Table 2

Unique genetic loci with polymorphisms resulting in non-synonymous amino acid changes in Helicobacter pylori strains B128 and 7.13, and in vivo-adapted strains isolated from gerbils maintained on iron-depleted or iron-replete diets

VariantB128 single colonies7.13 single colonies7.13 iron-depleted single colonies7.13 iron-replete single colonies
LocationGeneHPB8 locusabcabcD1 aD1 bD1 cD2 aD2 bD2 cD3 aD3 bD3 cR1 aR1 bR1 cR2 aR2 bR2 cR3 aR3 bR3 c
118890 fliI 124 K>R K>R K>R K>R K>R K>R K>R K>R K>R K>R K>R K>R K>R K>R K>R K>R K>R K>R
132888 tonB1 138 K>E
211182 babB 237 S>L
211347 babB 237 T>I T>I T>I T>I T>I T>I T>I T>I T>I T>I T>I T>I
211415 babB 237 G>R G>R G>R G>R G>R G>R G>R G>R G>R G>R
211583 babB 237 D>N D>N D>N D>N D>N D>N D>N D>N D>N D>N
211592 babB 237 K>E K>E K>E K>E K>E K>E K>E K>E K>E K>E K>E K>E K>E K>E K>E K>E
211690 babB 237 N>K N>K N>K N>K N>K N>K N>K N>K N>K N>K N>K N>K
211694 babB 237 E>K E>K E>K E>K E>K E>K
211838 babB 237 K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q
211844 babB 237 G>S G>S G>S G>S G>S G>S G>S
212150 babB 237 G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S
212315 babB 237 G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S
263909 rpsL 294 E>K E>K E>K E>K E>K E>K E>K E>K E>K E>K E>K E>K E>K E>K E>K E>K E>K E>K E>K E>K E>K E>K E>K E>K
263985 rpsL 294 R>K R>K R>K R>K R>K R>K R>K R>K R>K R>K R>K R>K R>K R>K R>K R>K R>K R>K
264366 rpsG 295 T>M T>M T>M T>M T>M T>M T>M T>M T>M T>M T>M T>M T>M T>M T>M T>M T>M T>M
264374 rpsG 295 D>N D>N D>N D>N D>N D>N D>N D>N D>N D>N D>N D>N D>N D>N D>N D>N D>N D>N D>N D>N D>N D>N D>N D>N
273162Hypothetical303 E>K
273165Hypothetical303 L>V
342359 pal 375 T>A T>A T>A
559618Hypothetical587 E>K E>K E>K
563546Hypothetical593 Y>C Y>C Y>C
591318Putative OMP626 T>S T>S
591626Putative OMP626 A>N A>N
591635Putative OMP626 K>N K>N
591638Putative OMP626 p>Q p>Q
616637DNA methyltransferase642 D>N D>N D>N
629024 babA 657 S>L S>L S>L S>L S>L S>L S>L S>L S>L S>L S>L S>L S>L S>L S>L S>L S>L S>L S>L S>L S>L S>L S>L S>L
629189 babA 657 T>I T>I T>I T>I T>I T>I T>I T>I T>I T>I T>I T>I T>I T>I T>I T>I T>I T>I T>I
629257 babA 657 G>R G>R G>R G>R G>R G>R G>R G>R G>R G>R G>R G>R G>R
629425 babA 657 D>N D>N D>N D>N D>N D>N D>N D>N D>N D>N D>N D>N D>N D>N D>N D>N
629434 babA 657 K>E K>E K>E K>E K>E K>E K>E K>E K>E K>E K>E K>E K>E K>E K>E K>E
629532 babA 657 N>K N>K N>K N>K N>K N>K N>K N>K N>K N>K N>K
629536 babA 657 E>K E>K E>K E>K E>K E>K E>K E>K E>K E>K E>K
629680 babA 657 K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q K>Q
629686 babA 657 G>S G>S G>S G>S G>S G>S G>S
629992 babA 657 G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S
630157 babA 657 G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S G>S
692170 cagY 716 n>T
692262 cagY 716 L>K
692887 cagY 716 K>R K>R K>R
693460 cagY 716 V>A V>A
693465 cagY 716 K>E K>E
693471 cagY 716 V>I V>I V>I
693483 cagY 716 L>K L>K L>K
693497 cagY 716 S>Q S>Q S>Q
693505 cagY 716 K>R K>R K>R
693508 cagY 716 T>N T>N T>N
693513 cagY 716 A>K A>K A>K
727820Hypothetical750 L>W L>W L>W
798239Glycosyltransferase817 A>T A>T A>T
799896Glycosyltransferase818 D>E D>E D>E
846179 rnc 865 A>D
913806 mesE 927 P>S P>S P>S
1084103Putative OMP1104 K>Q K>Q K>Q
1084106Putative OMP1104 A>S A>S A>S
1084553Putative OMP1104 Q>E Q>E Q>E
1084556Putative OMP1104 L>F L>F L>F
1084587Putative OMP1104 M>I M>I M>I
1122559 fur 1145 R>H R>H R>H R>H R>H R>H R>H R>H R>H R>H R>H R>H R>H
1130504 pepP 1155 R>H
1195655 fliF 1220 P>L P>L P>L
1221163Polysaccharide deacetylase1252 A>T A>T A>T
1283634Conserved hypothetical OMP1309 A>E
1289275 oppD 1313 D>N D>N
1302387 hcpE 1328 A>V A>V A>V
1369139 prfB 1395 A>T
1377477 hcpD 1405 T>A
1405574Hypothetical1436 A>D A>D A>D
1533082Predicted coding region1561 S>P
1533085Predicted coding region1561 S>F
1533088Predicted coding region1561 D>N
  • D1-3 and R1-3 designate independent gerbils maintained on either iron-depleted (n=3) or iron-replete (n=3) diets, respectively, while a–c designate different single colonies isolated from each gerbil. Colour-coded regions represent non-synonymous amino acid changes that result from specific genetic polymorphisms. Specific amino acid changes are designated within each box.