Publications of the institute

Journal Article (4099)

1.
Journal Article
Salem, M.; El-Shiekh, R.; Aborehab, N.; Al-Karmalawy, A.; Ezzat, S.; Alseekh, S.; Fernie, A. R.: Metabolomics driven analysis of Nigella sativa seeds identifies the impact of roasting on the chemical composition and immunomodulatory activity. Food Chemistry 398, 133906 (2023)
2.
Journal Article
Aleman, J.; H., G.; Thirumalaikumar, V. P.; Jander, G.; Fernie, A. R.; Skirycz, A.: OPDA, more than just a jasmonate precursor. Phytochemistry 204, 113432 (2022)
3.
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)
4.
Journal Article
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)
5.
Journal Article
Sun, Y.; Guo, J.; Ruan, Y.; Zhang, T.; Fernie, A. R.; Yuan, H.: The recruitment of specific rhizospheric bacteria facilitates Stevia rebaudiana salvation under nitrogen and/or water deficit stresses. Industrial Crops and Products 187 (B), 115434 (2022)
6.
Journal Article
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)
7.
Journal Article
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)
8.
Journal Article
de Souza, L. P.; Naake, T.; Fernie, A. R.: Computational approaches that aid annotation in metabolomics. Trends in Plant Science 27 (10), pp. 1077 - 1078 (2022)
9.
Journal Article
Sato, H.; Köhler, C.: Genomic imprinting regulates establishment and release of seed dormancy. Current Opinion in Plant Biology 69, 102264 (2022)
10.
Journal Article
Zhan, C.; Shen, S.; Yang, C.; Liu, Z.; Fernie, A. R.; Graham, I. A.; Luo, J.: Plant metabolic gene clusters in the multi-omics era. Trends in Plant Science 27 (10), pp. 981 - 1001 (2022)
11.
Journal Article
Dai, L.; Wang, B.; Wang, T.; Meyer, E. H.; Kettel, V.; Hoffmann, N.; McFarlane, H. E.; Li, S.; Wu, X.; Picard, K. L. et al.; Giavalisco, P.; Persson, S.; Zhang, Y.: The TOR complex controls ATP levels to regulate actin cytoskeleton dynamics in Arabidopsis. Proceedings of the National Academy of Sciences of the United States of America 119 (38), e2122969119 (2022)
12.
Journal Article
Steinhorst, L.; He, G.; Moore, L. K.; Schültke, S.; Schmitz-Thom, I.; Cao, Y.; Hashimoto, K.; Andrés, Z.; Piepenburg, K.; Ragel, P. et al.; Behera, S.; Almutairi, B. O.; Batistič, O.; Wyganowski, T.; Köster, P.; Edel, K. H.; Zhang, C.; Krebs, M.; Jiang, C.; Guo, Y.; Quintero, F. J.; Bock, R.; Kudla, J.: A Ca2+-sensor switch for tolerance to elevated salt stress in Arabidopsis. Developmental Cell 57 (17), pp. 2081 - 2094 (2022)
13.
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 (9), pp. 2682 - 2695 (2022)
14.
Journal Article
Borghi, M.; de Souza, L. P.; Tohge, T.; Mi, J.; Melandri, G.; Proost, S.; Martins, M.; Al-Babili, S.; Bouwmeester, H.; Fernie, A. R.: High-energy-level metabolism and transport occur at the transition from closed to open flowers. Plant Physiology 190 (1), pp. 319 - 339 (2022)
15.
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 131, pp. 163 - 173 (2022)
16.
Journal Article
Heinze, J.; Krumpholz, L.; Blaum, N.; Hoefgen, R.; Ogden, M.: Shoot herbivory by grasshoppers has stronger effects on root morphology than clipping. Plant Ecology 223, pp. 1069 - 1078 (2022)
17.
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 111 (5), pp. 1486 - 1500 (2022)
18.
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 3-way coffee hybrids. G3: Genes, Genomes, Genetics 12 (9), jkac170 (2022)
19.
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 190 (1), pp. 280 - 304 (2022)
20.
Journal Article
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)
21.
Journal Article
Wawrzyńska, A.; Piotrowska, J.; Apodiakou, A.; Brückner, F.; Hoefgen, R.; Sirko, A.: The SLIM1 transcription factor affects sugar signaling during sulfur deficiency in Arabidopsis thaliana. Journal of Experimental Botany, erac371 (2022)
22.
Journal Article
Yan, S.; Liu, Q.; Li, W.; Yan, J.; Fernie, A. R.: Raffinose Family Oligosaccharides: Crucial Regulators of Plant Development and Stress Responses. Critical Reviews in Plant Sciences 41 (4), pp. 286 - 303 (2022)
23.
Journal Article
Yi, J.; Kradolfer, D.; Brownfield, L.; Ma, Y.; Piskorz, E.; Köhler, C.; Jiang, H.: Meiocyte size is a determining factor for unreduced gamete formation in Arabidopsis thaliana. New Phytologist (2022)
24.
Journal Article
Zhang, Y.; Fernie, A. R.: Dynamically regulating metabolic fluxes with synthetic metabolons. Trends in Biotechnology 40 (9), pp. 1019 - 1020 (2022)
25.
Journal Article
Zhao, H.; He, Y.; Zhang, K.; Li, S.; Chen, Y.; He, M.; He, F.; Gao, B.; Yang, D.; Fan, Y. et al.; Zhu, X.; Yan, M.; Giglioli-Guivarc'h, N.; Hano, C.; Fernie, A. R.; Georgiev, M. I.; Dagmar, J.; Meglič, V.; Zhou, M.: Rewiring of the Seed Metabolome during Tartary Buckwheat Domestication. Plant Biotechnology Journal (2022)
26.
