Differential drought sensitivity of total and active wheat rhizosphere microbiome during rainfall reduction

Wheat Rhizosphere Microbiome
This repository contains the processed datasets, analysis scripts, intermediate files, and figures associated with the study: Differential drought sensitivity of total and active wheat rhizosphere microbiome during rainfall reduction
The project investigates how reduced rainfall influences the structure, activity, and functional responses of the wheat rhizosphere microbiome using an integrated multi-omics approach combining metagenomics, metatranscriptomics, and volatile organic compound (VOC) profiling.
Experimental Design
Two wheat genotypes with contrasting drought responses were evaluated under field conditions:
•    DS – Drought-sensitive genotype
•    DT – Drought-tolerant genotype
Rainfall was manipulated using four precipitation treatments:
•    100% rainfall (control)
•    75% rainfall
•    50% rainfall
•    25% rainfall
Differential analyses were performed by comparing each reduced-rainfall treatment to the 100% rainfall control.
Repository Structure
VOCs/
Contains all files associated with volatile organic compound (VOC) analyses.
Subfolders:
•    input_files/ – Processed input datasets used for VOC analyses.
•    intermediate_files/ – Intermediate files generated during data processing and statistical analyses.
•    output_files/ – Final analysis outputs, tables, and results.
•    R scripts – Scripts used for data processing, statistical analyses, and visualization.
Metagenomics/
Contains files associated with metagenomic analyses of the wheat rhizosphere microbiome.
Subfolders:
•    input_files/ – Taxonomic and functional abundance tables and associated metadata.
•    intermediate_files/ – Intermediate files generated during data processing and downstream analyses.
•    output_files/ – Final statistical outputs, differential abundance results, and summary tables.
•    R scripts – Scripts used for metagenomic analyses and figure generation.
Metatranscriptomics/
Contains files associated with metatranscriptomic analyses of the active wheat rhizosphere microbiome.
Subfolders:
•    input_files/ – Transcript abundance tables, annotations, and metadata.
•    intermediate_files/ – Intermediate files generated during normalization and differential expression analyses.
•    output_files/ – Final differential expression results, functional summaries, and statistical outputs.
•    R scripts – Scripts used for transcriptomic analyses and visualization.
Figures/
Contains all manuscript figures together with:
•    Input data used to generate figures.
•    Intermediate files.
•    Figure outputs.
•    R scripts required to reproduce all figures.