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PARPAL: PARalog Protein redistribution using Abundance and Localization in yeast database
Brittany M Greco1,2, Gerardo Zapata3,4, Rohan Dandage1,2
1Department of Biology, Concordia University, 7141 Sherbrooke St W, Montreal, QC, Canada H4B 1R6.
G3 (Bethesda, Md.)
|June 28, 2025
Summary
Whole-genome duplication (WGD) drives gene evolution. The PARPAL database tracks protein redistribution after paralog deletion in yeast, revealing insights into gene retention mechanisms and paralog evolution.
Area of Science:
- Evolutionary Biology
- Genomics
- Cell Biology
Background:
- Whole-genome duplication (WGD) is a significant evolutionary force.
- Understanding the retention and evolution of genes duplicated via WGD is crucial.
- Protein redistribution offers insights into gene retention mechanisms.
Purpose of the Study:
- To develop a resource for studying paralog protein redistribution after WGD.
- To analyze changes in protein abundance and subcellular localization in response to paralog deletion.
- To provide a quantitative measure of gene retention and evolution.
Main Methods:
- High-content screening of protein redistribution in yeast.
- Deep learning neural network analysis of protein localization and abundance.
- Interrogation of 82 paralog pairs across two genetic backgrounds in Saccharomyces cerevisiae.
Main Results:
- The PARPAL database catalogs redistribution data for 164 proteins.
- Observed dependent and compensatory redistribution patterns between paralogs (e.g., Skn7-Hms2, Cue1-Cue4).
- Data links to studies on gene interactions and protein abundance.
Conclusions:
- PARPAL serves as a valuable resource for yeast genetics and evolutionary studies.
- The database facilitates research into paralog retention and evolution.
- Enables investigation of protein dynamics and paralog interactions in other organisms.
