The orthology of HLA-E and H2-Qa1 is hidden by their concerted evolution with other MHC class I molecules

Biology Direct

Table 1 A table showing ds/dn comparison for PBR residues of CD94L. Comparing synonymous versus non-synonymous substitutions for PBR residues confirms that rodent and primate CD94L sequences all derive from a common ancestor.

		ds/dn values	Rank among 406 pairwise comparisons
Saoe E	Patr E	6,35	1
RT-BM1	Hm1C3	5,29	2
Saoe E	HLA-E	4,94	3
H2-Qa1	RT-BM1	4,59	5
Saoe E	MaMu E	4,13	6
Hm1C3	HLA-E	3,7	9
RT-BM1	Saoe E	3,65	10
Hm1C3	MaMu E	3,37	13
Hm1C3	Patr E	3,25	15
H2-Qa1	Saoe E	3,24	16
H2-Qa1	HLA-E	2,99	21
RT-BM1	Patr E	2,95	23
H2-Qa1	MaMu E	2,89	25
RT-BM1	HLA-E	2,88	27
RT-BM1	PemaQa1	2,83	31
H2-Qa1	Hm1C3	2,8	33
H2-Qa1	Patr E	2,79	36
PemaQa1	Patr E	2,59	47
RT-BM1	MaMu E	2,49	55
PemaQa1	HLA-E	2,47	58
PemaQa1	MaMu E	2,4	61
Hm1C3	Saoe E	2,27	69
MaMu E	HLA-E	2,21	77
Patr E	HLA-E	1,9	100
MaMu E	Patr E	1,62	134
PemaQa1	Saoe E	1,51	151
H2-Qa1	PemaQa1	1,4	165
Hm1C3	PemaQa1	1,19	217
averages
for all 29 sequences	406 comparisons	1,42
for 19 class Ia sequences	171 comparisons	0,87
for 8 CD94L sequences	global(28 comparisons)	3,02
	11 intra-genus	3,40
	17 inter-genus	2,78

ds/dn ratios were calculated for the PBR residues of aligned nucleic sequences corresponding to all 29 proteins appearing in Fig. 2, yielding 406 individual pairwise comparisons (see MαM). For the sake of space and clarity, only the ds/dn values obtained for comparisons among CD94L molecules are shown here, as well as their rank within those 406 comparisons. Values for intra-taxa comparisons are shown in bold (i.e. primate vs primate or rodent vs rodent CD94L).

ISSN: 1745-6150