PPGR: a comprehensive perennial plant genomes and regulation database

Area of Science:

• Plant Genomics
• Bioinformatics
• Functional Genomics

Background:

• Perennial woody plants possess significant ecological roles and unique biological traits.
• Genomic and functional studies of these plants are advancing, yet data integration remains a challenge.
• A comprehensive platform for perennial plant data is lacking.

Purpose of the Study:

• To introduce PPGR (Resource for Perennial Plant Genomes and Regulation), a novel platform for perennial plant data.
• To consolidate genomic, gene regulation, and functional data for enhanced analysis.
• To facilitate research on key perennial plant processes like wood production and dormancy.

Main Methods:

• Data collection and integration from diverse sources including experimental data, literature, public databases, and genomic predictions.
• Analysis and visualization of genomic, gene regulation, and functional data for 60 perennial plant species.
• Development of multi-omics search and analysis tools within the PPGR platform.

Main Results:

• PPGR hosts data for 60 species, including 847 million protein-protein/transcription factor-target interactions and 9016 transcriptome samples.
• Focus on genes regulating wood production, seasonal dormancy, terpene biosynthesis, and leaf senescence.
• Incorporation of multi-omics tools for data exploration and application.

Conclusions:

• PPGR provides a comprehensive, high-quality resource for perennial plant research.
• The platform aids in unraveling gene functions and understanding regulatory processes.
• PPGR is a valuable tool for advancing perennial plant science and its applications.