ddRADseq reveals determinants for temperature-dependent sex reversal in Nile tilapia on LG23

BMC Genomics

Table 1 Significant SNPs from case-control association analysis for temperature-dependent sex in Nile tilapia

LG	bp	N cases	N controls	Allele frequency in cases	Allele frequency in controls	Minor allele	Major allele	Chi-Square	P	Odds Ratio	L95	U95
5	23,554,897	43	46	0.163	0.391	A	G	11.49	0.000699	0.303	0.149	0.615
5	34,055,582	43	45	0.349	0.133	T	C	11.24	0.000800	3.482	1.641	7.389
6	30,817,177	42	51	0.012	0.157	C	T	11.66	0.000640	0.065	0.008	0.499
23	6,588,528	43	45	0.488	0.233	C	T	12.45	0.000419	3.136	1.644	5.984
23	9,212,758	53	53	0.170	0.387	G	A	12.42	0.000424	0.324	0.171	0.615
23	9,441,132	43	44	0.163	0.614	G	C	37.13	0.000001	0.122	0.060	0.250
23	9,546,272	45	46	0.267	0.609	A	G	21.6	0.003350	0.234	0.125	0.438
23	11,011,948	50	46	0.220	0.587	G	C	26.98	0.000206	0.199	0.106	0.372
23	11,011,949	49	47	0.235	0.596	C	T	25.83	0.000373	0.208	0.112	0.388
23	11,203,620	51	54	0.284	0.102	T	C	11.33	0.000764	3.503	1.642	7.472
24	1,470,141	44	55	0.193	0.418	C	G	11.41	0.000731	0.333	0.174	0.639

LG Linkage group, bp base pair, cases temperature-treated males, controls temperature-treated but non-masculinized females, Chi-square basic allelic test chi-square (1df), P asymptotic p-value for basic allelic test, L95 Lower bound of 95% confidence interval for odds ratio, U95 upper bound of 95% confidence interval for odds ratio

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