Third chromosome candidate genes for conspecific sperm precedence between D. simulans and D. mauritiana

BMC Genomic Data

Table 1 Testing adaptive diversification in D. simulans using D. melanogaster, D. simulans and D. sechellia sequence comparisons.

Gene	Map	ℓ_M0	ℓ_M1	2Δℓ^a	ℓ_M2	2Δℓ^b	ℓ(ω = 1)	ℓ(ω)	2Δℓ^c
CG9936	78A	-12873.9	-12868.2	11.5	-12873.7	0.5	-12843.5	-12843.5	0.0
CG10510	78C	-2045.6	-2041.3	8.5	-2042.67	5.9	-2041.6	-2041.7	0.2
CG9389	78C	-2837.7	-2834.6	6.2	-2835.8	3.8	-2826.2	-2829.4	6.3
CG32436	78C	-7261.6	-7230.0	63.2	-7259.4	4.5	-7218.2	-7218.2	0.0
CG7405	78F	-1422.1	-1415.9	12.4	-1421.7	0.8	-1422.1	-1422.1	0.0
CG7478	79A	-1288.0	-1283.4	9.1	-1283.4	9.1	-1276.9	-1281.2	8.5
CG31542	83A	-898. 2	-892.0	12.3	-893.4	9.6	-873.4	-887.2	27.6
CG1041	83E	-2402.3	-2394.8	15.1	-2399.3	5.9	-2386.2	-2382.2	0.0
CG15179	84A	-890.0	-889.2	1.7	NA	NA	-878.3	-888.5	20.5
CG1030	84A	-1954.5	-1946.0	16.9	-1953.7	1.6	-1936.7	-1936.7	0.0
CG1984	84B	-2081.0	-2074.0	14.0	-2074.3	13.3	-1992.6	-2014.7	44.2
CG7362^d	88D	-2209.9	-2209.1	1.4	NA	NA	-2199.2	-2202.4	6.3
CG6125	88F	-3268.6	-3259.0	19.2	-3268.3	0.6	-3246.1	-3246.1	0.0
CG3158	89A	-4968.6	-4960.7	15.7	-4961.8	13.6	-4775.0	-4911.8	273.6
CG14891^d	89B	-2687.7	-2685.4	4.7	NA	NA	-2688.1	-2691.4	6.5
CG31287	89B	-1220.8	-1220.5	0.6	NA	NA	-1203.8	-1216.2	24.8
CG6963	89B	-2061.3	-2057.8	7.0	-2060.1	2.5	-2053.4	-2053.4	0.0
CG31232^e	91A	-664.5	-659.8	9.5	-661.7	5.5	-643.1	-643.1	0.0
CG14307^e	91A	-4285.9	-4278.2	15.4	-4279.2	13.4	-4066.8	-4175.1	216.5
CG6255	92A	-2099.4	-2088.3	22.1	-2088.4	21.9	-1966.6	-2039.2	145.3
CG4836	92B	-6245.6	-6229.6	32.1	-6245.5	0.2	-6190.0	-6204.6	29.1
CG12249	92B	-3301.2	-3297.0	8.4	-3298.2	6.0	-3301.2	-3301.2	0.0

^aThe test statistics compares the likelihood (ℓ) of the free-ratios model (ℓ_M1) to the likelihood of a model that assumes constant ratios along branches (ℓ_M0). The test statistics follows a chi-square distribution with two degrees of freedom. Significant values (P < 0.05) are bolded.
^bThe test statistics compares the likelihood (ℓ) of a model allowing for an ω estimate along the D. simulans branch and a different ω estimate for the background branches (ℓ_M2) to the likelihood of a model that assumes constant ratios along branches (ℓ_M0). The test statistics follows a chi-square distribution with one degree of freedom. Significant values (P < 0.05) are bolded.
^cThe test statistics compares the likelihood (ℓ) of a branch-site model with the same model but fixing the foreground ω to 1. The test statistics follows a chi-square distribution with one degree of freedom. Significant values (P < 0.05) are bolded.
^dComparisons are D. melanogaster -- D. simulans -- D. mauritiana.
^eVariable results depending on the D. melanogaster open reading frame used in the analysis (See Additional file 1).

ISSN: 2730-6844