This repository contains scripts, meta data tables, and environments used in the study:
"Global profiling of polyketide synthases in
facultative multicellular eukaryotes"
by Guenther et al., 2025 (doi).
The study investigates the physiological, transcriptomic, and metabolomic consequences of a phosphopantetheinyl transferase (DiSfp) knockout in Dictyostelium discoideum, revealing the role of polyketide synthases (PKSs) in amoeba development and metabolism.
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00_env/
Environment files for reproducibility of R analyses. -
01_transcriptomics/
Analysis of RNA-seq data across developmental stages. Includes differential gene expression and GO term enrichment. -
02_metabolomics/
Untargeted LC-MS/MS processing using MZmine, SIRIUS, and GNPS. Includes annotation workflows and network visualization. -
03_image_analysis/
Automated image analysis pipelines (Cellpose + quantification) for macropinocytosis, chemotaxis, and growth assays. -
04_bioassays/
Additional bioassays (spore viability, development, metabolite EIC analysis).
Each subfolder contains its own README.md with usage notes, environment specifications, and documentation of the analysis workflow.
These materials are intended to support reproducibility and provide insight into the data processing steps used in the study.
If you use these materials, please cite the corresponding publication.