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Table 4 SNPs associated with TSC, TY and TSY in the QUEST population (n = 264)

From: Physical mapping of QTL for tuber yield, starch content and starch yield in tetraploid potato (Solanum tuberosum L.) by means of genome wide genotyping by sequencing and the 8.3 K SolCAP SNP array

SNP name SNP alleles phu/tbr Chromosome Minor allele frequencya TSC (R2)b TY (R2)b TSY (R2)b SNP differential in case-control population for
ADXR_SNP5705 (5710) c T/C I 0.491 (C) ns * (2.0) ↑ ** (3.5) ↑ TY, TSY, TSC
CP5_SNP3041 C/T II 0.442 (C) *** (5.1) ↑ ns ns TSC, TY
FBA_SNP_c2_11924 C/T V 0.103 (T) ** (3.0) ↑ * (1.4) ↑ ** (3.8) ↑ TSC
CP12.1_SNP_c2_54011 C/T VI 0.082 (T) ns ** (3.1) ↓ * (2.1) ↓ TY, TSY, TSC
MAK_SNP7832 (7475, 7634 7588) T/C VI 0.467 (T) ns *** (5.0) ↓ ** (3.5) ↓ TY, TSY
MAK_SNP7576 G/A VI 0.491 (A) ns *** (4.6) ↓ *** (5.9) ↓ TSC, TY, TSY
MAK_SNP7884 A/C VI 0.113 (A) ns ** (2.8) ↑ * (1.5) ↑ novel
QUA1_SNP_c2_9204 G/A VI 0.452 (G) ns ** (2.7) ↓ * (1.8) - novel
QUA1_SNP9502 G/A VI 0.070 (G) ns ** (3.3) ↑ * (1.8) - novel
QUA1_SNP_c2_9203 C/G VI 0.453 (C) ns ** (3.0) ↓ * (2.2) - TY, TSY
PPR_SNP7181 T/C IX 0.495 (C) *** (4.8) ↑ ns ns TSC, TY
PPR_SNP7037 (7077) C/T IX 0.440 (T) ** (3.1) ↑ ns ns TSC, TY
PPR_SNP7083 A/G IX 0.318 (G) ** (2.2) - ns ns TSC, TY
RP60S_SNP_c2_3063 T/C IX 0.157 (T) * (1.3) ↑ * (2.0) ↑ ** (3.9) ↑ TY, TSY
CIS_SNP4479 C/G XII 0.438 (C) *** (4.2) ↓ ns ns novel
  1. Associations of SNPs with a minimum minor allele frequency of 1% and at least one association at p < 0.01 are shown
  2. aThe minor frequency allele is shown in parenthesis
  3. bns = not significant at α =0.05; * significant at α = 0.05, ** significant at α = 0.01, *** significant at α = 0.001; Arrows indicate the effect of the minor frequency SNP allele on the trait compared to the population mean: ↑ increasing, ↓ decreasing, − ambiguous
  4. cNumbers in parenthesis identify SNPs in nearly complete LD that showed similar associations