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Journal Article (4260)

1.
Journal Article
Fernie, A. R.: Spotlight on “Proximity proteomics reveals a mechanism of fatty acid transfer at lipid droplet-mitochondria- endoplasmic reticulum contact sites” by Bezawork-Geleta et al. 2025. Journal of Mitochondria, Plastids and Endosymbiosis 3 (1), 2493930 (2025)
2.
Journal Article
Satanowski, A.; Marchal, D.G.; Perret, A.; Petit, J.-L.; Bouzon, M.; Döring, V.; Dubois, I.; He, H.; Smith, E.N.; Pellouin, V. et al.; Petri, H.M.; Rainaldi, V.; Nattermann, M.; Burgener, S.; Paczia, N.; Zarzycki, J.; Heinemann, M.; Bar-Even, A.; Erb, T.J.: Design and implementation of aerobic and ambient CO2-reduction as an entry-point for enhanced carbon fixation. Nature Communications 16 (1), 3134 (2025)
3.
Journal Article
Karakas, E.; Bulut, M.; Fernie, A. R.: Metabolome guided treasure hunt - lerning from metabolic diversity. Journal of Plant Physiology 309, 154494 (2025)
4.
Journal Article
Asao, S.; Way, D. A.; Turnbull, M. H.; Stitt, M.; McDowell, N. G.; Reich, P. B.; Bloomfield, K. J.; Zaragoza-Castells, J.; Creek, D.; O'Sullivan, O. et al.; Crous, K. Y.; Egerton, J. J.G.; Mirotchnick, N.; Weerasinghe, L. K.; Griffin, K. L.; Hurry, V.; Meir, P.; Sitch, S.; Atkin, O. K.: Leaf nonstructural carbohydrate residence time, not concentration, correlates with leaf functional traits following the leaf economic spectrum in woody plants. New Phytologist 246 (4), pp. 1505 - 1519 (2025)
5.
Journal Article
da Luz, L.M.; Valente, L.M.L.; Medeiros, D.B.; Batista-Silva, W.; da Costa, L.C.; Oliveira, F.S.; Martins, S.C.V.; Fernie, A. R.; Nunes-Nesi, A.; Araújo, W.L.: Functional lack of SLAC1 modifies guard cell metabolism without impacting photosynthesis under elevated [CO2] and moderated water restriction. Environmental and Experimental Botany 233, 106142 (2025)
6.
Journal Article
Fernie, A. R.; Bulut, M.: Design of future climate smart crops by engineering heat stress-responsive gene expression. Molecular Plant 18 (5), pp. 738 - 740 (2025)
7.
Journal Article
Leer, M.; Soultoukis, G. A.; Jähnert, M.; Oveisi, M.; Walther, D.; Schulz, T. J.: pubCounteR: an R package for interrogating published literature for experimentally-derived gene lists within a user-defined biological context. Frontiers in Bioinformatics Volume 5, 1523184 (2025)
8.
Journal Article
Li, X.; Xie, C.; Cheng, L.; Tong, H.; Bock, R.; Qian, Q.; Zhou, W.: The next Green Revolution: integrating crop architectype and physiotype. Trends in Biotechnology (2025)
9.
Journal Article
Minen, R. I.; Camalle, M. D.; Schwertfeger, T. J.; Abdulhakim, F.; Reish, H.; Perez de Souza, L.; Moreno, J. C.; Schilmiller, A.; Thirumalaikumar, V. P.; Agarwal, P. et al.; Plecki, C. F.; Fernie, A. R.; Hirt, H.; Schroeder, F. C.; Skirycz, A.: Characterization of the cyclic dipeptide cyclo(His-Pro) in Arabidopsis. Plant Physiology, kiaf174 (2025)
10.
Journal Article
Ranner, J. L.; Stabl, G.; Piller, A.; Paries, M.; Sharma, S.; Zeng, T.; Spaccasassi, A.; Stark, T. D.; Gutjahr, C.; Dawid, C.: Untargeted metabolomics reveals novel metabolites in Lotus japonicus roots during arbuscular mycorrhiza symbiosis. New Phytologist 246 (3), pp. 1256 - 1275 (2025)
11.
Journal Article
Ruf, S.; Trösch, R.; Schollbach, L.; Kroop, X.; Forner, J.; Gefen-Treves, S.; Henze, A.; Thiele, W.; Schöttler, M. A.; Zoschke, R. et al.; Bock, R.: Reverse genetics in the Arabidopsis chloroplast genome identifies rps16 as a transcribed pseudogene. The Plant Journal 122 (3), e70198 (2025)
12.
