Plant MicroRNA Database (PMRD)

Plant MicroRNA Database (PMRD) aggregates plant microRNA (miRNA) sequence, structure, target and expression data to support analysis of miRNA-mediated gene regulation across plant species.

Key Features:

• Data Integration: Consolidates miRNA data from public databases, recent scientific literature, and proprietary in-house datasets.
• Extensive Data Collection: Contains 8,433 miRNAs across 121 plant species, including Arabidopsis thaliana, Oryza sativa, Populus trichocarpa, Glycine max, and major crops such as wheat, maize, sorghum, barley, cotton, medicago, and others.
• Sequence and Structural Data: Provides miRNA sequence information and associated secondary structure for individual entries.
• Target Predictions: Lists target genes with predicted interaction sites for each miRNA entry.
• Expression Profiles: Includes miRNA expression profiles derived from studies including local rice oxidative stress-related microarray data (LC Sciences miRPlants_10.1) and published microarray data for poplar, Arabidopsis, tomato, maize, and rice.
• Genome Browser: Supplies genomic localization of miRNA sequences within the genomic context of respective plant species.

Scientific Applications:

• miRNA functional analysis: Enables investigation of miRNA functions and their target genes in plants.
• Regulatory role studies: Supports research into miRNA-mediated regulation of plant growth, development, and stress responses.
• Comparative genomics: Facilitates cross-species comparative analyses of miRNA repertoires and conservation.
• Functional genomics: Assists identification of candidate miRNAs and targets for experimental validation in functional genomics studies.

Methodology:

Consolidation of miRNA data from public databases, literature, and in-house datasets; provision of sequence information and secondary structures; prediction and listing of target genes with interaction sites; incorporation of expression profiles from microarray studies (including LC Sciences miRPlants_10.1 and published microarray data for poplar, Arabidopsis, tomato, maize, and rice); and genomic localization via a genome browser.