Developing the Genomic Infrastructure for Breeding Improved Black Raspberries (Oregon State Univ)
Horticultural Crops Research
2012 Annual Report
1a.Objectives (from AD-416):
Studying genotype by environment interaction on specific traits of interest in crosses involving diverse wild black raspberry germplasm. Gain a better understanding of consumer preferences for market expansion.
1b.Approach (from AD-416):
Studying genotype by environment interaction on specific traits of interest in crosses involving diverse wild germplasm. Mapping populations that segregate for a variety of traits have been generated using germplasm from the edges of the species native range. The populations will be planted and evaluated in New York, North Carolina and Oregon. Analyses of fruit chemistry will be made to examine total anthocyanins and phenolics. Evaluate transferability of SSR markers developed in black raspberry to red raspberry. SSR markers mined from black raspberry EST and genomic sequences will be evaluated for amplification and polymorphism in red raspberry by capillary electrophoresis. Polymorphism will be determined and added to linkage maps for those populations by UK collaborators. Documents Grant with Oregon State University.
This research was conducted in support of objective 3A of the parent project. Black raspberries (Rubus occidentalis) are well known for their health-promoting properties. Despite this, they remain a minor crop because they are difficult to grow and are primarily processed as opposed to a fresh market crop. The overall goal of the project is to develop genetic information to hasten the development of the superior black raspberry cultivars that will fuel industry growth. In addition to being horticulturally superior, new berry cultivars will need to possess quality traits that invoke greater consumer demand if this industry expansion is to occur.
Towards this goal, two mapping populations of black raspberry were developed and propagated. They were planted at 11 locations (Oregon [5 sites], Washington , North Carolina , New York  and Ohio ) this past spring. We were responsible for all propagation and organization and planting the Oregon and Washington sites. The plants will be grown for 2 years until they fruit. The plants will be phenotyped with vegetative traits being assessed beginning at the end of this season through the trials completion and reproductive traits related to flowering and fruiting being evaluated as soon as we have mature floricanes.
Transcriptome sequences were generated from leaves, stems, canes, green berries, red berries, and ripe berries of ‘Jewel’. The number of short sequence reads ranged from 96.7 Mbp in canes to 141.45 Mbp in green berries and was ~ 704 Mbp in total. These RNA sequences will be assembled next and then used to develop additional markers to populate the black raspberry linkage map.