OAT SNP DEVELOPMENT & IDENTIFICATION OF LOCI AFFECTING KEY TRAITS IN N. AMER OAT GERMPLASM USING ASSOC GENETICS; MARKER DEV & KARYOTYPING
Small Grains and Potato Germplasm Research
2010 Annual Report
1a.Objectives (from AD-416)
The objective of this research will be to: i) develop a set of oat anueploid hybrids with the Ogle1040 and TAM O-301 parental lines, ii) use the oat anueploid hybrids to anchor newly developed single nucleotide polymorphism (SNP) and DArT markers onto oat chromosomes, and iii) determine the genomic translocations in the AFRI oat association mapping population.
1b.Approach (from AD-416)
(i) Putative oat aneuploids and aneuploid-hybrids will be screened using microspore analysis and C-banding (if necessary) to verify aneuploidy and to identify the monosome (if necessary);
(ii) DNA from nullisomics and aneuploid-hybrids will be extracted in conjunction with ARS researchers at Aberdeen as needed for hybridization to DArT arrays, and PCR-based SNP markers will be assayed using DNA from these aneuploids/aneuploid-hybrids to assign markers to syntenic groups;
(iii) AFRI oat mapping population lines will be karyotyped using C-banding and, if necessary, in situ hybridization with pAs120a (A-genome clone) and pAm1 (C-genome clone) probes, to determine the presence and identity of chromosomal rearrangements, particularly the 7C-17A race-specific intergenomic translocation.
(iv, supplemental) Novel SNP markers will be developed based on reduced-complexity genomic DNA sequence from allotetraploid wild oat (A. magna) and mapped to Ba 13-13 x #169 A. magna (4x) and Ogle 1040 x TAM 0-301 (6x) populations.
Documents Grant with Brigham Young University.
Chromosomes for the first 24 oat lines of the 685 line population were examined for abnormalities including translocations and rearrangements. Additionally, 38 oat hybrids were created between each of 19 oat monosomic lines (a line missing one chromosome of a pair i.e. instead of having a pair of chromosome 1 the line only has one chromosome.
1)and two different oat cultivars. These hybrids were then used to place the new genetic markers developed under the General Mills Trust agreement number 5366-2100-028-07T onto physical chromosome locations.
Communication and exchange of work has taken place via meetings, and conference calls, and laboratory visits.
The project is funded through a reimbursable agreement with USDA NIFA AFRI and North American Millers’ Association trust.