Fig 1.
Linkage disequilibrium (r2) due to the genetic distance in bp, with SSRs markers.
Thresholds corresponding to Bonferroni corrections and FDR are shown on a logarithmic scale with significant associations (in LD) and non-significant vectors above and below, respectively.
Fig 2.
Allele pair linkage disequilibrium (r2) across the entire common bean genome for the full group of genotypes, due to the genetic distance in bp, with SNP markers.
Table 1.
Different structures of variances and covariances for the genetic-effects matrix related to the blocks (GBlock) and replicates within the genotypes and blocks (GRep).
Blocks and replicates are both used as grouping factor for each level of the random genotypes.
Table 2.
Associations between SSR and SNP marker loci and Anthracnose (race 4) severity determined by unified mixed linear models (MLM).
Table 3.
Associations between SSR and SNP marker loci and angular leaf spot (race 0–39) severity determined by unified mixed linear models (MLM).
Fig 3.
Representative map of the genome positions of markers associated with ANT and ALS resistance.
SSR and SNP markers were located on the reference genome (Schmutz et al., 2014) using the Phytozome v1.0 BLAST tool (http://www.phytozome.net/). Markers in blue are associated with ANT resistance and those in red are associated with ALS resistance. The SSR-IAC167, PvM95, and sacaffold00021_89379 markers (green) were associated with resistance to both diseases. The map was drawn with MapChart (Voorrips 2002), and marker positions are represented in Mb.
Fig 4.
Example of two homologous gene structure predictions showing the marker location in the locus PvM93.