Publications of Alisdair Fernie

Max Planck Institute of Molecular Plant Physiology

Journal Article (1112)

351.

Journal Article

Brotman, Y.; Llorente-Wiegand, C.; Oyong, G.; Badoni, S.; Misra, G.; Anacleto, R.; Parween, S.; Pasion, E.; Tiozon Jr., R. N.; Anonuevo, J. J. et al.; Krishna deGuzman, M.; Alseekh, S.; Mbanjo, E. G.N.; Boyd, L. A.; Fernie, A. R.; Sreenivasulu, N.: The genetics underlying metabolic signatures in a brown rice diversity panel and their vital role in human nutrition. The Plant Journal 106 (2), pp. 507 - 527 (2021)

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352.

Journal Article

Bulut, M.; Fernie, A. R.; Alseekh, S.: Large-scale Multi-omics Genome-wide Association Studies (Mo-GWAS): Guidelines for Sample Preparation and Normalization. Journal of Visualized Experiments 173, e62732 (2021)

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353.

Journal Article

Cárcamo-Fincheira, P.; Reyes-Díaz, M.; Omena-García, R.P.; Vargas, J.R.; Alvear, M.; Florez-Sarasa, I.; Rosado-Souza, L.; Rengel, Z.; Fernie, A. R.; Nunes-Nesi, A. et al.; Inostroza-Blancheteau, C.: Metabolomic analyses of highbush blueberry (Vaccinium corymbosum L.) cultivars revealed mechanisms of resistance to aluminum toxicity. Environmental and Experimental Botany 183, 104338 (2021)

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354.

Journal Article

Casatejada-Anchel, R.; Munoz-Bertomeu, J.; Rosa-Tellez, S.; Anoman, A. D.; Nebauer, S. G.; Torres-Moncho, A.; Fernie, A. R.; Ros, R.: Phosphoglycerate dehydrogenase genes differentially affect Arabidopsis metabolism and development. Plant Science 306, 110863 (2021)

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355.

Journal Article

Cervela-Cardona, L.; Yoshida, T.; Zhang, Y.; Okada, M.; Fernie, A. R.; Mas, P.: Circadian Control of Metabolism by the Clock Component TOC1. Frontiers in Plant Science 12, 683516 (2021)

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356.

Journal Article

Chen, J.; Xue, M.; Liu, H.; Fernie, A. R.; Chen, W.: Exploring the genic resources underlying metabolites through mGWAS and mQTL in wheat: From large-scale gene identification and pathway elucidation to crop improvement. Plant Communications 2 (4), 100216 (2021)

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357.

Journal Article

Fernie, A. R.: Using landrace transcription factor alleles to increase yield in modern rice under low input agriculture. Journal of Plant Physiology 258-259, 153362 (2021)

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358.

Journal Article

Fernie, A. R.; Alseekh, S.; Liu, J.; Yan, J.: Using Precision Phenotyping to Inform de novo Domestication. Plant Physiology 186 (3), pp. 1397 - 1411 (2021)

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359.

Journal Article

Fernie, A. R.; Sonnewald, U.: Plant biotechnology for sustainable agriculture and food safety. Journal of Plant Physiology 261, 153416 (2021)

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360.

Journal Article

Filippou, P.; Zarza, X.; Antoniou, C.; Obata, T.; Villarroel, C.A.; Ganopoulos, I.; Harokopos, V.; Gohari, G.; Aidinis, V.; Madesis, P. et al.; Christou, A.; Fernie, A. R.; Tiburcio, A.F.; Fotopoulos, V.: Systems biology reveals key tissue-specific metabolic and transcriptional signatures involved in the response of Medicago truncatula plant genotypes to salt stress. Computational and Structural Biotechnology Journal 19, pp. 2133 - 2147 (2021)

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361.

Journal Article

Florez-Sarasa, I.; Welchen, E.; Racca, S.; Gonzalez, D.H.; Vallarino, J. G.; Fernie, A. R.; Ribas-Carbo, M.; Del-Saz, N.F.: Cytochrome c deficiency differentially affects the in vivo mitochondrial electron partitioning and primary metabolism depending on the photoperiod. Plants 10 (3), 444 (2021)

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362.

Journal Article

Freire, F.B.S.; Bastos, R.L.G.; Bret, R.S.C.; Cândido-Sobrinho, S.A.; Medeiros, D.B.; Antunes, W.C.; Fernie, A. R.; Daloso, D.M.: Mild reductions in guard cell sucrose synthase 2 expression leads to slower stomatal opening and decreased whole plant transpiration in Nicotiana tabacum L. Environmental and Experimental Botany 184, 104370 (2021)

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363.

