A genome-wide scan of selective sweeps in two broiler chicken lines divergently selected for abdominal fat content

Table 4 Haplotype frequencies in the lean and fat lines of the core regions including 10 important genes

Gene and core regions	Haplotype Number	Haploptypes	Haplotype frequency		P-value¹
Gene and core regions	Haplotype Number	Haploptypes	Lean line	Fat line	P-value¹
*MAOB, MAOA*	1	CAAGG	0.645	0.615	<0.001
Chr1: 114789487-114875623	2	AAAGA	0.197	0
	3	CGGAG	0.158	0.269
	4	CGAGA	0	0.077
	5	AAAGG	0	0.038
*RB1*	1	GGAA	0.421	0.410	<0.001
Chr1: 173098805-173190831	2	GAGG	0.368	0.103
	3	GAAA	0.211	0.192
	4	AAGG	0	0.244
	5	AGGA	0	0.038
	6	GAGA	0	0.013
*MYO7A*	1	AGG	0.618	0.090	<0.001
Chr1: 198071099-198113519	2	GAA	0.316	0.207
	3	GGA	0.066	0.652
	4	GAG	0	0.037
	5	GGG	0	0.014
*EHBP1*	1	GGG	0.855	0.090	<0.001
Chr3: 9177907-9222825	2	GAG	0.132	0.359
	3	AGG	0.013	0.128
	4	GGA	0	0.423
*LRP2BP*	1	GGGG	0.443	0.487	<0.001
Chr4: 40653593-40713404	2	AAAA	0.338	0.211
	3	GGAA	0.176	0
	4	AAGG	0.044	0.303
*BBS7*	1	AGGC	0.605	0.282	<0.001
Chr4: 55424480-55472209	2	GAAA	0.368	0.301
	3	AAAA	0.026	0
	4	AGAC	0	0.198
	5	AGAA	0	0.161
	6	GAAC	0	0.058
*LRP1B*	1	AGAGAC	0.361	0.013	<0.001
Chr7: 33795201-33904515	2	GGAGGA	0.197
	3	AGAAGA	0.105	0.154
	4	GGGGGA	0.066	0.449
	5	AGAAGC	0.057	0.346
	6	GAGGGA	0.055	0.038
	7	GAGAGA	0.050	0
	8	GGAAGA	0.049	0
	9	GAGGAA	0.026	0
	10	GGAGAA	0.018	0
	11	AGAAAC	0.016	0
*MYO9A*	1	GGGAA	0.355	0.051	<0.001
Chr10: 763998-831991	2	AAGAA	0.276	0.358
	3	AAGAG	0.237	0
	4	GGGGA	0.118	0.013
	5	AGGAA	0.013	0.065
	6	AGAAA	0	0.500
	7	AAAAA	0	0.013
*PRPSAP1*	1	AGA	0.816	0.615	<0.001
Chr18: 4433126-4445816
	2	GGG	0.118	0.026
	3	AAG	0.066	0.090
	4	AGG	0	0.269

¹P-values of Fisher’s Exact Test for difference analysis of haplotype frequencies between lean and fat lines.

ISSN: 1471-2164