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Table 1 Presence and absence of the 8 LPS genes studied among 23 H. pylori strains

From: Population-associated differences between the phase variable LPS biosynthetic genes of Helicobacter pylori

Strain name Population HP0651 HP0379 HP0093 HP0619 jhp0562* HP0208 jhp0820 HP0217
JP9 hpEastAsia ○ ● ● ● + ● absent ●
GU17 hpEastAsia ● ○ ● missing missing ● EMPTY ●
GU5 hpEastAsia ● ○ ● absent + ● EMPTY ●
RE12001 hpEastAsia ● ○ ● ● + ● EMPTY ●
L133 hpEastAsia ● ○ ● ● + ● ⊙ ●
L7 hpLadakh ○ ○ ● missing missing absent EMPTY ●
L72 hpLadakh ● ○ ● ● + absent EMPTY ●
L67 hpLadakh ○ ○ ● absent + absent EMPTY ●
B225 hpEurope ● ● ● ● + ● absent ●
26695 hpEurope ● ● ● ● absent ● absent ●
SS1 hpEurope ○ ● ● ● + ● ● ●
H1413 hpEurope ● ● ● ● + ● EMPTY ○
NQ367 hpEurope ○ ● ● ● + ● ● EMPTY
111UK hpEurope ● ● ● ● + ● EMPTY ●
VZ21 hpEurope ● ○ ● absent + ● ● ●
105UK hpEurope ○ ● ● ● + ● ● ●
LSU2003-1 hpAfrica1 ○ ● ● ● + ● ● ●
J99 hpAfrica1 ○ ● ● ● + ● ● ●
C164 hpAfrica1 ○ ● ● ● + ● ⊙ ●
CC31C hpAfrica1 ○ missing ● ● + ● ● ●
CC42C hpAfrica1 ○ ● ● missing missing ● ○ EMPTY
129 hpAfrica2 ○ ● ● ● + ● ● ●
162 hpAfrica2 ○ ● ● ● + ● absent ●
  1. Status of the genes is coded as followed:
  2. ●, gene present and harbouring the repeat
  3. ○, phase variable gene present but repeat absent or stabilized (i.e. repeat interrupted by one or more bases or a homopolymeric tract < 7 bp or dinucleotide tracts with < 5 repeats)
  4. ⊙, phase variable gene harbouring a repeat, whereas a stabilized repeat was found previously [12]
  5. EMPTY, empty site, i.e. the phase variable gene was found using primers designed within the coding sequence in regions immediately adjacent to the phase variable tract [12], but the site is found to be empty in this study
  6. missing, missing data, i.e. the PCR product was obtained but could not be sequenced absent, gene absent
  7. * jhp0562 is a non phase variable homologue of HP0619 (+: jhp0562 present)
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