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Table 5 Results of codon based Z- test of selection for group 1 and group 2

From: Characterization and 454 pyrosequencing of Major Histocompatibility Complex class I genes in the great tit reveal complexity in a passerine system

 

n

dN

dS

Z

P

 

Group 1

   

ABS

18

0.171 ± 0.135

0.016 ± 0.03

1.244

0.108

Non-ABS

194

0.067 ± 0.014

0.112 ± 0.034

−1.218

1

PSS

9

0.152 ± 0.101

0.038 ± 0.039

1.493

0.069

Non-PSS

203

0.065 ± 0.014

0.115 ± 0.036

−1.254

1

All

212

0.075 ± 0.015

0.103 ± 0.032

−0.788

1

 

Group 2

   

ABS

18

0.578 ± 0.132

0.134 ± 0.068

3.694

<0.001

Non-ABS

203

0.054 ± 0.011

0.128 ± 0.032

−2.106

1

PSS

27

0.492 ± 0.092

0.069 ± 0.051

5.801

<0.001

Non-PSS

194

0.043 ± 0.009

0.136 ± 0.034

−2.686

1

All

221

0.085 ± 0.017

0.126 ± 0.029

−1.158

1

  1. The rates of non-synonymous mutations (dN) and synonymous mutations (dS) were computed using Nei-Gojobari method and Jukes-Cantor correction. The standard errors were obtained through 1000 bootstraps replicates. Z test of selection estimated dN-dS (indicated as Z) and computed a1-tailed test to determine whether dN > dS (indicated as P). n is the number of nucleotides representing antigen binding sites (ABS), non antigen binding sites (Non-ABS), positively selected sites (PSS), non positively selected sites (Non-PSS) and all sites in Group 1 and Group 2. ABS were detected by superimposing the chicken Mhc class I sequences and assuming concordance. Significant p-values are bold.
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BMC Ecology and Evolution

ISSN: 2730-7182

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