Molecular characterization of MHC class IIB genes of sympatric Neotropical cichlids

BMC Genomic Data

Table 4 Tests of overall selection and selection by domain

Domain	Alleles	length (AAs)	dN	dN Number	dS	dS Number	dN/dS	P- value (purifying)	P- value (positive)
LP, β1 & β2	Group I-IV and ungrouped (N69)	228	0.221 (0.024)	44.488 (4.998)	0.327 (0.053)	18.525 (2.234)	0.676	0.021	1.000
β1	Group I-IV and ungrouped (N69)	91	0.254 (0.032)	37.703 (3.988)	0.301 (0.059)	12.807 (1.679)	0.844	0.219	1.000
β2	Group I-IV and ungrouped (N60)	93	0.129 (0.029)	8.502 (2.154)	0.459 (0.101)	7.238 (1.585)	0.282	<0.001	1.000
β1 & β2	Group I (N20)	113	0.008 (0.003)	1.616 (0.521)	0.000 (0.000)	0.000 (0.000)	-	-	-
LP, β1 & β2	Group II-IV and ungrouped (N49)	229	0.193 (0.022)	41.637 (4.845)	0.306 (0.044)	18.101 (2.142)	0.633	0.005	1.000
β1	Group II-IV and ungrouped (N49)	91	0.216 (0.028)	33.987 (3.776)	0.270 (0.049)	11.568 (1.579)	0.800	0.131	1.000
β2	Group II-IV and ungrouped (N40)	94	0.138 (0.034)	9.378 (2.293)	0.463 (0.114)	8.030 (1.679)	0.298	0.001	1.000

Tests of overall selection on the entire length of sequences, and on the different domains were performed. The leading peptide LP, and the two domains β₁ and β_2, comprise the entire known sequence, despite not all alleles have full coverage of both domains and the LP. The amino acid lengths for each test are given as the number of sites that were included in the test. Three alleles (0005, 0006 and 0012) from Group I, and six alleles (0203, 040103, 0406, 05, 25, 27) from Groups II-IV were excluded for the test of selection on the β₂ domain, as they lack sequence information for this domain. d_N, number of non-synonymous substitution per non-synonymous site; d_S, number of synonymous substitutions per synonymous site; standard error (SE). Significant p-values (at 99% confidence level) are shown bold

ISSN: 2730-6844