Fig 1.
Genomic SSR discovery pipeline and primer design.
The workflow starts with an independent assembly of each genotype and enrichment for sequence contigs with a length greater than the N50 value. Next, SSRFinder is used to find SSRs and design primers. Possible polymorphisms are detected and screened against the nr database (GenBank) and a priority given to non-repetitive or organellar sequences.
Table 1.
Repeat motifs of EST-SSRs and their numbers.
Table 2.
Genomic SSR discovery in two parental lines.
Table 3.
Repeat motifs of genomic SSRs and their numbers.
Table 4.
Comparison between EST- and genomic derived SSRs.
Fig 2.
Nucleotide substitute distribution type and counts.
The SNP nucleotide substitution type and count as determined between both genotypes.
Fig 3.
GBS tag coverage for P1 and P2 with overlap across P2 reference genome.
P1 (red) and P2 (blue) GBS tag coverage overlap across the P2 reference sequence.