Genome-wide association study dissects genetic architecture underlying longitudinal egg weights in chickens

BMC Genomics

Table 3 Contributions of four associated SNPs to egg weights at different ages

SNP		rs14916609	rs314058619	rs316497033	rs14491030
Chromosome		GGA1	GGA1	GGA3	GGA4
Position (bp)^a		168,456,799	169,930,974	23,254,004	75,486,534
EA/AA		G/A	T/G	A/G	G/A
EAF		0.41	0.47	0.21	0.06
FEW	beta (SE)^b	−0.201 (0.051)	0.095 (0.047)	−0.129 (0.055)	0.366 (0.086)
FEW	CPV (%)^c	1.92	0.30	0.55	1.32
EW32	beta (SE)	−0.284 (0.051)	0.204 (0.046)	−0.132 (0.054)	0.601 (0.082)
EW32	CPV (%)	3.75	2.10	0.57	3.88
EW36	beta (SE)	−0.259 (0.053)	0.135 (0.047)	−0.200 (0.055)	0.499 (0.083)
EW36	CPV (%)	2.92	0.82	1.42	2.50
EW40	beta (SE)	−0.269 (0.051)	0.167 (0.046)	−0.204 (0.054)	0.567 (0.081)
EW40	CPV (%)	3.45	1.49	1.68	3.51
EW44	beta (SE)	−0.283 (0.053)	0.189 (0.047)	−0.195 (0.056)	0.503 (0.085)
EW44	CPV (%)	3.62	1.73	1.39	2.74
EW48	beta (SE)	−0.266 (0.057)	0.270 (0.051)	−0.190 (0.061)	0.455 (0.092)
EW48	CPV (%)	3.00	3.43	1.22	2.03
EW52	beta (SE)	−0.303 (0.056)	0.258 (0.050)	−0.277 (0.060)	0.549 (0.092)
EW52	CPV (%)	4.02	3.13	2.65	3.09
EW56	beta (SE)	−0.283 (0.054)	0.271 (0.048)	−0.317 (0.057)	0.453 (0.087)
EW56	CPV (%)	3.63	3.54	3.38	2.12
EW60	beta (SE)	−0.286 (0.053)	0.241 (0.048)	−0.272 (0.057)	0.469 (0.085)
EW60	CPV (%)	3.81	2.89	2.53	2.31

EA effect allele (minor allele), AA alternative allele (major allele), EAF effect allele frequency, FEW first egg weight, EW32, EW36, EW40, EW44, EW48, EW52, EW56, EW60 egg weight per four weeks from 32 to 60 week of age
^aAlleles are indexed to the forward strand of Galgal4 assembly
^bEstimated allelic substitution effect per copy of the effect allele (EA) based on inverse-normal transformed scale under an additive model, expressed in SD unit/allele; SE = standard error of the beta
^cCPV = contribution to phenotypic variance (%)

ISSN: 1471-2164