Sequencing the Cranberry Genome
Genetic Improvement of Fruits and Vegetables
2012 Annual Report
1a.Objectives (from AD-416):
To complete sequencing and assembly of the cranberry genome via bioinformatics, making the cranberry genome publically available and for joint ARS and Cooperator's research. Ultimately, assembly will inter alia assist in mapping, accession identification, marker-assisted selection, and gene discovery.
1b.Approach (from AD-416):
1. Generate a draft genome from the SOLiD sequence data already acquired. 2. Create a new genomic library from the same accession, using 500 and/or 250 kb inserts, for Illumina/Solexa sequencing to improve the draft assembly. 3. Assemble the genome using bioinformatics. 4. Identify gene markers in the cranberry genome through Simple Sequence Repeats (SSRs) in the genome and isolate genes of interest.
A draft genome of cranberry was assembled from collected data. Although useful for gene discovery and development of markers for mapping, the assembly had too many gaps for publication. Illumina libraries were made and sequenced. The genome was assembled and annotated. A manuscript for publication is in progress. Simple sequence repeat (SSR) markers generated from both methods were used to map the cranberry genome.