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

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

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
Tcm003s33466269	III	81.53	3.739	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
Tcm004s00110232	IV	0.55	6.031	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
Tcm006s19715703	VI	31.01	3.679	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
Tcm006s25375496	VI	61.73	2.318	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
Tcm007s10302466	VII	47.55	8.306	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
Tcm009s02031341	IX	13.73	3.557	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
Tcm009s08066239	IX	44.36	11.24	CB	0.239 (0.0501)	0.110 (0.0533)	−0.049 (0.0467)	6.2

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
Trait refers to the number of years in which vegetative brooms (VB)/cushion brooms (CB) occurred, adjusted for spatial effects

ISSN: 1471-2164