Novel insight into the genomic architecture of feed and nitrogen efficiency measured by residual energy intake and nitrogen excretion in growing pigs

Shirali, Mahmoud; Duthie, Carol-Anne; Doeschl-Wilson, Andrea; Knap, Pieter W; Kanis, Egbert; van Arendonk, Johan AM; Roehe, Rainer

doi:10.1186/1471-2156-14-121

Table 1 Evidence of QTL for REI, production and nitrogen excretion traits throughout growth

From: Novel insight into the genomic architecture of feed and nitrogen efficiency measured by residual energy intake and nitrogen excretion in growing pigs

Growth stage	SSC	Trait¹	*F-Ratio*	Position, cM	Marker interval	% Var²	Mode of inheritance	QTL effect³
60 to 90 kg	2	ALD, g/d	4.98^†	59	SW240-SW1026	3.66	Dominance	−0.02 ± 0.01
	6	ADNE, g/d	5.53^†	134	SW1881-SW322	3.99	Dominance	3.83 ± 1.16
	6	ADFI, kg/d	5.87*	135	SW1881-SW322	4.07	Dominance	0.18 ± 0.05
	10	ADEI, MJ/d ME	10.61**	44	SW2195	3.79	Additive	−1.12 ± 0.34
	10	ADFI, kg/d	12.88**	44	SW2195	4.44	Additive	−0.10 ± 0.03
	10	ADNE, g/d	11.64**	44	SW2195	4.18	Additive	−2.17 ± 0.64
	14	ADFI, kg/d	6.71**	16	S0089-SW245	4.64	Dominance	−0.18 ± 0.05
	14	ADNE, g/d	7.79**	17	S0089-SW245	5.53	Dominance	−4.18 ± 1.06
	14	ADEI, MJ/d ME	7.22*	18	S0089-SW245	5.11	Dominance	−2.15 ± 0.57
	14	REI, MJ/d ME	8.26**	19	S0089-SW245	6.10	Dominance	−1.75 ± 0.43
90 to 120 kg	1	APD, g/d	7.61*	113	SW1311-SW1828	2.82	Additive	−5.13 ± 1.86
	2	FCR	14.95**	3	SWR2516-SW2623	5.17	Additive	−0.18 ± 0.05
	2	NEWG, g/kg	13.00**	3	SWR2516-SW2623	4.78	Additive	−4.16 ± 1.15
	2	TNE, kg/pig	16.11**	4	SWR2516-SW2623	4.02	Additive	−0.13 ± 0.03
	2	REI, MJ/d ME	9.18*	16	SW2623-SWR783	3.46	Additive	−0.96 ± 0.32
	4	TNE, kg/pig	10.39*	14	SW489-S0301	3.81	Additive	0.10 ± 0.03
	4	FCR	12.67**	17	SW489-S0301	4.42	Additive	0.16 ± 0.04
	4	NEWG, g/kg	8.57*	19	SW489-S0301	3.20	Additive	3.33 ± 1.14
	4	ADG, g/d	10.39*	24	SW489-S0301	3.67	Additive	−37.54 ± 11.65
	4	REI, MJ/d ME	5.05*	130	MP77-SW856	5.63	Imprinting	0.60 ± 0.26
	6	ADNE, g/d	8.51*	70	S0087-SW122	3.15	Additive	−2.00 ± 0.68
	6	FCR, MJ/d ME	8.32*	105	S0228	2.95	Additive	−0.13 ± 0.04
	6	ADFI, kg/d	4.76^†	128	SW1881-SW322	3.37	Dominance	0.15 ± 0.05
	7	ADNE, g/d	5.40*	58	SW1841-S0087	3.97	Dominance	−3.50 ± 1.07
	7	TNE, kg/pig	4.83^†	88	SW122-S0228	3.57	Dominance	−0.17 ± 0.06
	7	NEWG, g/kg	4.88^†	116	SWR773	3.65	Dominance	−5.27 ± 1.93
	7	REI, MJ/d ME	7.77*	117	SWR773	2.94	Additive	0.75 ± 0.27
	7	FCR	5.29^†	117	SWR773	3.73	Dominance	−0.22 ± 0.08
	10	ADG, g/d	9.09*	3	SW830-SWR136	3.22	Additive	−34.19 ± 11.34
	10	ADFI, kg/d	7.51*	6	SW830-SWR136	2.67	Additive	−0.08 ± 0.030
	13	NEWG, g/kg	9.06*	119	SW2440-S0291	3.38	Additive	3.43 ± 1.14
120 to 140 kg	1	ADG, g/d	4.5^†	116	SW1311-SW1828	3.20	Dominance	60.73 ± 20.32
	2	ADFI, kg/d	5.63*	82	SW1370-SWR2157	3.96	Dominance	0.20 ± 0.06
	2	TNE, kg/pig	8.45*	115	SWR345	3.19	Additive	0.08 ± 0.03