Journal Article

Gill, R. A.; Scossa, F.; King, G. J.; Golicz, A.; Tong, C.; Snowdon, R. J.; Fernie, A. R.; Liu, S.: On the Role of Transposable Elements in the Regulation of Gene Expression and Subgenomic Interactions in Crop Genomes. Critical Reviews in Plant Sciences 40 (2), pp. 157 - 189 (2021)

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364.

Journal Article

Israeli, A.; Burko, Y.; Shleizer-Burko, S.; Zelnik, I. D.; Sela, N.; Hajirezaei, M. R.; Fernie, A. R.; Tohge, T.; Ori, N.; Bar, M.: Coordinating the morphogenesis-differentiation balance by tweaking the cytokinin-gibberellin equilibrium. PLoS Genetics 17 (4), e1009537 (2021)

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365.

Journal Article

Jiang, L.; Yoshida, T.; Stiegert, S.; Yu, J.; Alseekh, S.; Lenhard, M.; Pérez-Alfocea, F.; Fernie, A. R.: Multi-omics approach reveals the contribution of KLU to leaf longevity and drought tolerance. Plant Physiology 185 (2), pp. 352 - 368 (2021)

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366.

Journal Article

Jorge, T. F.; Ramalho, J. C.; Alseekh, S.; Pais, I. P.; Leitão, A. E.; Rodrigues, A. P.; Scotti-Campos, P.; Ribeiro-Barros, A. I.; Fernie, A. R.; António, C.: Will Casuarina glauca Stress Resilience Be Maintained in the Face of Climate Change? Metabolites 11 (9), 593 (2021)

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367.

Journal Article

Kerbler, S.M.-L.; Natale, R.; Fernie, A. R.; Zhang, Y.: From Affinity to Proximity Techniques to Investigate Protein Complexes in Plants. International Journal of Molecular Sciences 22 (13), 7101 (2021)

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368.

Journal Article

Krahmer, J.; Abbas, A.; Mengin, V.; Ishihara, H.; Romanowski, A.; Furniss, J. J.; Moraes, T. A.; Krohn, N.; Annunziata, M. G.; Feil, R. et al.; Alseekh, S.; Obata, T.; Fernie, A. R.; Stitt, M.; Halliday, K. J.: Phytochromes control metabolic flux, and their action at the seedling stage determines adult plant biomass. Journal of Experimental Botany 72 (8), pp. 3263 - 3278 (2021)

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369.

Journal Article

Lazare, S.; Bechar, D.; Garbowicz, K.; Fernie, A. R.; Brotman, Y.; Zaccai, M.: When vegetation indicates reproduction: the affinity between leaf morphology and flowering commitment in the lily meristem. Physiologia Plantarum 172 (4), pp. 2022 - 2033 (2021)

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370.

Journal Article

Liu, J.; Fernie, A. R.; Yan, J.: Crop breeding – From experience-based selection to precision design. Journal of Plant Physiology 256, 153313 (2021)

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371.

Journal Article

Luzarowski, M.; Vicente, R.; Kiselev, A.; Wagner, M.; Schlossarek, D.; Erban, A.; de Souza, L. P.; Childs, D.; Wojciechowska, I.; Luzarowska, U. et al.; Gorka, M.; Sokolowska, E.; Kosmacz, M.; Moreno, J.C.; Brzezinska, A.; Vegesna, B.; Kopka, J.; Fernie, A. R.; Willmitzer, L.; Ewald, J. C.; Skirycz, A.: Global mapping of protein–metabolite interactions in Saccharomyces cerevisiae reveals that Ser-Leu dipeptide regulates phosphoglycerate kinase activity. Communications Biology 4 (1), 181 (2021)

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372.

Journal Article

Martín-Pizarro, C.; Vallarino, J. G.; Osorio, S.; Meco, V.; Urrutia, M.; Pillet, J.; Casañal, A.; Merchante, C.; Amaya, I.; Willmitzer, L. et al.; Fernie, A. R.; Giovannoni, J. J.; Botella, M. A.; Valpuesta, V.; Posé, D.: The NAC transcription factor FaRIF controls fruit ripening in strawberry. The Plant Cell 33 (5), pp. 1574 - 1593 (2021)

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373.

