Silicon nanoparticles partially mitigate cadmium stress in soybean with genotype- and dose-dependent responses

Silicon nanoparticles partially mitigate cadmium stress in soybean with genotype- and dose-dependent responsesSantos, J. S.¹*, Gaziola, S. A.¹, Zezzi Arruda, M. A.³, Kato, L. S.³, Pontes, M. S.², de Arruda, G. J.⁴, Fernandes, S. Y.⁴, and Azevedo, R. A.¹* Affiliations¹ Genetics Department, Escola Superior de Agricultura “Luiz de Queiroz” (ESALQ), University of São Paulo (USP), 13418-900, Piracicaba, SP, Brazil² Optics and Photonics Group, Institute of Physics, Federal University of Mato Grosso do Sul, 79070-900, Campo Grande, MS, Brazil³ Institute of Chemistry, University of Campinas (UNICAMP), P. O. Box 6154, 13083-970 Campinas, SP, Brazil⁴ Natural Resources Program (PGRN), Center for Natural Resources Studies, State University of Mato Grosso do Sul (UEMS), CP 350, 79804-970 Dourados, MS, Brazil Corresponding authors: Jaqueline S. Santos ([e-mail], ORCID: 0000-0002-9157-694X) and Ricardo A. Azevedo ([e-mail], ORCID: 0000-0001-7316-125X) Data files• Soybean_Cd_SiNPs_data_PCA_ANOVA.xlsx – Raw and processed biochemical and physiological data used for both multivariate PCA and two-way ANOVA/Tukey analyses. The dataset supported the generation of Figures 1, 3, 4, and 5 in the manuscript.• Morphological-data.xlsx – Raw morphological data and derived indices (H/L, RRI, STI, and visual chlorosis score) used for ANOVA/Tukey analyses and the morphological bar plots (Figure 2).• Pigments.xlsx – Leaf pigment content (chlorophyll a, chlorophyll b, total chlorophyll, carotenoids; μg·g⁻¹ FW) used to generate Table 1 of the manuscript. R scripts• PCA_Fig1.R – Performs Principal Component Analysis (PCA) on biochemical and physiological variables and generates the PCA biplot (Figure 1).• Morphological_parameters_Fig2.R – Runs two-way ANOVA and Tukey HSD for multiple morphological traits and produces the grouped bar plot (Figure 2).• Enzymatic_or_biochemical_barplot_template.R – General reusable script for biochemical or enzymatic parameters; performs two-way ANOVA, Tukey HSD, and creates bar and interaction plots (Figures 3–5). All scripts were written and tested in R (version 4.4.2) using standard packages (ggplot2, dplyr, factoextra, tidyr, car, multcompView, ggrepel, etc.).Comments within the scripts are in Portuguese for internal documentation, while variable names, function calls, and outputs are in English to ensure reproducibility. Funding: São Paulo Research Foundation (FAPESP Grant No. 2022/00045-3)License: CC BY 4.0 — Feel free to use and cite appropriately.Access: Files are currently under embargo and will be made publicly available upon article publication.