Location: Plant Physiology and Genetics Research2013 Annual Report
1a. Objectives (from AD-416):
To 1) construct a high-density marker map for 800 diverse Brassica napus accessions from a world collection being grown by the University of Idaho and the USDA-ARS; 2) deliver processed genomic sequence to the USDA-ARS Soybase for further processing and public release; and 3) provide additional genomic sequencing as needed to validate marker/gene assignments.
1b. Approach (from AD-416):
Leaf materials for DNA sequencing will be provided to Keygene company for DNA extraction, followed by genotyping-by-sequencing on the 800 accessions. Web based tools will be used to process sequence information, and deliver via internet to USDA-ARS Soybase for development of a public Brassica napus genomic sequence database. To assist genome wide association mapping strategies, Keygene will provide additional sequencing services as needed.
3. Progress Report:
Historically, one of the most productive oilseed species is Brassica napus (L.), existing as either a winter or spring annual crop, with diverse oil compositions. To increase the economic return on investment in use of B. napus as a source of biofuel, genetic improvement for oil yield and quality across diverse environments is needed. In that light, we are sequencing the genomes of a collection of 800 genetically diverse accessions (diversity panel) from the widest available germplasm worldwide. A main goal is genome sequencing of all lines in the diversity panel via collaboration with KeyGene Inc. This research relates to objective 1 of the inhouse project, “Develop genotyping-by-sequencing methods for diverse cotton, oilseed, and industrial crop germplasm, and map genetic markers for economically and agronomically important traits in these crops". This project is associated with oilseed production, and builds upon our parent project by performing genome sequencing of, and molecular marker identification within, a large Brassica napus diversity panel. The KeyGene, Inc. collaborator has received the isolated leaf material from all accessions in the diversity panel (sent to them from our Idaho collaborator), isolated the Deoxyribonucleic acid (DNA), and sequenced each genome for use in high-density single nucleotide polymorphism (SNP) genotyping. The sequence is now being processed, for soon submission to US Department of Agriculture Soybase for further processing and then entrance into the newly formed public Brassica napus genomic sequence database. Genome resequencing by KeyGene Inc is now underway to validate initial results before sending to the Brassica napus genomic sequence database.