Articles
Resources for peach genomics, genetics and breeding research in GDR, the Genome Database for Rosaceae
Article number
1352_20
Pages
149 – 156
Language
English
Abstract
The Genome Database for Rosaceae (GDR, https://www.rosaceae.org
) strives to provide a one-stop online resource that facilitates basic, translational and applied research for rosaceous crops including peach.
Integrated data include curated genome sequences, genes, transcripts, orthologs, genetic maps, markers, SNP array data, QTL, traits, germplasm, and publications, made accessible to browse, query and download through easy-to-use web interfaces and tools.
Whole genome assembly data, along with functional annotation provided by the GDR team, are available for the two versions of the reference peach genome and for Chinese Cling genome through search pages, BLAST, and JBrowse.
A new tool, MegaSearch, allows more powerful and flexible searches for all data types in GDR, enabling users to build data sets using various categories and customize data fields to view and download.
Conserved syntenic regions across rosaceous genomes, identified using MCScanX, are accessible through the synteny viewer, facilitating data transfer across species.
The new haplotype block search page allows users to query, view and download haplotype data.
The Breeding Information Management System (BIMS) provides a secure and comprehensive management system for breeders.
In this report, we will highlight new features and future development as well as provide an overview of existing resources in GDR for peach research.
) strives to provide a one-stop online resource that facilitates basic, translational and applied research for rosaceous crops including peach.
Integrated data include curated genome sequences, genes, transcripts, orthologs, genetic maps, markers, SNP array data, QTL, traits, germplasm, and publications, made accessible to browse, query and download through easy-to-use web interfaces and tools.
Whole genome assembly data, along with functional annotation provided by the GDR team, are available for the two versions of the reference peach genome and for Chinese Cling genome through search pages, BLAST, and JBrowse.
A new tool, MegaSearch, allows more powerful and flexible searches for all data types in GDR, enabling users to build data sets using various categories and customize data fields to view and download.
Conserved syntenic regions across rosaceous genomes, identified using MCScanX, are accessible through the synteny viewer, facilitating data transfer across species.
The new haplotype block search page allows users to query, view and download haplotype data.
The Breeding Information Management System (BIMS) provides a secure and comprehensive management system for breeders.
In this report, we will highlight new features and future development as well as provide an overview of existing resources in GDR for peach research.
Publication
Authors
S. Jung, T. Lee, C.-H. Cheng, P. Zheng, K. Bubble, J. Crabb, K. Gasic, J. Yu, J. Humann, H. Hough, D. Main
Keywords
Prunus persica, data management, synteny, crop improvement, curation
Groups involved
Online Articles (87)