	2	NEWG, g/kg	9.84*	116	SWR345	3.73	Additive	4.53 ± 1.45
	4	ALD, g/d	7.43**	5	SW2404-SW489	5.57	Dominance	−38.44 ± 12.34
	6	ADFI, kg/d	5.00^†	148	SW322	3.53	Dominance	0.19 ± 0.06
	6	ADEI, MJ/d ME	4.61^†	150	SW322	3.32	Dominance	2.10 ± 0.69
	7	ALD, g/d	4.81^†	28	SWR1343-SW2155	3.68	Dominance	49.33 ± 15.93
	8	REI, MJ/d ME	14.46**	0	SW2410	5.53	Additive	−1.26 ± 0.33
	8	ADNE, g/d	11.12*	0	SW2410	4.16	Additive	−2.56 ± 0.77
	9	ADG, g/d	5.11^†	81	S0019-SW2093	3.62	Dominance	70.29 ± 22.74
	9	ADEI, MJ/d ME	6.88*	82	S0019-SW2093	4.88	Dominance	2.56 ± 0.73
	9	ADFI, kg/d	5.48*	82	S0019-SW2093	3.86	Dominance	0.20 ± 0.06
	9	APD, g/d	4.47^†	86	S0019-SW2093	3.43	Dominance	10.76 ± 3.67
60 to 140 kg	2	APD, g/d	6.44^†	0	SWR2516-SW2623	2.51	Additive	3.37 ± 1.33
	2	FCR	12.08**	4	SWR2516-SW2623	4.09	Additive	−0.09 ± 0.03
	2	TNE, kg/pig	9.91*	4	SWR2516-SW2623	3.57	Additive	−0.18 ± 0.06
	2	NEWG, g/kg	8.81*	13	SW2623-SWR783	3.50	Additive	−2.22 ± 0.75
	4	NEWG, g/kg	8.08*	15	SW489-S0301	3.22	Additive	1.97 ± 0.69
	4	TNE, kg/pig	8.77*	22	SW489-S0301	3.17	Additive	0.16 ± 0.06
	4	FCR	7.54^†	24	SW489-S0301	2.60	Additive	0.07 ± 0.02
	4	REI, MJ/d ME	7.16^†	130	MP77-SW856	2.70	Additive	−0.45 ± 0.17
	6	ALD, g/d	4.91^†	131	SW1881-SW322	3.58	Dominance	20.15 ± 6.45
	6	ADEI, MJ/d ME	7.56**	133	SW1881-SW322	5.51	Dominance	2.22 ± 0.57
	6	APD, g/d	4.91^†	134	SW1881-SW322	3.64	Dominance	7.43 ± 2.41
	6	ADNE, g/d	7.28*	134	SW1881-SW322	5.17	Dominance	3.60 ± 0.95
	6	ADFI, kg/d	7.50*	135	SW1881-SW322	4.92	Dominance	0.18 ± 0.05
	6	BF, cm	11.42*	163	SW322-SW2052	3.75	Additive	−0.12 ± 0.04
	7	APD, g/d	4.69^†	5	SW2564-SWR1343	3.42	Dominance	4.81 ± 2.13
	7	TNE, kg/pig	6.53*	111	SW632-SWR773	4.66	Dominance	−0.31 ± 0.10
	8	APD, g/d	6.90*	101	SW374-SW1551	2.51	Additive	3.54 ± 1.35
	9	ALD, g/d	4.58^†	18	SW21-SW911	3.32	Dominance	20.64 ± 6.96
	9	ADEI, KJ/d ME	5.66*	82	S0019	4.19	Dominance	1.59 ± 0.48
	9	ADNE, g/d	5.23*	82	S0019	3.77	Dominance	2.55 ± 0.79
	14	ALD, g/d	4.31^†	14	S0089-SW245	3.14	Dominance	−13.34 ± 6.25
	14	ADNE, g/d	4.56^†	14	S0089-SW245	3.30	Dominance	−2.65 ± 0.89
	14	ADFI, kg/d	5.13*	15	S0089-SW245	3.41	Dominance	−0.14 ± 0.04
	14	FCR	4.55^†	88	SW1557-SWC27	3.13	Dominance	0.15 ± 0.05

^†= 0.1, * = 0.05 and ** = 0.01 chromosome-wide significance level.
¹REI = residual energy intake; ADEI = average daily energy intake; APD = average protein deposition; ALD = average lipid deposition; FCR = feed conversion ratio; TNE = total nitrogen excretion; ADNE = average daily nitrogen excretion; NEWG = nitrogen excretion per weight gain; BF = backfat thickness.
²Percentage of variance explained by the QTL calculated as the proportion of residual sum of square from the full model divided by the residual sum of square from null model (excluding QTL effect).
³Estimated additive, dominance or imprinting effects and their standard error.

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