Primer HP1 HP2 S1a S-R S1b S-R S2 S2 M1 M1 M2 M2 46f 519r H276f H676r HPU1 HPU2

Target gene

Primer sequence Yingszi et al 2002 GCAATCAGCGTCAGTAATGTTC GCTAAGAGATCAGCCTATGTCC GTCAGCATCACACCGCAAC CTGCTGGAATGCGCCAAAC AGCGCCATACCGCAAGAG CTGCTGGAATGCGCCAAAC GCTAACACGGGAAATGATCC CTGCTGGAATGCGCCAAAC GGTCAAAATGCGGTCATGG CCATTGGTACCTGTAGAAAC GGAGCCCCAGGAAACATTG CATAACTAGCGCCTTGCAC Tabtabaei 2012 GCYTAACACATGCAAGTCGA GTATTACCGCGGCKGCTG CTATGACGGGTATCCGGC ATTCCACCTACCTCTCCC GCCAATGGTAAATTAGTT CTCCTTAATTGTTTTTAC H. pylori Protocol TTATCGGTAAAGACACCAGAAA ATCACAGCGCATGTCTTC ATGACATGCCCTTTAGTTTGGGATAGCCA CGTTCACCCTCTCAGGCCGGATACC Queralt et al 2004 GCCAATGGTAAATTAGTT CTCCTTAATTGTTTTTAC ATTGACATTGGCGGTAAC Marie 2012 GATAACAGCCAAGCTTTTGAGG CTGCAAAAGATTGTTTGGCAGA GGTCAAAATGCGGTCATGG CCATTGGTACCTGTAGAAAC GGAGCCCCAGGAAACATTG CATAACTAGCGCCTTGCAC ATGGAAATACAACAAACACAC CTGCTTGAATGCGCCAAAC AGCGCCATACCGCAAGAG

Genome Product position size 7731293 70-259 73-259 88-286 19542243 19392290 521 190 187 199 290 352

Remarks

16S rRNA vacA s1a vacA s1b vacA s2 vacA m1 vacA m2

16S rRNA 16S rRNA ureA

490 374 411

Universal bacterial Genus Helico. H. pylori

ureC 16S rRNA HPU1 HPU2 HPUI1 F1 B1 VA3-F VA3-R VA4-F VA4-R VA1-F VA1-R SS3-R

Pylori H. felis

ureA

H. pylori 155 349 290 352 259/286 187

cagA vacA m1 vacA m2 vacA s1/s2 vacA

CTGCTTGAATGCGCCAAAC GTCAGCATCACACCGCAAC CTGCTTGAATGCGCCAAAC GCTAACACGCCAAATGATGC CTGCTTGAATGCGCCAAAC Khan et al 2012 HP1 CTGGAGAGACTAAGCCCTCC 16S rRNA HP2 ATTACTGACGCTGATTGTGC Fujimura et al 2002 A-2F2 ATATTATGGAAGAAGCGAGAGC A-2F3 ureA CATGAAGTGGGTATTGAAGC A-2R ATGGAAGTGTGAGCCGATTTG Nayak et al 2007 297 GGCTATGACGGGTATCCGGC 16S rRNA 1026 GCCGTGCAGCACCTGTTTTC GAGCGAGCTATGGTTATGAC vacA ACTCCAGCATTCATATAGA CAATAGCAATCAAGTGGCTTTG vacA GCGCGCTTCCACATTAGC Benson et al. 2004 HpF ATATTATGGAAGAAGCGAGAGCTGG ureA HpR ATGGAAGTGTGAGCCGATTTG Shahamat et al 2004 glmM-F Phosphoglucos- AGGCTTTTAGGGGTGTTAGGGGTTT amine glmMAAGCTTACTTTCTAACACTAACGC Mutase gene R 519F CAGCMGCCGCGGTAATWC 16S rRNA 1406R ACGGGCGGTGTGTRC Cluster2 GGCGTTATCAACAGAATGGC 16S rRNA B1J99 CTCAGTTCGGATTGTAGGCTGC hypervariable Hp2R flanking region CTCCTTTCTAGAGAAAAGCTT Hp1F TGTTTGGTGGGCTATGGTT Kabir et al. 2000 HPU1 GCCAATGGTAAATTAGTT ureA HPU2 CTCCTTAATTGTTTTTAC AATACACCAACGCCTCCAAG cagA TTGTTGCCGCTTTTGCTCTC Primer TGGCGTGTCTATTGACAGCGAGC 3 SSA Primer CCTGCTGGGCATACTTCACCATG 4 SSA Primer 3

VA1-R SS1-R VA1-R SS2-R VA1-R

s1b vacA s1b vacA s2

190 199

109

204 730 229

314

411 400

303 209

Hp1 Hp2

16S rRNA 16S rRNA

EHC-U EHC-L HPU1 HPU2 HP1 HP2 EHC-U EHC-L ET-5U ET-5L

DNA 0.86 kb ureA 16S rRNA 860 bp DNA 417 bp DNA

TGATCACTGCATGTCTTACTTTCATGTTTTT CTGGAGAGACTAAGCCCTCC ATTACTGACGCTGATTGTGC GCGACCTGCTGGAACATTAC CGTTAGCTGCATTACTGGAGATCCCAAAAA CCCTCACGCCATCAGTCCCAAAAA AAGAAGTCAAAAACGCCCCAAAAC Song et al. 1999 GCCAATGGTAAATTAGTT CTCCTTAATTGTTTTTAC CTGGAGAGACTAAGCCCTCC ATTACTGACGCTGATTGTGC CCCTCACGCCATCAGTCCCAAAAA AAGAAGTCAAAAACGCCCCAAAAC GCCAAATCATAAGTCCGCAGAA TGAGACTTTCCTAGAAGCGGTGTT

110 139 417

411 109 417 230