Quantitative trait loci for resistance to Flavobacterium psychrophilum in rainbow trout: effect of the mode of infection and evidence of epistatic interactions

Table 3 Results of QTL analysis using the model M2 for resistance trait following injection or immersion challenges

Infection route	QTL	LRTmax	Position (cM)	CI (95%)	Increase in survival rate		Resistance origin		P value fixed effect	P value interaction
Infection route	QTL	LRTmax	Position (cM)	CI (95%)	Fixed_R (%)	Fixed_S (%)	Fixed_R	Fixed_S	P value fixed effect	P value interaction
IMMERSION	Omy17_Omy3	13.97*	61	0–92	38	7	AP2	AP2	***	NS
IMMERSION	Omy25a_Omy3	10.41*	4	0–35	10	18	B57	B57	***	NS
Type 1 interaction
INJECTION	^aOmy3_Omy29	15.27**	89	46–105	16	47	AP2	AP2	***	***
IMMERSION	^bOmy2_Omy3	15.35**	97	63–104	4	39	B57	B57	***	***
	^bOmy3_Omy21	40.73***	87	82–93	20	55	AP2	AP2	***	***
	^cOmy3_Omy2	35.66***	87	81–94	17	44	AP2	AP2	***	***
INJECTION	^aOmy29.2_Omy3	14.85*	23	8–49	5	48	B57	AP2	***	*
INJECTION	Omy17_Omy25a	15.85**	73	53–79	11	53	AP2	B57	***	***
IMMERSION	Omy7.2_Omy21	11.48*	7	0–103	5	31	AP2	B57	***	***
Type 2 interaction
INJECTION	^dOmy25a_Omy3	25.49***	14	10–18	53	16	B57	B57	***	*
	^dOmy3_Omy25a	35.35***	89	86–92	59	22	AP2	AP2	***	***
	Omy26_Omy29	11.75*	18	0–34	30	26	AP2	AP2	***	***
INJECTION	Omy17_Omy29	18.29***	74	58–92	47	11	AP2	B57	***	***
IMMERSION	Omy24_Omy2	12.71*	4	0–19	20	1	B57	AP2	***	***
Type 3 interaction
IMMERSION	Omy7.1_Omy2	16.42**	61	32–87	19	19	B57	AP2	***	***

The table presents chromosome-wide or genome-wide significant QTL detected for STATUS using model \(M2\); Reciprocal interactions could be tested only for QTL detected in the first STATUS analysis (model \(M1\)); LRTmax = maximum of likelihood ratio test; Position in the genetic map in centimorgans (cM); CI = confidence interval; Chromosome-wide significant = *P ≤ 0.01; Genome-wide significant = **P ≤ 0.05 or ***P ≤ 0.01; P values for fixed effect and interaction corrected with Benjamini–Hochberg method: Non-significant = NS; *P value ≤ 0.05; ***P value ≤ 0.001
^aThe reciprocal interaction could not be tested as a new QTL (Omy29.2_Omy3-QTL) was detected with the reciprocal model
^b,dReciprocal models for QTL pairs
^cThe QTL in the reciprocal model (Omy2_Omy3-QTL) was only suggestive (P ≤ 0.05) at the chromosome wide level

ISSN: 1297-9686