Journal Article

Mou, J.; Zhang, Z.; Qiu, H.; Lu, Y.; Zhu, X.; Fan, Z.; Zhang, Q.; Ye, J.; Fernie, A. R.; Cheng, Y. et al.; Deng, X.; Wen, W.: Multiomics-based dissection of citrus flavonoid metabolism using a Citrus reticulata × Poncirus trifoliata population. Horticulture Research 8 (1), 56 (2021)

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374.

Journal Article

Omidbakhshfard, M. A.; Sokolowska, E.; Di Vittori, V.; de Souza, L. P.; Kuhalskaya, A.; Brotman, Y.; Alseekh, S.; Fernie, A. R.; Skirycz, A.: Multi-omics analysis of early leaf development in Arabidopsis thaliana. Patterns 2 (4), 100235 (2021)

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375.

Journal Article

Pereira, L.; Sapkota, M.; Alonge, M.; Zheng, Y.; Zhang, Y.; Razifard, H.; Taitano, N. K.; Schatz, M. C.; Fernie, A. R.; Wang, Y. et al.; Fei, Z.; Caicedo, A. L.; Tieman, D. M.; van der Knaap, E.: Natural Genetic Diversity in Tomato Flavor Genes. Frontiers in Plant Science 12, 642828 (2021)

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376.

Journal Article

Ren, Y.; Li, M.; Guo, S.; Sun, H.; Zhao, J.; Zhang, J.; Liu, G.; He, H.; Tian, S.; Yu, Y. et al.; Gong, G.; Zhang, H.; Zhang, X.; Alseekh, S.; Fernie, A. R.; Scheller, H. V.; Xu, Y.: Evolutionary Gain of Oligosaccharide Hydrolysis and Sugar Transport Enhanced Carbohydrate Partitioning in Sweet Watermelon Fruits. The Plant Cell 33 (5), pp. 1554 - 1573 (2021)

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377.

Journal Article

Salem, M. A.; Zayed, A.; Alseekh, S.; Fernie, A. R.; Giavalisco, P.: The integration of MS-based metabolomics and multivariate data analysis allows for improved quality assessment of Zingiber officinale Roscoe. Phytochemistry 190, 112843 (2021)

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378.

Journal Article

Sánchez-Guerrero, A.; Nadal, M.; Florez-Sarasa, I.; Ribas-Carbó, M.; Vallarino, J. G.; Brasi-Velasco, S. D.; Fernie, A. R.; Flexas, J.; Jiménez, A.; Sevilla, F.: Decreased Levels of Thioredoxin o1 Influences Stomatal Development and Aperture but Not Photosynthesis under Non-Stress and Saline Conditions. International Journal of Molecular Sciences 22 (3), 1063 (2021)

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379.

Journal Article

Schulz, E.; Tohge, T.; Winkler, J. B.; Albert, A.; Schäffner, A. R.; Fernie, A. R.; Zuther, E.; Hincha, D. K.: Natural Variation among Arabidopsis Accessions in the Regulation of Flavonoid Metabolism and Stress Gene Expression by Combined UV Radiation and Cold. Plant and Cell Physiology 62 (3), pp. 502 - 514 (2021)

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380.

Journal Article

Scossa, F.; Alseekh, S.; Fernie, A. R.: Integrating multi-omics data for crop improvement. Journal of Plant Physiology 257, 153352 (2021)

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381.

Journal Article

Scossa, F.; Fernie, A. R.: Ancestral sequence reconstruction - An underused approach to understand the evolution of gene function in plants? Computational and Structural Biotechnology Journal 19, pp. 1579 - 1594 (2021)

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382.

Journal Article

Staykov, N. S.; Angelov, M.; Petrov, V.; Minkov, P.; Kanojia, A.; Guinan, K. J.; Alseekh, S.; Fernie, A. R.; Sujeeth, N.; Gechev, T. S.: An Ascophyllum nodosum-Derived Biostimulant Protects Model and Crop Plants from Oxidative Stress. Metabolites 11 (1), 24 (2021)

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383.

Journal Article

Timm, S.; Nunes-Nesi, A.; Florian, A.; Eisenhut, M.; Morgenthal, K.; Wirtz, M.; Hell, R.; Weckwerth, W.; Hagemann, M.; Fernie, A. R. et al.; Bauwe, H.: Metabolite Profiling in Arabidopsisthaliana with Moderately Impaired Photorespiration Reveals Novel Metabolic Links and Compensatory Mechanisms of Photorespiration. Metabolites 11 (6), 391 (2021)

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384.

