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Table 1 Nonsynonymous (dN) and synonymous (dS) substitutions (± standard error) and their ratio in ABS and non-ABS for MHCI and MHCII-DRB sequences

From: Retention of functional variation despite extreme genomic erosion: MHC allelic repertoires in the Lynx genus

 

ABS

non-ABS

ABS vs non-ABS

     Species

dN

dS

dN/dS

P

dN

dS

dN/dS

P

dS.ABS/dS.non-ABS

P

MHCI (17/59)

     Total

0.26 ± 0.022

0.6 ± 1.39

0.43

n.s

0.06 ± 0.001

0.08 ± 0

0.73

***

7.706

***

      L. pardinus

0.3 ± 0.027

0.68 ± 2.35

0.44

*

0.07 ± 0.001

0.1 ± 0.01

0.76

n.s

6.972

***

      L. lynx

0.26 ± 0.022

0.43 ± 1.36

0.59

n.s

0.06 ± 0.001

0.08 ± 0

0.73

*

5.443

***

      L. canadensis

0.28 ± 0.024

0.68 ± 1.23

0.4

**

0.06 ± 0.001

0.09 ± 0

0.67

**

7.466

***

      L. rufus

0.33 ± 0.032

1.01 ± 1.55

0.33

n.s

0.08 ± 0.002

0.1 ± 0.01

0.81

n.s

9.89

***

MHCII-DRB (24/58)

     Total

0.19 ± 0.011

0.17 ± 0.03

1.09

n.s

0.06 ± 0.001

0.13 ± 0.01

0.46

***

1.354

**

      L. pardinus

0.14 ± 0.008

0.16 ± 0.03

0.88

n.s

0.06 ± 0.001

0.14 ± 0.01

0.4

***

1.166

n.s

      L. lynx

0.16 ± 0.009

0.15 ± 0.02

1.1

n.s

0.06 ± 0.001

0.14 ± 0.01

0.43

***

1.057

n.s

      L. canadensis

0.19 ± 0.011

0.2 ± 0.03

0.99

n.s

0.07 ± 0.002

0.16 ± 0.01

0.48

n.s

1.251

n.s

      L. rufus

0.26 ± 0.016

0.23 ± 0.03

1.11

n.s

0.07 ± 0.001

0.12 ± 0.01

0.59

*

1.907

**

  1. The number of amino acids in each typology appears in brackets (ABS/non-ABS). dN is the number of nonsynonymous substitutions and dS the number of synonymous substitutions per site category (ABS or Non-ABS). P is the probability (using a Mann-Whitney U-test) that dN and dS are different at each site type or that dS differ between ABS and Non-ABS