Identification and validation of quantitative trait loci for ascites syndrome in broiler chickens using whole genome resequencing

Table 3 Combined genotype data for LRRTM4 and CPQ suggests epistatic interactions between these genes for resistance in male REL line birds

Genotype			All				Male				Female
LRRTM4	CPQ	n	Sus	Res	P-val.	n	Sus	Res	P-val.	n	Sus	Res	P-val.
AG	TA	23	56.5	43.5	0.375	11	45.5	54.5	3.067	11	63.6	36.4	1.081
AG	YM	26	50.0	50.0	6.107	12	44.4	55.6	5.380	12	57.1	42.9	8.443
AG	CC	72	36.4	63.6	6.910	36	50.0	50.0	7.575	31	0	100.0	3.449
RR	TA	33	33.3	66.7	1.488	18	25.0	75.0	2.340	7	41.7	58.3	3.371
RR	YM	31	42.9	57.1	4.935	15	46.7	53.3	2.026	12	27.3	72.7	3.259
RR	CC	131	25.8	74.2	0.080	61	14.8	85.2	0.033	53	36.5	63.5	4.818
GA	TA	15	38.8	61.2	4.198	8	30.6	69.4	2.488	2	48.4	51.6	2.139
GA	YM	14	25.8	74.2	0.620	8	14.8	85.2	0.582	5	36.5	63.5	3.403
GA	CC	54	40.0	60.0	6.187	19	44.4	55.6	2.382	26	3.8	69.2	2.661

SNP genotype data for LRRTM4 and CPQ genes were combined and evaluated relative to distribution with respect to ascites phenotype. The CC non-reference homozygote was previously associated with resistance (35). Statistical analyses of association was based on adjusted P-values comparing observed counts vs predicted counts based on HWE. Genotype for LRRTM4 is as described in Table 2. Genotype for CPQ is for SNPs corresponding to bases 127,010,709 and 127,010,716 on chromosome 2 [34]

ISSN: 2730-6844