• A Mesoamerican bean accession, UI111, is available at the Data Store and for viewing in a genome browser. It can also be compared to other genomes through the Genome Context Viewer, e.g. in this region where the assembly has an inversion relative to the assembly for the Andean G19883 line (but is structurally consistent with corresponding soybean regions). The UI111 line is a pinto-type bean that has been used in numerous breeding projects and trait-mapping studies.
  • A new tool for whole-genome visualization of resequencing or SNP array data, Genotype Comparison Visualization Tool (GCViT), is available for chickpea and common bean. GCViT is useful for comparing two or more accessions, to visually identify regions of similarity and difference across the genome. It extracts information from a VCF file and compares between two or more lines within that VCF file. One can, for example, plot the differences between progeny and parents to identify which regions are inherited from which parents. See more information about GCViT here: a video tutorial, and at GitHub and SoyBase.
  • Several published GWAS datasets are available through a cross-species comparative viewer adapted from the Baxter Lab's ZBrowse. The viewer makes use of comparative genomic services provided by the Genome Context Viewer (GCV) and is intended to facilitate nomination of candidate genes through correlation of variation in orthologous genes with effects on corresponding phenotypes. An example for seed weight in cowpea and soybean based on published data from Lo et al. (2019) and curated data from Soybase is here. Further information about how to get started with ZBrowse is here (and in the interactive tour accessible via "Start tour" link on the main user interface).