Allelic diversity and selection at the MHC class I and class II in a bottlenecked bird of prey, the White-tailed Eagle

Table 1 Signatures of selection at MHC class I exon 3 and MHC class II exon 2 of the White-tailed Eagle, as measured with the number of residues under positive (pervasive diversifying) and negative (purifying) selection (assessed with FUBAR and FEL methods) and the relative rates of nonsynonymous to synonymous substitutions (dN/dS) at: i) all residues; ii) human peptide-binding residues (PBRs); and iii) putative PBRs of non-passerine birds

MHC class	Exon	Seq. length	No. of alleles	dN/dS			Method	No. of residues
MHC class	Exon	Seq. length	No. of alleles	All residues	Human PBRs	Avian PBRs	Method	Positive selection	Negative selection
Class I	3	273 bp	10	0.82 (0.78)	1.71 (1.75)	1.11 (1.07)	FUBAR	2 (1)	2 (1)
Class I	3	273 bp	10	0.82 (0.78)	1.71 (1.75)	1.11 (1.07)	FEL	0 (0)	2 (2)
Class II	2	258 bp	17	1.47 (1.30)	2.93 (2.53)	3.64 (3.31)	FUBAR	7 (6)	4 (4)
Class II	2	258 bp	17	1.47 (1.30)	2.93 (2.53)	3.64 (3.31)	FEL	4 (3)	6 (5)

Selection estimates for non-recombinant fragments (sequence partitions identified with GARD analysis) are shown in brackets. Human PBRs were classified according to the crystallographic structure of MHC molecules (class I: Saper et al. [52]; class II: Brown et al. [53]), while putative avian PBRs were classified according to the global analysis of selection at the MHC of birds [16]

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