Pathogen-induced red pigmentation reveals floral defense in Asteraceae
Abstract
This Zenodo record contains supplementary datasets and analysis outputs supporting the study “Pathogen-induced red pigmentation reveals floral defense in Asteraceae.” The deposit includes experimental source data, statistical test results, RNA-seq summaries, and processed LC–MS/MS metabolomics data for mock-inoculated and Botrytis cinerea-inoculated white Chrysanthemum morifolium petals. Software and workflows ProteoWizard (MSConvert) v3.0.24207 MZmine v4.4.3 GNPS2 Feature-Based Molecular Networking SIRIUS v6.1 FBMNStats, as described in Pakkir Shah et al. (2025) Repository contents mzmine_output/ white_flowers.mzmine: MZmine project containing processing parameters. white_flowers.mzmwizard: MZmine wizard configuration. white_flowers_iimn_gnps_quant.csv: Feature quantification table containing peak intensities per sample; each row represents an m/z–retention time feature. white_flowers_iimn_gnps.mgf: MS/MS spectra exported for GNPS2 molecular networking. white_flowers_iimn_gnps_edges_msannotation.csv: Ion-identity edge table linking related ion features. GNPS2_Network/ gnps_fbmn_network: Cytoscape-compatible feature-based molecular network export. metadata_supernatant_and_standards.csv: Sample-group and reference-standard metadata used for GNPS2 analysis. SIRIUS_output/ sirius_annotation_white_flowers_mock_vs_infected.sirius: Complete SIRIUS project. formula_identifications.tsv: Predicted molecular formulas. structure_identifications.tsv: Candidate molecular-structure annotations. denovo_structure_identifications.tsv: De novo structure predictions. canopus_formula_summary.tsv: CANOPUS compound-class predictions at the formula level. canopus_structure_summary.tsv: CANOPUS compound-class predictions at the structure level. spectral_matches.tsv: Spectral-library matching results. spectral_matches_analog.tsv: Analog spectral-matching results. FBMNstat/ fbmnstat_results_white_flowers.xlsx: Statistical comparisons of metabolite-feature abundances between mock-inoculated and infected samples. Supplementary data tables/ Supplementary Table S1: Differentially expressed genes in chrysanthemum cultivars, including log₂ fold changes, test statistics and adjusted P-values. Supplementary Table S2: Expression analysis of selected flavonoid and anthocyanin biosynthesis, transport and regulatory genes. Supplementary Table S3: RNA-seq sample information, read counts and alignment statistics. Supplementary Table S4: Metabolite-feature overlap among ‘Bride’, ‘72507’ and ‘Aristotle’, including overlap counts, feature lists and annotations. Supplementary Table S5: Raw anthocyanin concentrations and corresponding ANOVA and Tukey’s HSD results for ResQ colour variants. Supplementary Table S6: Raw disease-incidence data, model estimates and statistical comparisons for ResQ colour variants. Supplementary Table S7: Raw disease-incidence data, model estimates and statistical comparisons for the supplementation experiment on white ResQ petals. Supplementary Table S8: Raw disease-incidence data, model estimates and statistical comparisons for wild and cultivated daisies and sunflowers.