Journal Article
Zhou, J.; Liu, C.; Chen, Q.; Liu, L.; Niu, S.; Chen, R.; Li, K.; Sun, Y.; Shi, Y.; Yang, C. et al.; Shen, S.; Li, Y.; Xing, J.; Yuan, H.; Liu, X.; Fang, C.; Fernie, A. R.; Luo, J.: Integration of rhythmic metabolome and transcriptome provides insights into the transmission of rhythmic fluctuations and temporal diversity of metabolism in rice. SCIENCE CHINA-LIFE SCIENCES 65, pp. 1764 - 1810 (2022)
27.
Journal Article
Zhu, F.; Jadhav, S. S.; Tohge, T.; Salem, M. A.; Li, J. M.; Giovannoni, J. J.; Cheng, Y.; Alseekh, S.; Fernie, A. R.: A comparative transcriptomics and eQTL approach identifies SlWD40 as a tomato fruit ripening regulator. Plant Physiology 190 (1), pp. 250 - 266 (2022)
28.
Journal Article
Chen, Y.; Chao, Z.-F.; Jin, M.; Wang, Y.-L.; Li, Y.; Wu, J.-C.; Xiao, Y.; Peng, Y.; Lv, Q.-Y.; Gui, S. et al.; Wang, X.; Han, M.-L.; Fernie, A. R.; Chao, D.-Y.; Yan, J.: A heavy metal transporter gene ZmHMA3a promises safe agricultural production on cadmium-polluted arable land. Journal of Genetics and Genomics (2022)
29.
Journal Article
Naves, E. R.; Scossa, F. (Central Metabolism, Department Willmitzer, Max Planck Institute of Molecular Plant Physiology, Max Planck Society), F.; Araújo, W. L.; Nunes-Nesi, A.; Fernie, A. R.; Zsögön, A.: Heterosis for capsacinoids accumulation in chili pepper hybrids is dependent on parent-of-origin effect. Scientific Reports 12 (1), 14450 (2022)
30.
Journal Article
Schneider, R.; Ehrhardt, D. W.; Meyerowitz, E. M.; Sampathkumar, A.: Tethering of cellulose synthase to microtubules dampens mechano-induced cytoskeletal organization in Arabidopsis pavement cells. Nature Plants 8, pp. 1064 - 1073 (2022)
31.
Journal Article
Matz, T.; Wang, Y.; Kulshreshtha, R.; Sampathkumar, A.; Nikoloski, Z.: Topological properties accurately predict cell division events and organization of shoot apical meristem in Arabidopsis thaliana. Development 149 (16), dev201024 (2022)
32.
Journal Article
Gui, S.; Wei, W.; Jiang, C.; Luo, J.; Chen, L.; Wu, S.; Li, W.; Wang, Y.; Li, S.; Yang, N. et al.; Li, Q.; Fernie, A. R.; Yan, J.: A pan-Zea genome map for enhancing maize improvement. Genome Biology: Biology for the Post-Genomic Era 23 (1), 178 (2022)
33.
Journal Article
Joo, J.; Kim, M.; Cho, Y.; Fernie, A. R.; Sung, J.: Transcriptional Comparison of Genes Associated with Photosynthesis, Photorespiration, and Photo-Assimilate Allocation and Metabolic Profiling of Rice Species. International Journal of Molecular Sciences 23 (16), 16 (2022)
34.
Journal Article
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)
35.
Journal Article
Chen, L.; Zhao, H.; Chen, Y.; Jiang, F.; Zhou, F.; Liu, Q.; Fan, Y.; Liu, T.; Tu, W.; Walther, D. et al.; Song, B.: Comparative transcriptomics analysis reveals a calcineurin B-like gene to positively regulate constitutive and acclimated freezing tolerance in potato. Plant, Cell and Environment n/a (n/a) (2022)
36.
Journal Article
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)
37.
Journal Article
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)
38.
Journal Article
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)
39.
Journal Article
Otero, S.; Gildea, I.; Roszak, P.; Lu, Y.; Di Vittori, V.; Bourdon, M.; Kalmbach, L.; Blob, B.; Heo, J.-o.; Peruzzo, F. et al.; Laux, T.; Fernie, A. R.; Tavares, H.; Helariutta, Y.: A root phloem pole cell atlas reveals common transcriptional states in protophloem-adjacent cells. Nature Plants 8, pp. 954 - 970 (2022)
40.
Journal Article
Yang, M.-K.; Zhu, X.-J.; Chen, C.-M.; Guo, X.; Xu, S.-X.; Xu, Y.-R.; Du, S.-X.; Xiao, S.; Mueller-Roeber, B.; Huang, W. et al.; Chen, L.: The plant circadian clock regulates autophagy rhythm through transcription factor LUX ARRHYTHMO. Journal of Integrative Plant Biology (2022)
41.
Journal Article
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)
42.
Journal Article
Schulz-Mirbach, H.; Mueller, A.; Wu, T.; Pfister, P.; Aslan, S.; Schada von Borzyskowski, L.; Erb , T.J.; Bar-Even, A.; Lindner, S. N.: On the flexibility of the cellular amination network in E. coli. eLife 11, e77492 (2022)
43.
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)
44.
Journal Article
Mulugeta Aneley, G.; Haas, M.; Koehl, K. I.: LIDAR-Based Phenotyping for Drought Response and Drought Tolerance in Potato. Potato Research (2022)
45.
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)
46.
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)
47.
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)
48.
Journal Article
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 34 (9), koac166, pp. 3233 - 3260 (2022)
49.
Journal Article
Tan, J.; Forner, J.; Karcher, D.; Bock, R.: DNA base editing in nuclear and organellar genomes. Trends in Genetics (2022)
50.
Journal Article
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 41, pp. 1907 - 1929 (2022)
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