Gene conversion yields novel gene combinations in paralogs of GOT1 in the copepod Tigriopus californicus

Table 1 Fixed genetic divergence in coding regions for orthologs and paralogs of GOT1 in populations of T. californicus

	Between GOT1p1/GOT1p2 paralogs				GOT1p1 orthologs			GOT1p2 orthologs
	SD p1/SD p2	LJS p1/LJS p2	AB p1/AB p2	SCN p1/SCN p2	SD p1/LJS p1	SD p1/AB p1	SD p1/SCN p1	SD p2/LJS p2	SD p2/AB p2	SD p2/SCN p2
k_s	0.237	0.245	0.354	0.354	0	0.046	0.082	0	0.050	0.062
k_a	0.025	0.024	0.032	0.033	0	0.002	0.003	0	0.006	0.003
k_a/k_s	0.105	0.100	0.091	0.094	-	0.048	0.040	-	0.111	0.053
	Between GOT1Sd/GOT1Sr paralogs				GOT1Sd orthologs			GOT1Sr orthologs
	SD Sd/SD Sr	LJS Sd/LJS Sr	AB Sd/AB Sr	SCN Sd/SCN Sr	SD Sd/LJS Sd	SD Sd/AB Sd	SD Sd/SCN Sd	SD Sr/LJS Sr	SD Sr/AB Sr	SD Sr/SCN Sr
k_s	0.034	0.016	0.009	0.036	0.008	0.010	0.048	0.004	0.027	0.052
k_a	0.010	0.002	0.015	0.016	0.003	0.018	0.020	0.002	0.017	0.018
k_a/k_s	0.307	0.155	1.557	0.461	0.311	1.845	0.419	0.624	0.653	0.354
	GOT1_6a orthologs
	SD 6a/LJS 6a	SD 6a/AB 6a	SD 6a/SCN 6a	LJS 6a/AB 6a	LJS 6a/SCN 6a	AB 6a/SCN 6a
k_s	0.004	0.032	0.040	0.045	0.058	0.028
k_a	0.001	0.002	0.011	0.004	0.013	0.011
k_a/k_s	0.316	0.077	0.279	0.084	0.219	0.399

Levels of divergence in coding region are calculated for fixed differences (excluding polymorphism) for k_s (synonymous substitutions per site) and k_a (non-synonymous substitutions per site) with a Jukes-Cantor correction. Raw numbers of changes and sites can be found in Additional file 2: Table S1. Note that the GOT1Sd sequences spanned only one-half of the coding region of GOT1Sr (504 bp vs 1122 bp) and that the reading frame was corrected when calculating numbers of synonymous and nonsynonymous substitutions.

ISSN: 2730-7182