Wheat Genome

Wheat Genome provides an integrated bioinformatics resource for analysis, visualization, and retrieval of bread wheat (Triticum aestivum) genomic data to support genome assembly, annotation, genetic mapping, and SNP analysis.

Key Features:

• Integrated Database Resource: WheatGenome.info aggregates multiple wheat genomic datasets and web-based applications into a single database resource.
• GBrowse2-Based Genome Viewer: A GBrowse2-based genome viewer enables visualization of individual chromosome arms and published assembly and annotation components for bread wheat.
• BLAST Search Portal: An integrated BLAST portal provides sequence similarity searches against wheat genomic data.
• TAGdb for Second-Generation Genome Data: TAGdb enables searching of wheat second-generation (high-throughput) genome sequence data.
• Wheat autoSNPdb: autoSNPdb catalogs single nucleotide polymorphisms (SNPs) in wheat to support analysis of genetic variation and marker development.
• Genetic Maps via CMap and CMap3D: Links to CMap and CMap3D provide access to wheat genetic maps and visualization of linkage relationships.
• Wheat Genome Wiki: A wiki supports community curation and communication among researchers engaged in wheat genome sequencing activities.
• External Resource Links: Connections to additional wheat genome resources hosted by other research organizations extend the available data and tools.

Scientific Applications:

• Genome assembly and annotation: Support for assembly and annotation of the large, complex bread wheat genome (Triticum aestivum).
• Sequence similarity and homology inference: BLAST searches facilitate identification of homologous sequences and functional annotation.
• SNP discovery and marker-assisted selection: autoSNPdb enables analysis of SNP variation for marker development and breeding applications.
• Integration of second-generation sequencing data: TAGdb supports incorporation and analysis of high-throughput sequencing datasets.
• Genetic mapping and breeding support: CMap/CMap3D genetic maps assist exploration of linkage relationships relevant to breeding programs.
• Community curation and data sharing: The wiki and external resource links facilitate researcher communication and dataset integration.

Methodology:

Integration of multiple web-based applications into a cohesive database resource using GBrowse2 for genome visualization, BLAST for sequence similarity searches, TAGdb for second-generation sequence queries, autoSNPdb for SNP data, and CMap/CMap3D for genetic map access.