Publications of L. P. de Souza

Naake, T., Zhu, F., Alseekh, S., Scossa, F., de Souza, L. P., Borghi, M., Brotman, Y., Mori, T., Nakabayashi, R., Tohge, T. & Fernie, A. R. Genome-wide association studies identify loci controlling specialized seed metabolites in Arabidopsis. Plant Physiology 194, 1705–1721 (2024).

Zhang, Y. J., Wiese, L., Fang, H., Alseekh, S., de Souza, L. P., Scossa, F., Molloy, J., Christmann, M. & Fernie, A. R. Synthetic biology identifies the minimal gene set required for Paclitaxel biosynthesis in a plant chassis. Molecular Plant 16, 1951–1961 (2023).

von Bismarck, T., Wendering, P., de Souza, L. P., Ruß, J., Strandberg, L., Heyneke, E., Walker, B. J., Schöttler, M. A., Fernie, A. R., Nikoloski, Z. & Armbruster, U. Growth in fluctuating light buffers plants against photorespiratory perturbations. Nature Communications 14, (2023).

de Souza, L. P., Bitocchi, E., Papa, R., Tohge, T. & Fernie, A. R. Decreased metabolic diversity in common beans associated with domestication revealed by untargeted metabolomics, information theory, and molecular networking. The Plant Journal 115, 1021–1036 (2023).

Chialva, M., Patono, D. L., de Souza, L. P., Novero, M., Vercellino, S., Maghrebi, M., Morgante, M., Lovisolo, C., Vigani, G., Fernie, A. R., Fiorilli, V., Lanfranco, L. & Bonfante, P. The mycorrhizal root-shoot axis elicits Coffea arabica growth under low phosphate conditions. New Phytologist 239, 271–285 (2023).

de Souza, L. P., Naake, T. & Fernie, A. R. Computational approaches that aid annotation in metabolomics. Trends in Plant Science 27, 1077–1078 (2022).

Borghi, M., de Souza, L. P., Tohge, T., Mi, J. N., Melandri, G., Proost, S., Martins, M. C. M., Al-Babili, S., Bouwmeester, H. J. & Fernie, A. R. High-energy-level metabolism and transport occur at the transition from closed to open flowers. Plant Physiology 190, 319–339 (2022).

Martinez Rivas, F. J., Blanco-Portales, R., Molina-Hidalgo, F. J., Caballero, J. L., 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, (2022).

Simeoni, F., Skirycz, A., Simoni, L., Castorina, G., de Souza, L. P., Fernie, A. R., Alseekh, S., Giavalisco, P., Conti, L., Tonelli, C. & Galbiati, M. The AtMYB60 transcription factor regulates stomatal opening by modulating oxylipin synthesis in guard cells. Scientific Reports 12, (2022).

Candido-Sobrinho, S., Lima, V., Freire, F., de Souza, L. P., Gago, J., Fernie, A. R. & Daloso, D. M. Metabolism-mediated mechanisms underpin the differential stomatal speediness regulation among ferns and angiosperms. Plant, Cell and Environment 45, 296–311 (2021).

Machado, M., Vaz, M. G. M. V., Bromke, M. A., Rosa, R. M., Covell, L., de Souza, L. P., Rocha, D. I., Martins, M. A., Araújo, W. L., Szymański, J. & Nunes-Nesi, A. Metabolic stability of freshwater Nitzschia palea strains under silicon stress associated with triacylglycerol accumulation. Algal Research 60, (2021).

Wang, J. Y., Alseekh, S., Xiao, T., Ablazov, A., de Souza, L. P., Fiorilli, V., Anggarani, M., Lin, P.-Y., Votta, C., Novero, M., Jamil, M., Lanfranco, L., Hsing, Y.-I. C., Blilou, I., Fernie, A. & Al-Babili, S. Multi-omics approaches explain the growth-promoting effect of the apocarotenoid growth regulator zaxinone in rice. Communications Biology 4, (2021).

Alseekh, S., Aharoni, A., Brotman, Y., Contrepois, K., D’Auria, J., Ewald, J., C. Ewald, J., Fraser, P. D., Giavalisco, P., Hall, R. D., 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, 747–756 (2021).

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, 733–746 (2021).

Zhang, Y. J., 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., 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, 1104–1118 (2021).

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, (2021).

Luzarowski, M., Vicente, R., Kiselev, A., Wagner, M., Schlossarek, D., Erban, A., de Souza, L. P., Childs, D., Wojciechowska, I., Luzarowska, U., 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, (2021).

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, (2021).

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. & Nunes-Nesi, A. Changes in intracellular NAD status affect stomatal development in an abscisic acid-dependent manner. The Plant Journal (2020). doi:10.1111/tpj.15000

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, (2020).