The Genome Database for Rosaceae (GDR): year 10 update.
Sook Jung1, Stephen P Ficklin, Taein Lee
1Department of Horticulture, Washington State University, Pullman, WA 99164-6414, USA, Department of Genetics and Biochemistry, Clemson University, Clemson, SC 29634, USA, Boyce Thompson Institute for Plant Research, Tower Road, Ithaca, NY 14853, USA, Department of Computer Science, Saginaw Valley State University, University Center, MI 48710, USA and Horticultural Sciences Department, University of Florida, Gainesville, FL 32611, USA.
The enhanced Genome Database for Rosaceae (GDR) now offers comprehensive genomic, genetic, and breeding data for apple, peach, and strawberry. This resource aids researchers and breeders with advanced data mining and decision-making tools.
Area of Science:
- Genomics
- Plant Science
- Bioinformatics
Background:
- The Genome Database for Rosaceae (GDR) is a vital resource for Rosaceae research.
- Previous versions lacked comprehensive data integration and advanced functionalities.
Purpose of the Study:
- To enhance the GDR with new genomic, genetic, and breeding data.
- To improve data accessibility, mining, and usability for researchers and breeders.
Main Methods:
- Integration of whole genome sequences (apple, peach, strawberry) with diverse annotations.
- Development of new pathway databases (FragariaCyc, AppleCyc, PeachCyc).
- Implementation of visualization tools (GBrowse, GBrowse_Syn) and improved search functionalities.
Main Results:
- Availability of annotated whole genome sequences with extensive data layers.
- New expressed sequence tag unigene sets and curated trait loci data.
- Inclusion of phenotype and genotype data from breeding and diversity projects.
Conclusions:
- The enhanced GDR provides a significantly improved, integrated resource for Rosaceae genomics, genetics, and breeding.
- Advanced tools facilitate data exploration, comparative genomics, and informed breeding decisions.
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