Table 2

Comparison of non-synonymous (dN) and synonymous (dS) substitution rates at putative peptide-binding codons (PBCs) and non-PBCs

PBCs

Non-PBCs

Method

Sequence set

No. of sequences

dN ± SE

dS ± SE

dN/dS

dN ± SE

dS ± SE

dN/dS


Brown et al. 1993

All

23

0.272 ± 0.073

0.031 ± 0.019

8.77***

0.069 ± 0.017

0.109 ± 0.037

2.95

B. swainsoni

20

0.268 ± 0.076

0.027 ± 0.017

9.82***

0.073 ± 0.017

0.114 ± 0.042

0.64

Group 1

10

0.072 ± 0.029

0.007 ± 0.007

10.43*

0.014 ± 0.009

0.010 ± 0.010

1.40

Group 2

12

0.299 ± 0.085

0.036 ± 0.025

8.25***

0.045 ± 0.014

0.092 ± 0.034

0.49

Tong et al. 2006

All

23

0.573 ± 0.127

0.060 ± 0.034

9.55***

0.057 ± 0.013

0.090 ± 0.030

0.63

B. swainsoni

20

0.566 ± 0.119

0.054 ± 0.033

10.48***

0.060 ± 0.014

0.094 ± 0.032

0.64

Group 1

10

0.123 ± 0.045

0.011 ± 0.011

11.18**

0.009 ± 0.007

0.010 ± 0.011

0.90

Group 2

12

0.607 ± 0.150

0.074 ± 0.044

8.20***

0.036 ± 0.010

0.080 ± 0.029

0.45


Separate analyses were run using all sequences, Buteo swainsoni sequences, Group 1, and Group 2. Codons were designated as peptide-binding or non-peptide-binding using two methods: Brown et al. [28] and Tong et al. [29]. Significance levels of Z-tests for positive selection (HA: dN >dS) are indicated by asterisks (P < 0.05*, P < 0.01**, P < 0.001***).

Bollmer et al. BMC Evolutionary Biology 2011 11:143   doi:10.1186/1471-2148-11-143

Open Data