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Table 3 Diversity at the MHC class II (segregating sites of amino acids (Saa) and average diversity of nucleotides (Ï€)) and evolutionary distance (nucleotide sequences (dnt) and amino acids (daa)) of the alleles of the exon 2 in the Snowy Plover (Charadrius nivosus). The measures of diversity and the synonymous and non-synonymous substitution rates were calculated for the complete sequences (All), the PBR and the non-PBR sites for each population. The number of genotyped individuals per population (N) and number of samples that passed the quality filter (n) are shown

From: Allelic diversity and patterns of selection at the major histocompatibility complex class I and II loci in a threatened shorebird, the Snowy Plover (Charadrius nivosus)

Population

Lat

Lon

N (n)

 

dN ± S.E

dS ± S.E

dN /dS

Saa

Ï€

dnt ± S.E

daa ± S.E

C. n. nivosus (UTA)

40.9

−112.13

40 (40)

All

0.06 ± 0.01

0.10 ± 0.03

0.60

15

0.06

0.07 ± 0.01

0.10 ± 0.02

PBR

0.15 ± 0.05

0.08 ± 0.05

1.87

8

0.11

0.15 ± 0.05

0.20 ± 0.06

Non-PBR

0.03 ± 0.01

0.11 ± 0.04

0.27

7

0.05

0.05 ± 0.01

0.07 ± 0.02

C. n. nivosus (SAQ)

30.4

−115.97

47 (36)

All

0.06 ± 0.01

0.10 ± 0.03

0.60

15

0.06

0.07 ± 0.01

0.10 ± 0.02

PBR

0.15 ± 0.05

0.08 ± 0.05

1.87

8

0.11

0.15 ± 0.05

0.20 ± 0.06

Non-PBR

0.03 ± 0.01

0.11 ± 0.04

0.27

7

0.05

0.05 ± 0.01

0.07 ± 0.02

C. n. nivosus (CEU)

23.91

−106.95

49 (34)

All

0.06 ± 0.01

0.11 ± 0.03

0.54

15

0.06

0.08 ± 0.01

0.10 ± 0.02

PBR

0.14 ± 0.05

0.10 ± 0.05

1.40

8

0.12

0.15 ± 0.05

0.19 ± 0.05

Non-PBR

0.03 ± 0.01

0.11 ± 0.04

0.27

7

0.05

0.05 ± 0.01

0.07 ± 0.02

C. n. nivosus (NAY)

22.41

−105.62

13 (10)

All

0.07 ± 0.02

0.12 ± 0.04

0.58

15

0.07

0.08 ± 0.01

0.11 ± 0.02

PBR

0.17 ± 0.06

0.09 ± 0.05

1.88

8

0.13

0.17 ± 0.05

0.22 ± 0.06

Non-PBR

0.04 ± 0.01

0.13 ± 0.05

0.30

7

0.05

0.06 ± 0.01

0.07 ± 0.02

C. n. nivosus (TEX)

19.46

−98.97

23 (17)

All

0.05 ± 0.01

0.09 ± 0.03

0.55

15

0.06

0.07 ± 0.01

0.09 ± 0.02

PBR

0.14 ± 0.05

0.07 ± 0.05

2.00

8

0.11

0.13 ± 0.04

0.19 ± 0.05

Non-PBR

0.03 ± 0.01

0.10 ± 0.04

0.30

7

0.04

0.04 ± 0.01

0.05 ± 0.02

C. n. nivosus (FLO)

30.02

−85.57

40 (39)

All

0.07 ± 0.02

0.12 ± 0.04

0.58

15

0.07

0.08 ± 0.01

0.11 ± 0.02

PBR

0.17 ± 0.06

0.09 ± 0.06

1.88

8

0.13

0.17 ± 0.05

0.22 ± 0.06

Non-PBR

0.04 ± 0.01

0.13 ± 0.05

0.30

7

0.05

0.06 ± 0.01

0.07 ± 0.02

C. n. occidentalis (PER)

−13.84

−76.24

21 (21)

All

0.07 ± 0.02

0.12 ± 0.04

0.58

15

0.07

0.08 ± 0.01

0.11 ± 0.02

PBR

0.17 ± 0.06

0.09 ± 0.06

1.88

8

0.13

0.17 ± 0.05

0.22 ± 0.06

Non-PBR

0.04 ± 0.01

0.13 ± 0.05

0.30

7

0.05

0.06 ± 0.01

0.07 ± 0.02

C. n. tenuirostris (PUR)

17.93

−67.18

17 (17)

All

–

–

–

–

–

–

–

PBR

–

–

–

–

–

–

–

Non-PBR

–

–

–

–

–

–

–