Journal Article
Wagner, M.; Kang, J.; Mercado, C.; Thirumlaikumar, V. P.; Gorka, M.; Zillmer, H.; Guo, J.; Minen, R. I.; Plecki, C. F.; Dehesh, K. et al.; Schroeder, F. C.; Walther, D.; Skirycz, A.: Mapping protein-metabolite interactions in E. coli by integrating chromatographic techniques and co-fractionation mass spectrometry. iScience, 112611 (2025)
13.
Journal Article
Wang, Z.; He, Y.; Zhao, M.; Liu, X.-Q.; Lin, H.; Shi, Y.; Zhang, K.; Lei, G.; Lai, D.; Liu, T. et al.; Peng, X.; He, J.; Li, W.; Wang, X.; Woo, S.-H.; Quinet, M.; Fernie, A. R.; Huang, X.-Y.; Zhou, M.: Genome-Wide Association Studies Reveal the Genetic Architecture of Ionomic Variation in Grains of Tartary Buckwheat. Advanced Science 12 (17), 2412291 (2025)
14.
Journal Article
Fernie, A. R.; Martinez-Rivas, F.: Br(e)aking the tomato fruit size-sweetness trade-off. Trends in Plant Science 30 (4), pp. 350 - 351 (2025)
15.
Journal Article
Fernie, A. R.; Zhu, F.: Chemical disarmament in plant defense: Erucamide blocks bacterial type III injectisome assembly. Developmental Cell 60 (8), pp. 1140 - 1141 (2025)
16.
Journal Article
Gomez Coronado, P. A.; Kubis, A.; Kowald, M.; Rahma, U.; Cotton, C. A. R.; Lindner, S. N.; Bar-Even, A.; Erb, T. J.: Two highly specific growth-coupled biosensor for glycolaldehyde detection across micromolar and millimolar concentrations. Synthetic Biology 10 (1), ysaf004 (2025)
17.
Journal Article
Hobby, D.; Tong, H.; Heuermann, M.; Mbebi, A. J.; Laitinen, R. A. E.; Dell’Acqua, M.; Altmann, T.; Nikoloski, Z.: Predicting plant trait dynamics from genetic markers. Nature Plants (2025)
18.
Journal Article
Hong, Z.-H.; Zhu, L.; Gao, L.-L.; Zhu, Z.; Su, T.; Krall, L.; Wu, X.-N.; Bock, R.; Wu, G.-Z.: Chloroplast precursor protein preClpD overaccumulation triggers multilevel reprogramming of gene expression and a heat shock-like response. Nature Communications 16 (1), 3777 (2025)
19.
Journal Article
Hsieh, Y. E.; Yang, S.-Y.; Liu, S.-L.; Wang, S.-W.; Wang, W.-L.; Tang, S.-L.; Yang, S.-H.: Microbial Community Shifts and Nitrogen Utilization in Peritidal Microbialites: The Role of Salinity and pH in Microbially Induced Carbonate Precipitation. Microbial Ecology 88 (1), 31 (2025)
20.
Journal Article
Kragler, F.; Bock, R.: The biology of grafting and its applications in studying information exchange between plants. Nature Plants (2025)
21.
Journal Article
Li, Y.; Yang, Z.; Li, K.; Yang, C.; Lei, L.; Li, J.; Zhou, J.; Hou, H.; Liu, H.; Xiong, X. et al.; Zhan, C.; Shen, S.; Liu, X.; Maher, M.; Ahmad, H.; Fernie, A. R.; Luo, J.: Two major rice loci determine rice-staple food populations differences in vitamin B1 deficiency levels. Science Bulletin 70 (7), pp. 1046 - 1050 (2025)
22.
Journal Article
Martins, A. O.; Silva, W. A.; Vallarino, J. G.; Omena-Garcia, R. P.; Osorio, S.; Fernie, A. R.; Nunes-Nesi, A.; Ribeiro, D. M.; Araújo, W. L.: Reductions of endogenous gibberellin content impact fruit development and modify tomato fruit metabolism during ripening. Plant Growth Regulation 105, pp. 497 - 514 (2025)
23.
Journal Article
Müller, C.; dos Anjos, L.; Freire, F.B.S.; Fernie, A. R.; Daloso, D.M.; Eller, C.B.; Merchant, A.: Metabolic network plasticity underpins Eucalyptus water use efficiency under drought. Environmental and Experimental Botany 232, 106127 (2025)
24.
Journal Article
Orsucci, M.; Sartori, K.; Lombardi, A.; Vanikiotis, T.; Ouvrard, P.; Wärdig, C.; Messer, M.; Köhler, C.; Sicard, A.: Sexual selection drives the speciation of lineages with contrasting mating systems. Current Biology (2025)
25.
Journal Article
Paajanen, P.; Tomkins, M.; Hoerbst, F.; Veevers, R.; Heeney, M.; Thomas, H. R.; Apelt, F.; Saplaoura, E.; Gupta, S.; Frank, M. et al.; Walther, D.; Faulkner, C.; Kehr, J.; Kragler, F.; Morris, R. J.: Re-analysis of mobile mRNA datasets raises questions about the extent of long-distance mRNA communication. Nature Plants (2025)
26.
