QTL affecting stress response to crowding in a rainbow trout broodstock population

BMC Genomic Data

Table 3 Results of a genome scan for QTL associated with stress response using a variance components approach

Omy	cM	Trait	LOD score¹	P	P _GenomeWide ²	h _u ² ³	h _q ² ⁴	Left flanking marker	Right flanking marker
3	116	BLUP3	0.9	0.02394	1.000	0.00	0.16	OMM1263	OMM1391b
4	112	BLUP3	0.9	0.02012	0.999	0.00	0.19	OMM1582	OMM1408⁵
4	112	EBV	0.9	0.02012	0.999	0.00	0.17	OMM1582	OMM1408⁵
9	77	BLUP3	1.0	0.01470	0.996	0.00	0.23	OMM1089	OMM5054
10	52	EBV	0.7	0.03736	1.000	0.01	0.46	OMM1549b	OMM5312
12	39	EBV	1.9	0.00150	0.421	0.01	0.24	OMM1096	OMM1130⁵
14	119	EBV	0.9	0.02155	1.000	0.01	0.36	OMM5153	OMM5143⁵
16	69	BLUP3	3.3**	0.00005	0.018	0.00	0.52	OMM1150	OMM1221
17	46	EBV	1.1	0.01072	0.980	0.01	0.49	OMM5026	OMM3027
19	75	BLUP3	1.2	0.01069	0.980	0.00	0.14	OMM1739	OMM5106a⁵
19	114	EBV	1.0	0.01464	0.995	0.01	0.38	OMM1549a	OMM1124b
22	37	EBV	0.7	0.04031	1.000	0.01	0.12	OMM1457	BX913059⁵
23	31	EBV	1.1	0.01373	0.994	0.01	0.39	OMM5305	OMM1623
28	58	EBV	0.9	0.02013	0.999	0.01	0.36	OMY1013UW	OMYRGT51TUF
Sex	38	EBV	1.6	0.00371	0.743	0.01	0.43	OMM1715a	BX076085

¹Logarithm of odds (LOD) score was calculated as LOD = log₁₀[L(QTL)/L(polygenic)] where L = likelihood of the model. QTL with LOD ≥ 2 was defined as suggestive QTL (*); and QTL with LOD ≥ 3 or P_GenomeWide ≤ 0.05 was defined as significant QTL (**).
²The genome-wide significance level for detected QTL was estimated as P_GenomeWide = 1 − (1 − P)^g, where P is the nominal P-value, and g = 365 STR loci used with variance components method of QTL analysis.
³h_u² is the residual genetic variance or proportion of the total variance due to the polygenic component.
⁴h_q² is the heritability associated with the QTL or proportion of the total variance due to the QTL.
⁵The QTL flanking markers OMM5106a, OMM1408, OMM1130, BX913059 and OMM5143 had significant Mendelian segregation distortion (P <0.01) in families 2, 3, 4, 5 and 6, respectively.

ISSN: 2730-6844