Publications of Alisdair Fernie

1.

Journal Article

Zhang, Y.; Fernie, A. R.: Stable and temporary enzyme complexes and metabolons involved in energy and redox metabolism. ANTIOXIDANTS & REDOX SIGNALING 35, 10 (2021)

MPG.PuRe

DOI

2.

Journal Article

Medeiros, D.B.; Aarabi, F.; Rivas f; Fernie, A. R.: The knowns and unknowns of intracellular partitioning of carbon and nitrogen, with focus on the organic acid-mediated interplay between mitochondrion and chloroplast. Journal of Plant Physiology 266, 153521 (2021)

MPG.PuRe

DOI

3.

Journal Article

Lima, V. F.; Erban, A.; Daubermann, A. G.; Freire, F. B. S.; Porto, N. P.; Cândido-Sobrinho, S. A.; Medeiros, D.B.; Schwarzländer, M.; Fernie, A. R.; dos Anjos, L. et al.; Kopka, J.; Daloso, D. M.: Establishment of a GC-MS-based 13C-positional isotopomer approach suitable for investigating metabolic fluxes in plant primary metabolism. The Plant Journal (2021)

MPG.PuRe

DOI

4.

Journal Article

Zhang, F.; Wu, J.; Sade, N.; Wu, S.; Egbaria, A.; Fernie, A. R.; Yan, J.; Qin, F.; Chen, W.; Brotman, Y. et al.; Dai, M.: Genomic basis underlying the metabolome-mediated drought adaptation of maize. Genome Biology 22 (1), 260 (2021)

MPG.PuRe

DOI

5.

Journal Article

Aarabi, F.; Rakpenthai, A.; Barahimipour, R.; Gorka, M.; Alseekh, S.; Zhang, Y.; Salem, M.A.; Brückner, F.; Omranian, N.; Watanabe, M. et al.; Nikoloski, Z.; Giavalisco, P.; Tohge, T.; Graf, A.; Fernie, A. R.; Hoefgen, R.: Sulfur Deficiency Induced genes affect seed protein accumulation and composition under sulfate deprivation. Plant Physiology (2021)

MPG.PuRe

DOI

Full

6.

Journal Article

Zhang, Y.; Scossa, Federico, F.; Fernie, A. R.: The genomes of Taxus species unveil novel candidates in the biosynthesis of taxoids. Molecular Plant (2021)

MPG.PuRe

DOI

7.

Journal Article

Bellucci, E.; Aguilar, O. M.; Alseekh, S.; Bett, K.; Brezeanu, C.; Cook, D.; De la Rosa, L.; Delledonne, M.; Dostatny, D. F.; Ferreira, J. J. et al.; Geffroy, V.; Ghitarrini, S.; Kroc, M.; Kumar Agrawal, S.; Logozzo, G.; Marino, M.; Mary-Huard, T.; McClean, P.; Meglič, V.; Messer, T.; Muel, F.; Nanni, L.; Neumann, K.; Servalli, F.; Străjeru, S.; Varshney, R. K.; Vasconcelos, M. W.; Zaccardelli, M.; Zavarzin, A.; Bitocchi, E.; Frontoni, E.; Fernie, A. R.; Gioia, T.; Graner, A.; Guasch, L.; Prochnow, L.; Opperman, M.; Susek, K.; Tenaillon, M.; Papa, R.: The INCREASE project: Intelligent Collections of Food-Legume Genetic Resources for European Agrofood Systems. The Plant Journal (2021)

MPG.PuRe

DOI

8.

Journal Article

Wu, T.; Kerbler, S. M.; Fernie, A. R.; Zhang, Y.: Plant cell cultures as heterologous bio-factories for secondary metabolite production. Plant Communications, 100235 (2021)

MPG.PuRe

DOI

9.

Journal Article

Zhu, F.; Fernie, A. R.: Plants upcycle gene functions to suit their roots. Trends in Plant Science 26 (10), pp. 996 - 998 (2021)

MPG.PuRe

DOI

10.

Journal Article

Alseekh, S.; Aharoni, A.; Brotman, Y.; Contrepois, K.; D’Auria, J.; Ewald, J.; C. Ewald, J.; Fraser, P. D.; Giavalisco, P.; Hall, R. D. et al.; Heinemann, M.; Link, H.; Luo, J.; Neumann, S.; Nielsen, J.; de Souza, L. P.; Saito, K.; Sauer, U.; Schroeder, F. C.; Schuster, S.; Siuzdak, G.; Skirycz, A.; Sumner, L. W.; Snyder, M. P.; Tang, H.; Tohge, T.; Wang, Y.; Wen, W.; Wu, S.; Xu, G.; Zamboni, N.; Fernie, A. R.: Mass spectrometry-based metabolomics: a guide for annotation, quantification and best reporting practices. Nature Methods 18 (7), pp. 747 - 756 (2021)

MPG.PuRe

DOI

11.

