Fig. 6
From: Large-scale deployment of a rice 6 K SNP array for genetics and breeding applications
Comparison of the use of 384-SNP Golden Gate assay (OPA 6.1) and C6AIR genotyping platforms for foreground and background selection. CSSLs were developed between the elite tropical japonica variety Cybonnet as the recurrent parent, and O. rufipogon, IRGC105567, as the donor parent. a Distribution of 260 informative SNPs across 12 rice chromosomes detected using the 384-SNP assay (OPA 6.1) (left) and 1868 polymorphic SNPs using the C6AIR (right). The red bar indicates 5 Mb target introgression from the donor parent in the background of Cybonnet. Using the 384-OPA, an average 5 Mb region harbors ~1–3 informative SNPs; using the C6AIR, a 5 Mb region harbors ~5–8 informative SNPs. b Graphical representation of CSSL selection targeting overlapping introgressions on Chromosome 1 in the Cybonnet X IRGC105567 library using the 384-OPA 6.1 platform (38 polymorphic SNPs detected) (pink), and the C6AIR (221 polymorphic SNPs) (purple). Blue line indicates a region of putative incompatibility or sterility identified in this population