The 118 PS26 BC8 contigs were further analyzed by aligning the corre sponding PS26 and BC8 contigs with each other, result ing in 61 inter genotype contigs with no mismatches that were aligned. The average overlapping regions of the 61 inter genotype contigs was 241 bp with an average number of 28 sequence reads. The remaining PS26 BC8 contigs, while Inhibitors,Modulators,Libraries initially identified by BlastN as having 100% identity over a region 100 bp, did not continue to share sequence similarity outside this region and Inhibitors,Modulators,Libraries therefore did not align over the whole contig. Mapping and predicted function of putative ASGR carrier chromosome transcripts Up to four primer pairs per contig were used to test for linkage of the 61 contigs to the ASGR carrier chromo some. Sequence characterized amplified region primer pairs were designed based on the PS26 contig sequence.

After screening by PCR against PS26, IA4X, N37 and a small number of progeny from apomictic BC8 segregating for mode of reproduction, 45 contigs showed specific amplification from PS26 and apomictic BC8 but no amplification from IA4X or GSK-3 sexual BC8 individuals establishing Inhibitors,Modulators,Libraries linkage of 45 contigs to the ASGR carrier chromosome. Inhibitors,Modulators,Libraries Single strand conformation polymorphism analysis and a CAPS screen using two to four restriction enzymes was applied to the 14 primer pairs which amplified pro ducts in both PS26 and IA4X DNA. Four additional contigs could be linked to the ASGR carrier chromo some using SSCP analysis. The CAPS screen identified a HaeIII polymorphism for PS26 c2552, a transcript also mapped by SSCP.

The markers from the 49 ASGR carrier chromosome linked contigs were initially screened on a limited num ber of apomictic and sexual F1s for mapping to the ASGR. This resulted in one contig, PS26 c9369, showing tight linkage to the ASGR as the primers amplified DNAs from only apomictic F1s but not sexual F1s. The remaining primer sets did not show amplification specificity in the F1 population, both apomictic and sexual progeny amplified. A larger F1 population of 22 individuals was used to map the PS26 c9369 and PS26 c2552 transcripts. PS26 c2552 was mapped based on the HaeIII polymorphism found in the CAPS screen between PS26 and IA4X and also seen in the F1 population. PS26 c2552 is unlinked to the ASGR as the CAPS polymorphism segregated 1,1 in the population but with 7 sexual and 5 apomictic individuals containing the marker. In comparison, the PS26 c9369 primers remained specific to the 10 apomictic plants and did not amplify the 12 sexual plants.