Activities 5 - 7
Activity 5: QTL analysis
The molecular marker data and quantitative phenotypic data of all traits will be combined for QTL analysis using MapQTL® 5.0 software (Van Ooijen 2005). QTL positions of traits will be compared to the major loci we have previously identified on Pop-DG and to fruit softening candidate genes mapped to both Pop-DG and T×E linkage maps.
Activity 6: Development of breeder-friendly markers for MAB
It is expected that breeders will use the high throughput SNP genotyping such as the Illumina Golden Gate Assay for MAS when enough markers are available to make this approach cost effective. A medium throughput molecular marker assay based on simple PCR and ABI sequencer or Li-Cor will be developed for a few fruit quality traits. This platform will encourage the use of these molecular predictive tools in peach and almond breeding.
Activity 7. Entry of sequence data and SNP information into public databases
Sequence data will be entered in the NCBI database by the bioinformatics group at UC Davis Genome Center. After evaluation, information on useful SNPs, QTLs, and generated linkage maps will be deposited to the GDR database by the project personnel.