Chili Pepper Transcriptome Under Phytophthora Infection Across Tissues and Time

RNA sequencing data from a study by Dennis Nicuh Lozada, last updated in March 2026, profiling gene expression in chili pepper (Capsicum annuum) under infection by the pathogen Phytophthora capsici. The dataset contains results from 149,531 differentially expressed genes (DEGs) identified across leaf, stem, and root tissues from resistant and susceptible varieties at different post-inoculation times. Analysis revealed shared genetic resistance mechanisms and expression patterns related to defense response and metabolism.

Use Cases

• Identify candidate genes for disease resistance based on differential expression patterns across tissues and time points.
• Analyze shared genetic defense mechanisms based on the 149,531 differentially expressed genes identified in the study.
• Study tissue-specific immune responses based on the higher number of DEGs observed in roots compared to stems and leaves.
• Investigate the relationship between defense response and metabolic pathways based on network analyses linking fungal defense to carbohydrate metabolism and ADP binding.

Strengths

• Contains results from 149,531 differentially expressed genes (DEGs) identified across 39 different comparisons.
• Provides multi-tissue analysis, covering leaf, stem, and root responses from both resistant (CM-334) and susceptible (Early Jalapeño) varieties.
• Includes temporal dynamics, with gene expression analyzed at multiple times post-inoculation, showing a decrease in DEGs by 72 hours.

Limitations

• Column-level documentation is absent; field semantics must be inferred after download.
• Row count is unknown, which may limit suitability assessment.
• Data is provided in a DOCX file format (1.4 MB), which may require extraction and conversion for computational analysis.

Provenance

Source

Dennis Nicuh Lozada via figshare

Collection Method

RNA sequencing (RNA-seq) performed on chili pepper tissues from resistant and susceptible varieties infected by Phytophthora capsici.

Freshness

Last updated 2026-03-18 07:42:38