Journal Article
Raza, A.; Anas, M.; Bhardwaj, S.; Mir, R.A.; Charagh, S.; Elahi, M.; Zhang, X.; Mir, R.R.; Weckwerth, W.; Fernie, A. R. et al.; Siddique, K.H.M.; Hu, Z.; Varshney, R.K.: Harnessing metabolomics for enhanced crop drought tolerance. The Crop Journal 13 (2), pp. 311 - 327 (2025)
27.
Journal Article
Seyis, M.; Razaghi-Moghadam, Z.; Nikoloski, Z.: Flux-sum coupling analysis of metabolic network models. PLOS Computational Biology 21 (4), e1012972 (2025)
28.
Journal Article
Sun, Y.; Bock, R.; Li, Z.: A hidden intrinsic ability of bicistronic expression based on a novel translation reinitiation mechanism in yeast. Nucleic Acids Research 53 (6), gkaf220 (2025)
29.
Journal Article
Sweetlove, L.; Ratcliffe, R.; Fernie, A. R.: Non-canonical plant metabolism. Nature Plants 11, pp. 696 - 708 (2025)
30.
Journal Article
Tiozon, R. J. N.; Zhang, C.; Kim, S.-R.; Liu, Q.; Fernie, A. R.; Sreenivasulu, N.: Unlocking the potential of wild rice to bring the missing nutrition to elite grains. Plant Communications, 101344 (2025)
31.
Journal Article
Tong, Q.; Wang, Y.; Feil, R.; Lunn, J. E.; Xu, X.; Wang, Y.; Hilbert-Masson, G.; Kong, J.; Chen, J.; Delrot, S. et al.; Beauvoit, B.; Liang, Z.; Gomès, E.; Gibon, Y.; Dai, Z.: Integrated analysis of metabolites and enzyme activities reveals the plasticity of central carbon metabolism in grape (Vitis vinifera cv. Cabernet Sauvignon) berries under carbon limitation. Horticulture Research 12 (4), uhae363 (2025)
32.
Journal Article
Wu, S.; Zhang, Y.; Luzarowska, U.; Yang, L.; Salem, M.A.; Thirumalaikumar , V. P.; Sade, N.; Galperin, V. E.; Fernie, A. R.; Sampathkumar, A. et al.; Bershtein, S.; Fusari, C. M.; Brotman, Y.: The homeostasis of β-alanine is key for Arabidopsis reproductive growth and development. The Plant Journal 122 (1), e70134 (2025)
33.
Journal Article
Zhao, J.; Shi, D.; Kaeufer, K.; Song, C.; Both, D.; Thier, A.L.; Cao, H.; Lassen, L.; Xu, X.; Hamamura, Y. et al.; Luzzietti, L.; Bennett, T.; Kaufmann, K.; Greb, T.: Strigolactones optimise plant water usage by modulating vessel formation. Nature Communications 16, 3854 (2025)
34.
Journal Article
Zhong, Y.; Chi, H.; Wu, T.; Fan, W.; Su, H.; Li, R.; Jiang, W.; Du, X.; Ma, Z.: Diversity of rhizosphere microbial communities in different rice varieties and their diverse adaptive responses to saline and alkaline stress. Frontiers in Microbiology Volume 16, 1537846. (2025)
35.
Journal Article
de Moura Ferreira, M. A.; Menezes de Almeida, E. L.; Batista da Silveira, W.; Nikoloski, Z.: Protein-constrained models pinpoints the role of underground metabolism in robustness of metabolic phenotypes. iScience 28 (3), 112126 (2025)
36.
Journal Article
Decros, G.; Fernie, A. R.: Spotlight on “Inhibition of mitochondrial energy production leads to reorganisation of the plant endomembrane system” by Wang et al. 2025. Journal of Mitochondria, Plastids and Endosymbiosis 3 (1), 2483404 (2025)
37.
Journal Article
Decros, G.; Zhang, Y.; Fernie, A. R.: Mitochondrial support of high rates of photosynthesis. Plant Communications 6 (3), 101285 (2025)
38.
Journal Article
Dronsella, B.; Orsi, E.; Schulz-Mirbach, H.; Benito-Vaquerizo, S.; Yilmaz, S.; Glatter, T.; Bar-Even, A.; Erb, T. J.; Claassens, N. J.: One-carbon fixation via the synthetic reductive glycine pathway exceeds yield of the Calvin cycle. Nature Microbiology 10, pp. 646 - 653 (2025)
39.
