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Table 1 Analysis of molecular distances, synonymous and non-synonymous nucleotide substitutions of homB (n = 67) and homA (n = 50), for sequences corresponding to the entire gene and to gene segments 1, 2 and 3.

From: Allelic diversity and phylogeny of homB, a novel co-virulence marker of Helicobacter pylori

 

homB(n = 67*)

homA(n = 50*)

 

Entire gene

Segment 1

Segment 2

Segment 3

Entire gene

Segment 1

Segment 2

Segment 3

Mol. distant (nt)

0.077 ± 0.004&

0.067 ± 0.005

0.124 ± 0.014

0.075 ± 0.005

0.077 ± 0.004

0.087 ± 0.006

0.107 ± 0.013

0.068 ± 0.005

No. differences (nt)

138.847 ± 7.207

45.324 ± 3.377

23.737 ± 2.226

68.178 ± 4.386

136.550 ± 6.403

55.546 ± 3.750

20.104 ± 2.182

62.103 ± 4.002

Ks

0.234 ± 0.014

0.223 ± 0.024

0.234 ± 0.048

0.241 ± 0.021

0.240 ± 0.015

0.278 ± 0.027

0.263 ± 0.054

0.215 ± 0.020

Ka

0.035 ± 0.003

0.028 ± 0.004

0.088 ± 0.015

0.030 ± 0.005

0.034 ± 0.003

0.039 ± 0.005

0.062 ± 0.014

0.027 ± 0.004

Ka/Ks

0.150 ± 0.017†

0.125 ± 0.024

0.374 ± 0.100

0.125 ± 0.022

0.142 ± 0.016†

0.139 ± 0.023

0.234 ± 0.072

0.127 ± 0.024

  1. * Out-of-frame sequences were excluded.
  2. Mol., molecular
  3. No., number
  4. nt, nucleotides
  5. Ks, Synonymous substitutions
  6. Ka, Non-synonymous substitutions
  7. † PZ-Test <0.001 for purifying selection hypothesis (Ka/Ks <1).
  8. &Value ± Standard Error.
  9. Bold print highlights the higher molecular distance, Ka and Ka/Ks observed for segment 2, compared to the entire gene and to segments 1 and 3.
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BMC Microbiology

ISSN: 1471-2180

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