Detection of QTL with effects on osmoregulation capacities in the rainbow trout (Oncorhynchus mykiss)

BMC Genomic Data

Table 4 QTL detected after multiple-trait analyses for gill index and ion plasma concentrations 24 h after an osmotic challenge at 30 ppt salinity

Analysis	Traits^a	LG (Chr)^b	Max LRT^c	Position^d	CI^e	QTL effect^f					n_H^g
						Na⁺1	Na⁺2	Cl^-1	Cl^-2	Gill index	LR	HR
Significant QTL
2 traits	Cl^-	RT4 (Omy25)	32.6 *	14	2-25			0.51	0.29		5	3
		RT10 (Omy6)	37.1 *	21	14-27			0.26	0.41		4	2
	Challenge 2	RT10 (Omy6)	46.5 ***	21	16-28		0.29		0.45		6	4
		RT19 (Omy11)	39.4 *	119	105-119		0.28		0.31		8	3
4 traits	Plasma ions	RT10 (Omy6)	65.4 *	20	18-28	0.27	0.43	0.26	0.41		4	9
5 traits	All traits	RT10 (Omy6)	76.8 *	26	20-37	0.25	0.31	0.23	0.33	0.32	9 (4)	6(2)
Suggestive QTL
2 traits	Na⁺	RT14 (Omy19)	34.6	27	20-34	0.30	0.35				6	4
	Cl^-	RT5 (Omy22)	33.1	30	0-34			0.36	0.29		0	7
		RT23 (Omy8)	35.8	114	103-123			0.37	0.52		5	7
		RT26 (Omy24)	32.6	55	42-55			0.35	0.26		7	1
	Challenge 1	RT7 (Omy15)	37.1	0	0-10	0.45		0.38			7	3
	Challenge 2	RT9 (Omy12)	36.1	17	8-25		0.45		0.49		3	6
		RT23 (Omy8)	36.2	108	90-128		0.41		0.53		3	8
4 traits	Plasma ions	RT5 (Omy22)	60.2	30	0-34	0.32	0.31	0.37	0.29		4	8
		RT19 (Omy11)	63.8	119	93-119	0.36	0.29	0.29	0.30		11	4
5 traits	All traits	RT4 (Omy 25)	64.9	10	0-11	0.23	0.33	0.54	0.33	0.39	13(2)	2(2)
		RT19 (Omy11)	76.5	119	83-119	0.34	0.36	0.26	0.31	0.29	13(1)	4(1)

^a: Challenge 1,2: multiple-trait analysis for respectively (Na⁺1,Cl^-1) and (Na⁺2, Cl^-2); Na⁺, Cl^-: multiple-trait analysis for respectively (Na⁺1, Na⁺2) and (Cl^-1, Cl^-2); Plasma ions: multivariate analysis for (Na⁺1, Na⁺2, Cl^-1, Cl^-2).
^b : linkage group, according to Guyomard et al. [19] and corresponding physical chromosomes (Chr) according to Phillips et al. [20].
^c: maximum likelihood test value (LRT) and corresponding chromosome-wide significance level (no indication: P < 0.10; *: P < 0.05; ***: P < 0.005); *** also indicates a genome-wide significance level at P < 0.05.
^d: position on the consensus linkage group rebuilt with the families of the design.
^e: confidence interval of the position estimated with the 'drop off' method.
^f: mean QTL substitution effect (in phenotypic standard deviation of the trait) in the families with significant QTL effect (P < 0.05).
^g: nH is the total number of F1 parent segregating for the QTL (in brackets: number of parents for gill index). LR and HR indicate the line having transmitted the allele with an increasing effect on the trait.

ISSN: 2730-6844