Carvalho, A.; Oliveira Martins, A.; Siqueira, J. A.; Rodrigues-Salvador, A.; Omena-Garcia, R. P.; Medeiros, D.B.; Peres, L. E. P.; Ribeiro, D. M. et al.; Zsögön, A.; Fernie, A. R.; Nunes-Nesi, A.; Araújo, W. L.: Reduced auxin signalling through the cyclophilin DIAGEOTROPICA impacts tomato fruit development and metabolism during ripening. Journal of Experimental Botany 73 (12), pp. 4113 - 4128 (2022)

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34.

Journal Article

Chen, B.; Maas, L.; Figueiredo, D.D.; Zhong, Y.; Reis, R.; Li, M.; Horstman, A.; Riksen, T.; Weemen, M.; Liu, H. et al.; Siemons, C.; Chen, S.; Angenent, G. C.; Boutilier, K.: BABY BOOM regulates early embryo and endosperm development. Proceedings of the National Academy of Sciences of the United States of America 119 (25), e2201761119 (2022)

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35.

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Palos, K.; Dittrich, A.; Yu, L.; Brock, J.; Railey, C.; Wu, H.; Sokolowska, E.; Skirycz, A.; Hsu, P.; Gregory, B. et al.; Lyons, E.; Beilstein, M.; Nelson, A.: Identification and functional annotation of long intergenic non-coding RNAs in Brassicaceae. The Plant Cell, koac166 (2022)

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36.

Journal Article

Ralevski, A.; Apelt, F.; Olas, J.; Mueller-Roeber, B.; Rugarli, E.; Kragler, F.; Horvath, T.: Plant mitochondrial FMT and its mammalian homolog CLUH controls development and behavior in Arabidopsis and locomotion in mice. Cellular and Molecular Life Sciences 79 (6), 334 (2022)

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37.

Journal Article

Zhang, Y.; Fernie, A. R.: Dynamically regulating metabolic fluxes with synthetic metabolons. Trends in Biotechnology (2022)

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38.

Journal Article

Liu, Z.; Østerlund, I.; Ruhnow, F.; Cao, Y.; Huang, G.; Cai, W.; Zhang, J.; Liang, W.; Nikoloski, Z.; Persson, S. et al.; Zhang, D.: Fluorescent cytoskeletal markers reveal associations between the actin and microtubule cytoskeleton in rice cells. Development 149 (12), dev.200415 (2022)

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39.

Journal Article

Tabatabaei, I.; Alseekh, S.; Shahid, M.; Leniak, E.; Wagner, M.; Mahmoudi, H.; Thushar, S.; Fernie, A. R.; Murphy, K. M.; Schmöckel, S. M. et al.; Tester, M.; Mueller-Roeber, B.; Skirycz, A.; Balazadeh, S.: The diversity of quinoa morphological traits and seed metabolic composition. Scientific Data 9 (1), 323 (2022)

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40.

Journal Article

Salem, M.A.; El-Shiekh, R. A.; Fernie, A. R.; Alseekh, S.; Zayed, A.: Metabolomics-based profiling for quality assessment and revealing the impact of drying of Turmeric (Curcuma longa L.). Scientific Reports 12 (1), 10288 (2022)

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41.

Journal Article

Del-Saz, N.; Iglesias-Sanchez, A.; Alonso-Forn, D.; Lopez-Gomez, M.; Palma, F.; Clemente-Moreno, M.; Fernie, A. R.; Ribas-Carbo, M.; Florez-Sarasa, I.: The Lack of Alternative Oxidase 1a Restricts in vivo Respiratory Activity and Stress-Related Metabolism for Leaf Osmoprotection and Redox Balancing Under Sudden Acute Water and Salt Stress in Arabidopsis thaliana. FRONTIERS IN PLANT SCIENCE 13, 833113 (2022)

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42.

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Yokoyama, R.; de Oliveira, M.V.V.; Takeda-Kimura, Y.; Ishihara, H.; Alseekh, S.; Arrivault, S.; Kukshal, V.; Jez, J.M.; Stitt, M.; Fernie, A. R. et al.; Maeda, H.A.: Point mutations that boost aromatic amino acid production and CO2 assimilation in plants. Science Advances 8 (23), eabo3416 (2022)

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43.