Journal Article

Tiozon, R.J.N.; Fernie, A. R.; Sreenivasulu, N.: Meeting human dietary vitamin requirements in the staple rice via strategies of biofortification and post-harvest fortification. Trends in Food Science and Technology 109, pp. 65 - 82 (2021)

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385.

Journal Article

Yan, S.; Liu, Q.; Naake, T.; Huang, W.; Chen, M.; Kong, Q.; Zhang, S.; Li, W.; Li, X.; Liu, Q. et al.; Yang, J.; Fernie, A. R.; Liu, B.: OsGF14b modulates defense signaling pathways in rice panicle blast response. Crop Journal 9 (4), pp. 725 - 738 (2021)

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386.

Journal Article

Yoshida, T.; Fernie, A. R.; Shinozaki, K.; Takahashi, F.: Long-distance stress and developmental signals associated with abscisic acid signaling in environmental responses. The Plant Journal 105 (2 - SI), pp. 477 - 488 (2021)

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387.

Journal Article

Zhang, W.; Luo, C.; Scossa, F.; Zhang, Q.; Usadel, B.; Fernie, A. R.; Mei, H.; Wen, W.: A phased genome based on single sperm sequencing reveals crossover pattern and complex relatedness in tea plants. The Plant Journal 105 (1), pp. 197 - 208 (2021)

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388.

Journal Article

Zhao, X.; Zeng, X.; Lin, N.; Yu, S.; Fernie, A. R.; Zhao, J.: CsbZIP1-CsMYB12 mediates the production of bitter-tasting flavonols in tea plants (Camellia sinensis) through a coordinated activator-repressor network. HORTICULTURE RESEARCH 8 (1), 110 (2021)

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389.

Journal Article

Leskow, C. C.; Conte, M.; del Pozo, T.; Bermúdez, L.; Lira, B. S.; Gramegna, G.; Baroli, I.; Burgos, E.; Zavallo, D.; Kamenetzky, L. et al.; Asís, R.; Gonzalez, M.; Fernie, A. R.; Rossi, M.; Osorio, S.; Carrari, F.: The cytosolic invertase NI6 affects vegetative growth, flowering, fruit set and yield in tomato. Journal of Experimental Botany 72 (7), pp. 2525 - 2543 (2020)

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390.

Journal Article

Naake, T.; Maeda, H. A.; Proost, S.; Tohge, T.; Fernie, A. R.: Kingdom-wide analysis of the evolution of the plant type III polyketide synthase superfamily. Plant Physiology (2020)

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391.

Journal Article

Burgos, E.; Luca, D.; Belen, M.; Diouf, I.; de Haro; A., L.; Albert, E.; Sauvage, C.; Jian Tao, Z.; Bermudez, L. et al.; Asís, R.; Nunes Nesi, A.; Matringe, M.; Brehelin, C.; Guiraud, T.; Ferrand, C.; Atienza, I.; Jorly, J.; Mauxion, J. P.; Baldet, P.; Fernie, A. R.; Quadrana, L.; Rothan, C.; Causse, M.; Carrari, F.: Validated MAGIC and GWAS populations mapping reveal the link between vitamin E contents and natural variation in chorismate metabolism in tomato. The Plant Journal (2020)

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392.

Journal Article

Di Vittori, V.; Bitocchi, E.; Rodriguez, M.; Alseekh, S.; Bellucci, E.; Nanni, L.; Gioia, T.; Marzario, S.; Logozzo, G.; Rossato, M. et al.; De Quattro, C.; Murgia, M. L.; Ferreira, J. J.; Campa, A.; Xu, C.; Fiorani, F.; Sampathkumar, A.; Fröhlich, A.; Attene, G.; Delledonne, M.; Usadel, B.; Fernie, A. R.; Rau, D.; Papa, R.: Pod indehiscence in common bean is associated to the fine regulation of PvMYB26. Journal of Experimental Botany 72 (5), pp. 1617 - 1633 (2020)

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393.

Journal Article

Popov, V. N.; Syromyatnikov, M. Y.; Fernie, A. R.; Chakraborty, S.; Gupta, K. J.; Igamberdiev, A. U.: The uncoupling of respiration in plant mitochondria: Keeping reactive oxygen and nitrogen species under control. Journal of Experimental Botany (2020)

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394.