Journal Article
Hoepfner, L.; Nievergelt, A. P.; Matrino, F.; Scholz, M.; Foster, H.; Rodenfels, J.; von Appen, A.; Hippler, M.; Pigino, G.: Unwrapping the Ciliary Coat: High-Resolution Structure and Function of the Ciliary Glycocalyx. Advanced Science 12 (16), 2413355 (2025)
40.
Journal Article
Lehr, P.; Erban, A.; Hartwig, R.; Wimmer, M.; Kopka, J.; Zörb, C.: Guard Cell-Specific Metabolic Responses to Drought Stress in Maize. Journal of Environmental Quality 211 (2), e70049 (2025)
41.
Journal Article
Martinez-Seidel, F.; Suwanchaikasem, P.; Gentry-Torfer, D.; Rajarathinam, Y.; Ebert, A.; Erban, A.; Firmino, A.; Nie, S.; Leeming, M.; Williamson, N. et al.; Roessner, U.; Kopka, J.; Boughton, B. A.: Remodelled ribosomal populations synthesize a specific proteome in proliferating plant tissue during cold. Philosophical Transactions of the Royal Society of London, Series B: Biological Sciences 380 (1921), 20230384 (2025)
42.
Journal Article
Murillo, E.; Martinez-Seidel, F.; Atanasov, K. E.; Gentry-Torfer, D.; Firmino, A.; Augusto, A.; Erban, A.; Nie, S.; Leeming, M. G.; Suwanchaikasem, P. et al.; Boughton, B. A.; Williamson, N. A.; Roessner, U.; Kopka, J.; Alcázar , R.: Polyamines and flg22 reshape the ribosomal protein composition of actively translating ribosomes in plants. Plant Physiology and Biochemistry 220, 109585 (2025)
43.
Journal Article
Omena-Garcia, R.P.; Vallarino, J.G.; da Fonseca-Pereira, P.; Martins, A.O.; Brandão, P.M.; Ribeiro, D.M.; Osorio, S.; Fernie, A. R.; Araújo, W.L.; Nunes-Nesi, A.: Reciprocal grafting reveals the role of gibberellins in tomato root-shoot communication. Journal of Plant Physiology 306, 154444 (2025)
44.
Journal Article
Orsi, E.; Schulz-Mirbach, H.; Cotton, C. A. R.; Satanowski, A.; Petri, H. M.; Arnold, S. L.; Grabarczyk, N.; Verbakel, R.; Jensen, K. S.; Donati, S. et al.; Paczia, N.; Glatter, T.; Küffner, A. M.; Chotel, T.; Schillmüller, F.; De Maria, A.; He, H.; Lindner, S. N.; Noor, E.; Bar-Even, A.; Erb, T. J.; Nikel, P. I.: Computation-aided designs enable developing auxotrophic metabolic sensors for wide-range glyoxylate and glycolate detection. Nature Communications 16 (1), 2168 (2025)
45.
Journal Article
Pankaj, R.; Lima, R. B.; Figueiredo, D.D.: Hormonal regulation and crosstalk during early endosperm and seed coat development. Plant Reproduction 38 (1), 5 (2025)
46.
Journal Article
Peng, M.; Jaeger, K. E.; Lu, Y.; Fan, Z.; Zeng, W.; Sampathkumar, A.; Wigge, P. A.: Activation and memory of the heatshock response is mediated by Prion-like domains of sensory HSFs in Arabidopsis. Molecular Plant 18 (3), pp. 457 - 467 (2025)
47.
Journal Article
Qiu, Y.; Liu, L.; Yan, J.; Xiang, X.; Wang, S.; Luo, Y.; Deng, K.; Xu, J.; Jin, M.; Wu, X. et al.; Liwei Cheng; Zhou, Y.; Xie, W.; Liu, H.-J.; Fernie, A. R.; Hu, X.; Yan, J.: Precise engineering of gene expression by editing plasticity. Genome Biology 26, 51 (2025)
48.
Journal Article
Timm, S.; Florian, A.; Alseekh, S.; Jahnke, K.; Hagemann, M.; Fernie, A. R.; Bauwe, H.: Improved photorespiration has a major impact on the root metabolome of Arabidopsis. Physiologia Plantarum 177 (2), e70142 (2025)
49.
Journal Article
Wenk, S.; Rainaldi, V.; Schann, K.; He, H.; Bouzon, M.; Döring, V.; Lindner, S. N.; Bar-Even, A.: Evolution-assisted engineering of E. coli enables growth on formic acid at ambient CO2 via the Serine Threonine Cycle. Metabolic Engineering 88, pp. 14 - 24 (2025)
50.
Journal Article
Wenk, S.; Rainaldi, V.; Schann, K.; He, H.; Bouzon, M.; Döring, V.; Lindner, S. N.; Bar-Even, A.: Evolution-assisted engineering of E. coli enables growth on formic acid at ambient CO2 via the Serine Threonine Cycle. Metabolic Engineering 88, pp. 14 - 24 (2025)
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