Detection of quantitative trait loci affecting serum cholesterol, LDL, HDL, and triglyceride in pigs

BMC Genomic Data

Table 2 Summary of QTL for the serum lipid traits

SSC^a	Traits^b	POS^c	F-value^d	LOD	Var^e(%)	a^f± SE	d^g± SE	Closest Markers^h
1	CT	80	5*	2.14	3.38	3.2 ± 1.01	0.22 ± 1.5	S0312 - SW2166
1	HDL/LDL	87	8.74**	3.69	5.78	-0.05 ± 0.01	0 ± 0.02	S0312 - SW2166
1	LDL	82	12.63***	5.26	8.12	4.62 ± 0.93	-0.94 ± 1.44	S0312 - SW2166
2	TG	205	4.64	1.98	3.14	-3.13 ± 1.03	-0.05 ± 1.62	SW1884 - SWR308
2	HDL^#	118	4.44*	2.83	4.47	-0.03 ± 0.37	1.31 ± 0.59	SW240 - SW1564
3	HDL	0	4.54*	1.94	3.08	0.73 ± 0.37	-1.11 ± 0.52	SW72 - S0164
4	HDL/LDL	58	4.53*	1.94	3.08	-0.04 ± 0.01	-0.01 ± 0.02	S0001 - S0214
6	CT	99	5.73*	2.44	3.85	0.92 ± 1.01	-5.15 ± 1.63	S0059 - S0003
6	TG	66	4.5*	1.93	3.05	-2.91 ± 0.98	0.37 ± 1.53	S0087 - SW1067
7	CT	70	5.15*	2.2	3.48	2.74 ± 0.89	-1.41 ± 1.32	Sw175 - S0115
7	LDL	70	5*	2.13	3.38	2.52 ± 0.81	-0.67 ± 1.19	Sw175 - S0115
11	TG^#	28	4.64*	2.96	4.66	-1.02 ± 0.98	0.61 ± 1.36	SW2008 - S0071
12	CT	36	7.86*	3.32	5.21	5.27 ± 1.63	-9.89 ± 4.03	S0143 - SW874
12	LDL	38	4.8*	2.05	3.25	3.86 ± 1.49	-6.6 ± 3.66	S0143 - SW874
13	LDL	97	6.17*	2.62	4.14	-0.17 ± 0.87	-4.76 ± 1.36	TNNC - SW398
16	HDL	81	4.51*	1.93	3.06	-1.28 ± 0.46	-1.25 ± 0.81	SW0026 - S0061
16	HDL/LDL	47	4.55*	1.95	3.09	-0.05 ± 0.02	-0.08 ± 0.04	S0111 - SW0026
17	TG^#	72	4.44*	2.83	4.46	1.37 ± 1.52	9.67 ± 4.24	SW840 - SW2431

^aSus scrofa chromosome
^bSee Table 1
^cChromosomal position in Kosambi cM
^dSignificance of the QTL: * significant on a chromosome-wide level with P < 0.05; ** significant on a experiment-wide level with P < 0.05; *** significant on a experiment-wide level with P < 0.01
^eThe percentage of phenotypic variance explained by the QTL
^fAdditive effect and standard error. Positive values indicate the Duroc alleles result in higher values than Pietrain alleles; negative values indicate that Duroc alleles result in lower values than Pietrain alleles
^gDominance effect and standard error
^hThe closest markers were those markers around the peak, as near as possible (position of markers in cM)
^# The imprinting effect and standard error was detected for HDL (1.03 ± 0.38) on SSC2, for TG (-3.18 ± 0.9) on SSC11 and for TG (-4.6 ± 1.58) on SSC17. When both the additive and the imprinting effects are positive or negative, the paternal allele expresses (maternal imprinting); otherwise the maternal allele expresses (paternal imprinting)

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