HADES Exp32 dataset: Arabidopsis root architecture and coumarin-associated fluorescence dynamics across coumarin biosynthesis genotypes under iron deficiency

HADES Exp32 is a longitudinal Arabidopsis thaliana imaging dataset generated using the HADES automated phenotyping platform to examine root development and coumarin-associated fluorescence across genotypes differing in coumarin biosynthesis. The experiment comprises wild-type Col-0 and the f6′h1, cyp82c4, and s8h coumarin-biosynthesis mutants grown under iron-deficient conditions.

Seedlings were cultivated in vitro on Fe-deficient Hoagland medium lacking Fe(III)-EDTA and solidified with 0.8% Gelrite. Longitudinal imaging was performed using the HADES RootCam system, with repeated transmitted-light imaging providing morphological records of plant and root development and fluorescence acquisitions capturing endogenous fluorescence associated with fluorescent coumarin metabolites. The companion HADES methods study describes daily RootCam imaging of these genotypes under the same experimental conditions and uses the experiment to demonstrate longitudinal root phenotyping.

The public dataset preserves the acquisition and vendor-analysis record of the experiment. It contains RootCam transmitted-light and fluorescence acquisition records together with corresponding PlantScreen Data Analyzer outputs where generated. The release additionally provides reviewed experimental metadata, package-scoped variable definitions, manifests, checksums, provenance and validation information. PlantScreen analysis products are retained as vendor-generated components of the exported experiment and should not be confused with the custom HADES analysis pipelines used for the biological analyses in the companion methods study. The Data Descriptor release specifically excludes the large downstream segmentation, fluorescence-alignment and figure-generation result trees, which are reproducible from the released acquisition data using separately archived analysis code.

The fluorescence acquisitions provide a basis for studying genotype- and time-dependent fluorescence associated with coumarin metabolism. Interpretation should account for the fact that the RootCam fluorescence signal does not measure the complete coumarin pool: intrinsically fluorescent compounds such as scopoletin, scopolin and fraxin can contribute to the signal, whereas non-fluorescent coumarins such as fraxetin and sideretin are not directly detected by this imaging approach. The measurements should therefore be interpreted as coumarin-associated fluorescence, rather than as direct quantitative measurements of total coumarin abundance.

The dataset can be reused for development and benchmarking of longitudinal plant- and root-image analysis methods, analysis of genotype-dependent developmental trajectories, fluorescence-image analysis, multimodal data integration, and independent reanalysis of coumarin-associated fluorescence patterns from the original HADES acquisition records.

This dataset is one of the experiment-level records in the HADES reference data release being prepared for the Data Descriptor A HADES reference release for longitudinal multimodal root phenotyping. Exp32 also provides the acquisition data underlying the root-architecture and coumarin-associated fluorescence demonstrations in the companion methods study, HADES: high-throughput end-to-end automation of multimodal phenotyping for root-microbe interactions. The experimental scope represented in the public Exp32 release corresponds to the full Exp32 biological study; unlike Exp68, there is no additional experimental condition set that needs to be distinguished from a methods-paper subset. The methods study uses these data for Figure 2 and Figure 5.