Novel SNP markers in InvGE and SssI genes are associated with natural variation of sugar contents and frying color in Solanum tuberosum Group Phureja

Table 2 SNP markers associated with sugar contents and chip darkening index in Solanum tuberosum Group Phureja

Gene-SNP^a	Trait	Minor Allele	−log₁₀(p-value)^b	Percent variance
Gene-SNP^a	Trait	Frequency, %	−log₁₀(p-value)^b	explained and effect^c
InvGE-C _2475454 T	Chip darkening index	2.0 (T)	2.4**	15.6 ↑
*InvGE*-G _2475344 A ^d	Fructose	9.4 (A)	2.2**	7.2 ↓
*InvGE*-C _2475295 A	Fructose	9.0 (C)	2.2***	7.0 ↓
*InvGE*-G _2475187 A	Fructose	9.0 (A)	2.7***	8.5 ↓
InvGE-G _2475187 A	Glucose	9.0 (A)	2.0*	6.6 ↓
InvGE-G _2475187 A	Total sugars	9.0 (A)	2.0***	8.8 ↓
SssI-C _45711901 T	Sucrose	35.5 (C)	2.0*	13.5 ↑

^aThe SNP reference allele is followed by its position in the chromosome and the nucleotide from the allelic variant
^bSNP markers with a − log₁₀ (p-value) higher than two were considered with significant effect on the variables studied with the mixed model approach. The markers were confirmed with an ANOVA considering a level of significance of α = 0.05. p-values: ***, p ≤ 0.001; **, p ≤ 0.01; *, p ≤ 0.05
^cThe percent variance explained expresses the effect of the minor allele in the trait. Arrows indicate the direction of the effect on the trait, upwards for a positive effect (low sugar content, therefore light chip color) and downwards for a negative effect (high sugar content, therefore dark chip color)
^dBold SNP markers were in strong linkage disequilibrium, showed similar effects in the trait, and presented similar distributions in the population

ISSN: 2730-6844