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ARS Home » Midwest Area » Ames, Iowa » Corn Insects and Crop Genetics Research » Research » Research Project #433595

Research Project: Maize Pan-genomic Tools and Resources to Explore the Diversity of Maize

Location: Corn Insects and Crop Genetics Research

Project Number: 5030-21000-068-05-S
Project Type: Non-Assistance Cooperative Agreement

Start Date: Sep 1, 2018
End Date: Aug 31, 2019

Objective:
To use the upcoming maize genome assemblies from the maize nested association mapping (NAM) population founders along with other existing maize genome assemblies to curate the maize pan-genome and make maize assemblies, annotations, and metadata assessable to the maize research community through MaizeGDB. This work includes the creation, implementation, and updating of pan-genomic tools and resources incorporating representative cultivars of Zea mays, its wild relatives, and other related grasses.

Approach:
The development and maintenance of a maize pan-genome will be done in collaboration with the maize community. Curation of the maize pan-genome and the upcoming genomes of maize and its wild relatives will include issuing genome and gene IDs in accordance with the Maize Nomenclature Committee, collecting statistics and metadata for each genome, helping sequencing labs to upload their genomes to NCBI and MaizeGDB, and performing comparative genomics analyses. Existing pan-genomic tools and resources will be updated to include data from the NAM founders. These tools/resources include the MaizeGDB genome and annotation pages, a public RNA expression visualization tool, genome browser tracks, and BLAST targets. Together, these data will provide an important comparative genomics resource for MaizeGDB stakeholders.