Journal Article

Feitosa-Araujo, E.; da Fonseca Pereira, P.; Miranda Pena, M.; Medeiros, D.B.; de Souza, L. P.; Yoshida, T.; Weber, A. P.M.; Araújo, W. L.; Fernie, A. R.; Schwarzländer, M. et al.; Nunes-Nesi, A.: Changes in intracellular NAD status affect stomatal development in an abscisic acid-dependent manner. The Plant Journal (2020)

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395.

Journal Article

Sewelam, N.; Brilhaus, D.; Bräutigam, A.; Alseekh, S.; Fernie, A. R.; Maurino, V. G.: Molecular plant responses to combined abiotic stresses put a spotlight on unknown and abundant genes. Journal of Experimental Botany 71 (16), pp. 5098 - 5112 (2020)

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396.

Journal Article

Zhu, F.; Luo, T.; Liu, C.; Wang, Y.; Zheng, L.; Xiao, X.; Zhang, M.; Yang, H.; Yang, W.; Xu, R. et al.; Zeng, Y.; Ye, J.; Xu, J.; Xu, J.; Larkin, R. M.; Wang, P.; Wen, W.; Deng, X.; Fernie, A. R.; Cheng, Y.: A NAC transcription factor and its interaction protein hinder abscisic acid biosynthesis by synergistically repressing NCED5 in Citrus reticulata. Journal of Experimental Botany 71 (12), pp. 3613 - 3625 (2020)

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397.

Journal Article

Brito, D. S.; Agrimi, G.; Charton, L.; Brilhaus, D.; Bitetto, M. G.; Lana-Costa, J.; Messina, E.; Nascimento, C. P.; Araújo, E. F.; Viana Pires, M. et al.; Pérez-Díaz, J. L.; Obata, T.; Porcelli, V.; Palmieri, L.; Araújo, W. L.; Weber, A. P. M.; Linka, N.; Fernie, A. R.; Palmieri, F.; Nunes-Nesi, A.: Biochemical and Functional Characterization of a Mitochondrial Citrate Carrier in Arabidopsis thaliana. Biochemical Journal 477 (9), pp. 1759 - 1777 (2020)

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398.

Journal Article

Aksenov, A.A.; Laponogov, I.; Zhang, Z.; Doran, S.L.F.; Belluomo, I.; Veselkov, D.; Bittremieux, W.; Nothias, L.F.; Nothias-Esposito, M.; Maloney, K.N. et al.; Misra, B.B.; Melnik, A.V.; Smirnov, A.; Du, X.; Jones, K.L.; Dorrestein, K.; Panitchpakdi, M.; Ernst, M.; van der Hooft, J.J.J.; Gonzalez, M.; Carazzone, C.; Amézquita, A.; Callewaert, C.; Morton, J.T.; Quinn, R.A.; Bouslimani, A.; Orio, A.A.; Petras, D.; Smania, A.M.; Couvillion, S.P.; Burnet, M.C.; Nicora, C.D.; Zink, E.; Metz, T.O.; Artaev, V.; Humston-Fulmer, E.; Gregor, R.; Meijler, M.M.; Mizrahi, I.; Eyal, S.; Anderson, B.; Dutton, R.; Lugan, R.; Boulch, P.L.; Guitton, Y.; Prevost, S.; Poirier, A.; Dervilly, G.; Le Bizec, B.; Fait, A.; Persi, N.S.; Song, C.; Gashu, K.; Coras, R.; Guma, M.; Manasson, J.; Scher, J.U.; Barupal, D.K.; Alseekh, S.; Fernie, A. R.; Mirnezami, R.; Vasiliou, V.; Schmid, R.; Borisov, R.S.; Kulikova, L.N.; Knight, R.; Wang, M.; Hanna, G.B.; Dorrestein, P.C.; Veselkov, K.: Auto-deconvolution and molecular networking of gas chromatography-mass spectrometry data. Nature Biotechnology 39, pp. 169 - 173 (2020)

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399.

Journal Article

Alseekh, S.; de Souza, L. P.; Benina, M.; Fernie, A. R.: The Style and Substance of Plant Flavonoid decoration; Towards Defining both Structure and Function. Phytochemistry 174, 112347 (2020)

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400.

Journal Article

Alseekh, S.; Ofner, I.; Liu, Z.; Osorio, S.; Vallarino, J. G.; Last, R. L.; Zamir, D.; Tohge, T.; Fernie, A. R.: Quantitative trait loci analysis (QTL) of seed specialized metabolites reveals seed-specific flavonols and differential regulation of glycoalkaloid content in tomato. The Plant Journal 103 (6), pp. 2007 - 2024 (2020)

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