Journal Article

Duarte, G. T.; Pandey, P. K.; Vaid, N.; Alseekh, S.; Fernie, A. R.; Nikoloski, Z.; Laitinen, R.: Plasticity of rosette size in response to nitrogen availability is controlled by an RCC1-family protein. Plant, Cell and Environment 44 (10), pp. 3398 - 3411 (2021)

MPG.PuRe

DOI

12.

Journal Article

Guadalupe Dominguez, P.; Conti, G.; Duffy, T.; Insani, M.; Alseekh, S.; Asurmendi, S.; Fernie, A. R.; Carrari, F.: Multi-omics analyses reveal the roles of the ASR1 transcription factor in tomato fruits. Journal of Experimental Botany (2021)

MPG.PuRe

DOI

Full

13.

Journal Article

Moreno, J.C.; Rojas, B.E.; Vicente, R.; Gorka, M.; Matz, T.; Kosmacz, M.; Peralta-Ariza, J.S.; Zhang, Y.; Alseekh, S.; Childs, D. et al.; Luzarowski, M.; Nikoloski, Z.; Zarivach, R.; Walther, D.; Hartman, M.D.; Figueroa, C.M.; Iglesias, A.A.; Fernie, A. R.; Skirycz, A.: Tyr-Asp inhibition of glyceraldehyde 3-phosphate dehydrogenase affects plant redox metabolism. EMBO Journal, e106800 (2021)

MPG.PuRe

DOI

Full

14.

Journal Article

Altman, A.; Fan, L.; Foyer, C.; Cowling, W.; Mittler, R.; Qaim, M.; Weber, A.; Reynolds, M.; Varshney, R.; Fernie, A. R.: Past and Future Milestones of Plant Breeding. Trends in Plant Science 26 (6), pp. 530 - 538 (2021)

MPG.PuRe

DOI

15.

Journal Article

Ancín, M.; Larraya, L.; Florez-Sarasa, I. D.; Bénard, C.; Fernández-San Millán, A.; Veramendi, J.; Gibon, Y.; Fernie, A. R.; Aranjuelo, I.; Farran, I.: Thioredoxin m overexpression in chloroplasts alters carbon and nitrogen partitioning in tobacco plants. Journal of Experimental Botany (2021)

MPG.PuRe

DOI

Full

16.

Journal Article

Ashraf, M.; Mao, Q.; Hong, J.; Shi, L.; Ran, X.; Liaquat, F.; Uzair, M.; Liang, W.; Fernie, A. R.; Shi, J.: HSP70-16 and VDAC3 jointly inhibit seed germination under cold stress in Arabidopsis. Plant, Cell and Environment (2021)

MPG.PuRe

DOI

17.

Journal Article

Zimmermann, S. E.; Benstein, R. M.; Flores-Tornero, M.; Blau, S.; Anoman, A. D.; Rosa-Téllez, S.; Gerlich, S. C.; Salem, M.A.; Alseekh, S.; Kopriva, S. et al.; Wewer, V.; Flügge, U.-I.; Jacoby, R. P.; Fernie, A. R.; Giavalisco, P.; Ros, R.; Krueger, S.: The phosphorylated pathway of serine biosynthesis links plant growth with nitrogen metabolism. Plant Physiology 186 (3), pp. 1487 - 1506 (2021)

MPG.PuRe

DOI

Full

18.

Journal Article

de Souza, L. P.; Alseekh, S.; Scossa, F.; Fernie, A. R.: Ultra-high-performance liquid chromatography high-resolution mass spectrometry variants for metabolomics research. Nature Methods 18, pp. 733 - 746 (2021)

MPG.PuRe

DOI

19.

Journal Article

Borghi, M.; Fernie, A. R.: From flowers to seeds: how the metabolism of flowers frames plant reproduction. The biochemist: the bulletin of the Biochemical Society 43 (3), pp. 14 - 18 (2021)

MPG.PuRe

DOI

20.

Journal Article

Cortinovis, G.; Oppermann, M.; Neumann, K.; Graner, A.; Gioia, T.; Marsella, M.; Alseekh, S.; Fernie, A. R.; Papa, R.; Bellucci, E. et al.; Bitocchi, E.: Towards the Development, Maintenance, and Standardized Phenotypic Characterization of Single-Seed-Descent Genetic Resources for Common Bean. Current Protocols in Plant Biology 1 (5), e133 (2021)

MPG.PuRe

DOI

21.

Journal Article

Fernie, A. R.: Associating primary and specialized metabolism with salt induced osmotic stress tolerance in maize. New Phytologist 230 (6), pp. 2991 - 2093 (2021)

MPG.PuRe

DOI

22.

Journal Article

Zhang, Y.; Giese, J.; Kerbler, S.M.-L.; Siemiatkowska, B.; de Souza, L. P.; Alpers, J.; Medeiros, D.B.; Hincha, D. K.; Daloso, D. M.; Stitt, M. et al.; Finkemeier, I.; Fernie, A. R.: Two mitochondrial phosphatases, PP2c63 and Sal2, are required for posttranslational regulation of the TCA cycle in Arabidopsis. Molecular Plant 14 (7), pp. 1104 - 1118 (2021)

MPG.PuRe

DOI

23.

