Plant genomic resources at National Genomics Data Center: assisting in data-driven breeding applications

Abstract

Genomic data serve as an invaluable resource for unraveling the intricacies of the higher plant systems, including the constituent elements within and among species. Through various efforts in genomic data archiving, integrative analysis and value-added curation, the National Genomics Data Center (NGDC), which is a part of the China National Center for Bioinformation (CNCB), has successfully established and currently maintains a vast amount of database resources. This dedicated initiative of the NGDC facilitates a data-rich ecosystem that greatly strengthens and supports genomic research efforts. Here, we present a comprehensive overview of central repositories dedicated to archiving, presenting, and sharing plant omics data, introduce knowledgebases focused on variants or gene-based functional insights, highlight species-specific multiple omics database resources, and briefly review the online application tools. We intend that this review can be used as a guide map for plant researchers wishing to select effective data resources from the NGDC for their specific areas of study.

Supplementary information: The online version contains supplementary material available at 10.1007/s42994-023-00134-4.

Keywords: Data integration; Data repositories; Knowledgebase; Plant genomics; Plant-omics data.

Fig. 1

Overview of database resources and application tools for plants in the CNCB-NGDC

Fig. 2

Screenshots of BIG-Search, including A search-bar and keyword input (e.g., rice), B summary of search results C datasets with of hyperlink of search results (e.g., GSA)