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Jiang, C.; Sun, J.; Li, R.; Yan, S.; Chen, W.; Guo, L.; Qin, G.; Wang, P.; Luo, C.; Huang, W. et al.; Zhang, Q.; Fernie, A. R.; Jackson, D.; Li, X.; Yan, J.: A reactive oxygen species burst causes haploid induction in maize. Molecular Plant 15 (6), pp. 943 - 955 (2022)

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44.

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Alseekh, S.; Zhu, F.; Vallarino, J. G.; Sokolowska, E.; Yoshida, T.; Bergmann, S.; Wendenburg, R.; Bolze, A.; Skirycz, A.; Avin-Wittenberg, T. et al.; Fernie, A. R.: Autophagy modulates the metabolism and growth of tomato fruit during development. Horticulture Research, uhac129 (2022)

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45.

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Bohra, A.; Tiwari, A.; Kaur, P.; Ganie, S. A.; Raza, A.; Roorkiwal, M.; Mir, R. R.; Fernie, A. R.; Smýkal, P.; Varshney, R. K.: The Key to the Future Lies in the Past: Insights from Grain Legume Domestication and Improvement Should Inform Future Breeding Strategies. Plant and Cell Physiology, pcac086 (2022)

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46.

Journal Article

Fischer, A.; Dotzek, J.; Walther, D.; Greiner, S.: Graph-based models of the Oenothera mitochondrial genome capture the enormous complexity of higher plant mitochondrial DNA organization. NAR: genomics and bioinformatics 4 (2), lqac027 (2022)

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47.

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Hong, J.; Rosental, L.; Xu, Y.; Xu, D.; Orf, I.; Wang, W.; Hu, Z.; Su, S.; Bai, S.; Ashraf, M. et al.; Hu, C.; Zhang, C.; Li, Z.; Xu, J.; Liu, Q.; Zhang, H.; Zhang, F.; Luo, Z.; Chen, M.; Chen, X.; Betts, N.; Fernie, A. R.; Liang, W.; Chen, G.; Brotman, Y.; Zhang, D.; Shi, J.: Genetic architecture of seed glycerolipids in Asian cultivated rice. Plant, Cell and Environment (2022)

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48.

Journal Article

Li, P.; Ye, Z.; Fu, J.; Xu, Y.; Shen, Y.; Zhang, Y.; Tang, D.; Li, P.; Zuo, H.; Tong, W. et al.; Wang, S.; Fernie, A. R.; Zhao, J.: CsMYB184 regulates caffeine biosynthesis in tea plants. Plant Biotechnology Journal 20 (6), pp. 1012 - 1014 (2022)

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49.

Journal Article

Paschoal, D.; Costa, J. L.; da Silva, E. M.; da Silva, F. B.; Capelin, D.; Ometto, V.; Aricetti, J. A.; Carvalho, G. G.; Pimpinato, R. F.; de Oliveira, R. F. et al.; Carrera, E.; López-Díaz, I.; Rossi, M. L.; Tornisielo, V.; Caldana, C.; Riano-Pachon, D. M.; Cesarino, I.; Teixeira, P. J. P. L.; Figueira, A.: Infection by Moniliophthora perniciosa reprograms Micro-Tom physiology, establishes a sink and increases secondary cell wall synthesis. Journal of Experimental Botany 73 (11), pp. 3651 - 3670 (2022)

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50.

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Powell, A. F.; Feder, A.; Li, J.; Schmidt, M. H.-W.; Courtney, L.; Alseekh, S.; Jobson, E. M.; Vogel, A.; Xu, Y.; Lyon, D. et al.; Dumschott, K.; McHale, M.; Sulpice, R.; Bao, K.; Lal, R.; Duhan, A.; Hallab, A.; Denton, A. K.; Bolger, M. E.; Fernie, A. R.; Hind, S. R.; Mueller, L. A.; Martin, G. B.; Fei, Z.; Martin, C.; Giovannoni, J. J.; Strickler, S. R.; Usadel, B.: A Solanum lycopersicoides reference genome facilitates insights into tomato specialized metabolism and immunity. The Plant Journal 110 (6), pp. 1791 - 1810 (2022)

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All Publications

Journal Article (4071)