Journal Article

Baptistella, J. L. C.; Llerena, J. P. P.; Domingues-Júnior, A. P.; Fernie, A. R.; Favarin, J. L.; Mazzafera, P.: Differential responses of three Urochloa species to low phosphorus availability. Annals of Applied Biology 179 (2), pp. 216 - 230 (2021)

MPG.PuRe

DOI

24.

Journal Article

Scossa, F.; Fernie, A. R.: When a Crop Goes Back to the Wild: Feralization. Trends in Plant Science 26 (6), pp. 543 - 545 (2021)

MPG.PuRe

DOI

25.

Journal Article

da Fonseca-Pereira, P.; Souza, P. V. L.; Fernie, A. R.; Timm, S.; Daloso, D. M.; Araújo, W. L.: Thioredoxin-mediated regulation of (photo)respiration and central metabolism. Journal of Experimental Botany 72 (17), pp. 5987 - 6002 (2021)

MPG.PuRe

DOI

Full

26.

Journal Article

Alseekh, S.; Kostova, D.; Bulut, M.; Fernie, A. R.: Genome-wide association studies: assessing trait characteristics in model and crop plants. Cellular and Molecular Life Sciences 78 (15), pp. 5743 - 5754 (2021)

MPG.PuRe

DOI

27.

Journal Article

Ancín, M.; Larraya, L.; Florez-Sarasa, I. D.; Bénard, C.; Fernández-San Millán, A.; Veramendi, J.; Gibon, Y.; Fernie, A. R.; Aranjuelo, I.; Farran, I.: Overexpression of thioredoxin m in chloroplasts alters carbon and nitrogen partitioning in tobacco. Journal of Experimental Botany 72 (13), pp. 4949 - 4964 (2021)

MPG.PuRe

DOI

Full

28.

Journal Article

Aneklaphakij, C.; Saigo, T.; Watanabe, M.; Naake, T.; Fernie, A. R.; Bunsupa, S.; Satitpatipan, V.; Tohge, T.: Diversity of Chemical Structures and Biosynthesis of Polyphenols in Nut-Bearing Species. Frontiers in Plant Science 12, 642581 (2021)

MPG.PuRe

DOI

Full

29.

Journal Article

Barja, M.V.; Ezquerro, M.; Beretta, S.; Diretto, G.; Florez-Sarasa, I.; Feixes, E.; Fiore, A.; Karlova, R.; Fernie, A. R.; Beekwilder, J. et al.; Rodríguez-Concepción, M.: Several geranylgeranyl diphosphate synthase isoforms supply metabolic substrates for carotenoid biosynthesis in tomato. New Phytologist 231 (1), pp. 255 - 272 (2021)

MPG.PuRe

DOI

Full

30.

Journal Article

Bottcher, A.; Domingues Júnior, A.P.; de Souza, L. P.; Tohge, T.; Araujo, W. L.; Fernie, A. R.; Mazzafera, P.: Sugarcane cell suspension reveals major metabolic changes under different nitrogen starvation regimes. BRAGANTIA 80, e2921 (2021)

MPG.PuRe

DOI

31.

Journal Article

Breitel, D.; Brett, P.; Alseekh, S.; Fernie, A. R.; Butelli, E.; Martin, C.: Diverting tyrosine: Data from untargeted metabolic analysis of tomato fruit accumulating L-DOPA. Data in Brief 34, 106678 (2021)

MPG.PuRe

DOI

Full

32.

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)

MPG.PuRe

DOI

33.

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)

MPG.PuRe

DOI

34.

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)

MPG.PuRe

DOI

Full

35.

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)

MPG.PuRe

DOI

36.

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)

MPG.PuRe

DOI

Full

37.

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)

MPG.PuRe

DOI

Full

38.

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)

MPG.PuRe

DOI

Full

39.

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)

MPG.PuRe

DOI

40.

Journal Article

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

MPG.PuRe

DOI

41.

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)

MPG.PuRe

DOI

Full

42.

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)

MPG.PuRe

DOI

Full

43.

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)

MPG.PuRe

DOI

Full

44.

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)

MPG.PuRe

DOI

Full

45.

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)

MPG.PuRe

DOI

46.

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)

MPG.PuRe

DOI

Full

47.

Journal Article

Jin, C.; Fang, C.; Zhang, Y.; Fernie, A. R.; Luo, J.: Plant metabolism paves the way for breeding crops with high nutritional value and stable yield. Science China Life Sciences (2021)

MPG.PuRe

DOI

Full

48.

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)

MPG.PuRe

DOI

Full

49.

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)

MPG.PuRe

DOI

Full

50.

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)

MPG.PuRe

DOI

Publications of Alisdair Fernie

Journal Article (887)