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Table 2 Analysis of molecular distances and synonymous and non-synonymous nucleotide substitutions in gene segments 1 and 3, between homB and homA (homB vs homA), within the same strain (intrastrain) and within different strains (interstrain), considering pairs of homB and homA sequences of 24 Helicobacter pylori strains.

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

 

homBvs homA

 

Segment 1 (n = 48)

Segment 3 (n = 48)

 

Intrastrain a

Interstrain b

Intrastrain a

Interstrain b

Mol. distance (nt)

0.100 ± 0.012&

0.113 ± 0.010

0.020 ± 0.004

0.064 ± 0.004 c

Ks

0.241 ± 0.048

0.286 ± 0.034

0.051 ± 0.013

0.202 ± 0.019 d

Ka

0.061 ± 0.012

0.067 ± 0.011

0.010 ± 0.004

0.026 ± 0.004 e

Ka/Ks

0.254 ± 0.071

0.234 ± 0.047

0.202 ± 0.093

0.130 ± 0.023

  1. Mol., molecular
  2. nt, nucleotides
  3. Ks, Synonymous substitutions
  4. Ka, Non-synonymous substitutions
  5. &Value ± Standard Error.
  6. a All 48 sequences, totalling 24 comparisons.
  7. b All 48 sequences, totalling 552 comparisons (each homB was compared to each homA, excluding the pairs within the same strain)
  8. c Student's t-test, p < 10-14 for interstrain vs intrastrain comparisons of molecular distance for homB and homA segment 3.
  9. d Student's t-test, p < 10-10 for interstrain vs intrastrain comparisons of Ks for homB and homA segment 3.
  10. e Student's t-test, p < 10-3 for interstrain vs intrastrain comparisons of Ka for homB and homA segment 3.
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BMC Microbiology

ISSN: 1471-2180

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