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Table 3 Effects of selected QTL, values of the significance level -log10(P) and % variance accounted for by including markers in the final QTL model

From: Identification of candidate genes involved in Witches’ broom disease resistance in a segregating mapping population of Theobroma cacao L. in Brazil

Marker Chromosome Position (cM) -log10(P) Trait TSH-1188 CCN-51 TSH 1188 × CCN 51 % variance
Tcm003s33466269 III 81.53 3.739 VB 0.069 (0.0483) 0.086 (0.0480) −0.025 (0.0479) 0.6
CB 0.054 (0.0449) 0.209 (0.0446) 0.032 (0.0445) 3.3
Tcm004s00110232 IV 0.55 6.031 VB 0.177 (0.0483) −0.111 (0.0487) 0.015 (0.0486) 2.9
CB 0.248 (0.0455) −0.033 (0.0452) 0.014 (0.0452) 4.7
Tcm006s19715703 VI 31.01 3.679 VB −0.107 (0.0520) 0.190 (0.0551) 0.118 (0.0496) 5.2
CB −0.059 (0.0484) 0.120 (0.0512) 0.036 (0.0461) 2.5
Tcm006s25375496 VI 61.73 2.318 VB 0.015 (0.0551) 0.015 (0.0551) −0.097 (0.0491) 3.1
CB −0.169 (0.0483) 0.0206 (0.0512) −0.111 (0.0456) 5.4
Tcm007s10302466 VII 47.55 8.306 VB −0.105 (0.0478) −0.105 (0.0478) −0.080 (0.0486) 6.3
CB 0.146 (0.0452) −0.100 (0.0444) −0.139 (0.0452) 3.4
Tcm009s02031341 IX 13.73 3.557 VB −0.221 (0.0579) −0.221 (0.0579) −0.094 (0.0500) 6.0
CB −0.065 (0.0498) −0.203 (0.0538) −0.024 (0.0465) 1.7
Tcm009s08066239 IX 44.36 11.24 VB 0.383 (0.0539) 0.057 (0.0573) −0.062 (0.0503) 13.5
CB 0.239 (0.0501) 0.110 (0.0533) −0.049 (0.0467) 6.2
  1. The additive effect of ‘TSH 1188’ ( or ‘CCN-51’) represents the average difference in response between individuals with the allele of the first grandparent ‘TSH-1188’ (or ‘CCN-51’) and the allele of the second grandparent of ‘TSH 1188’ (or ‘CCN 51’). The interaction ‘TSH-1188’ × ‘CCN-51’ represents the average difference in response between individuals with the allele of the first grandparent of ‘TSH-1188’ and the allele of the second grandparent ‘TSH-1188’ in combination with the allele of the first grandparent of ‘CCN 51’ and the same average difference in combination with the allele of the second grandparent of ‘CCN 51’. The figures between brackets represent standard errors. The designation as first and second grandparent depends on the phasing of the marker alleles and determined during the construction of the linkage map. The values in bold are values that are at least two times larger than their standard error
  2. Trait refers to the number of years in which vegetative brooms (VB)/cushion brooms (CB) occurred, adjusted for spatial effects