Fig. 5
From: Genome-specific association study (GSAS) for exploration of variability in hemp (Cannabis sativa)
Analysis of statistically significant SNVs associated with more than one trait of interest revealed interesting patterns. An SNV on chromosome 3 (NC_044372.1:11,400,838, REF: A, ALT: T) was statistically significantly associated with plant height and stem diameter at 10 cm above the soil level. Boxplots depicting the value of each trait for individuals carrying either homozygous, heterozygous, or homozygous alternative allele at this position (a) manifest significant differences as determined by the Welch t-test (p < 0.001****). Haplotype inference for this SNV suggests that this allele, highlighted as a green dot, is inherited together with another 10 analysed alleles (b). Another SNV, on chromosome 6, (NC_044377.1:6,474,152, REF: G, ALT: A) was statistically significantly associated with plant height and flowering time of male flowers. Boxplots illustrate the value of each trait for individuals carrying either homozygous, heterozygous, or homozygous alternative allele at this position (c) with differences assessed by Welch t-test (p < 0.01** and p < 0.0001****). Haplotypes estimated for this SNV suggest that this allele, highlighted as a green dot, is inherited with an additional 19 analysed alleles (d). The effect of each of the two SNVs used as an example on the values of associated traits is notable in comparison to the correlation of those traits (Fig. 3).
