Department of Horticulture, Washington State University, Pullman, WA 99164-6414, USA.
Department of Plant and Environmental Sciences, Clemson University, Clemson, SC 29634-0310, USA.
Nucleic Acids Res. 2019 Jan 8;47(D1):D1137-D1145. doi: 10.1093/nar/gky1000.
The Genome Database for Rosaceae (GDR, https://www.rosaceae.org) is an integrated web-based community database resource providing access to publicly available genomics, genetics and breeding data and data-mining tools to facilitate basic, translational and applied research in Rosaceae. The volume of data in GDR has increased greatly over the last 5 years. The GDR now houses multiple versions of whole genome assembly and annotation data from 14 species, made available by recent advances in sequencing technology. Annotated and searchable reference transcriptomes, RefTrans, combining peer-reviewed published RNA-Seq as well as EST datasets, are newly available for major crop species. Significantly more quantitative trait loci, genetic maps and markers are available in MapViewer, a new visualization tool that better integrates with other pages in GDR. Pathways can be accessed through the new GDR Cyc Pathways databases, and synteny among the newest genome assemblies from eight species can be viewed through the new synteny browser, SynView. Collated single-nucleotide polymorphism diversity data and phenotypic data from publicly available breeding datasets are integrated with other relevant data. Also, the new Breeding Information Management System allows breeders to upload, manage and analyze their private breeding data within the secure GDR server with an option to release data publicly.
蔷薇科基因组数据库（GDR，https://www.rosaceae.org）是一个基于网络的综合社区数据库资源，提供了对公共基因组学、遗传学和育种数据的访问，并提供了数据挖掘工具，以促进蔷薇科的基础、转化和应用研究。在过去的 5 年中，GDR 中的数据量大大增加。现在，GDR 拥有 14 个物种的多个版本的全基因组组装和注释数据，这些数据是由最近测序技术的进步提供的。新的参考转录组 RefTrans 提供了经过同行评审的发表的 RNA-Seq 和 EST 数据集的注释和可搜索的参考转录组，这些数据集可用于主要作物物种。MapViewer 中提供了更多的数量性状位点、遗传图谱和标记，这是一个新的可视化工具，与 GDR 中的其他页面更好地集成。通过新的 GDR Cyc 途径数据库可以访问途径，通过新的同线性浏览器 SynView 可以查看来自八个物种的最新基因组组装之间的同线性。整合了来自公共育种数据集的经整理的单核苷酸多态性多样性数据和表型数据，以及其他相关数据。此外，新的育种信息管理系统允许育种者在安全的 GDR 服务器中上传、管理和分析他们的私人育种数据，并可以选择公开数据。
