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Table 1 Primers used for genotyping of H. pylori by detection of cagA, vacA and iceA genes

From: Helicobacter pylori vacA, cagA and iceA genotypes in dyspeptic patients from southwestern region, Saudi Arabia: distribution and association with clinical outcomes and histopathological changes

Gene

Primer name

Primer sequence (5′ → 3′) a

PCR product size

Reference

cagA

cagA-F

GATAACAGGCAAGCTTTTGAGG

349

[45]

cagA-R

CTGCAAAAGATTGTTTGGCAGA

[45]

s1a

S1a-F

TCTYGCTTTAGTAGGAGC

212

[45]

VA1-R

CTGCTTGAATGCGCCAAAC

[45]

s1b

SS3-R

AGCGCCATACCGCAAGAG

187

[45]

VA1-R

CTGCTTGAATGCGCCAAAC

[45]

s1c

S1c-F

CTYGCTTTAGTRGGGYTA

213

[45]

VA1-R

CTGCTTGAATGCGCCAAAC

[45]

s2

SS2-F

GCTAACACGCCAAATGATCC

199

[46]

VA1-R

CTGCTTGAATGCGCCAAAC

[46]

m1

VA3-F

GGTCAAAATGCGGTCATGG

290

[47]

VA3-R

CCATTGGTACCTGTAGAAAC

[47]

m2

VA4-F

GGAGCCCCAGGAAACATTG

352

[47]

VA4-R

CATAACTAGCGCCTTGCAC

[47]

iceA1

iceA1-F

GTGTTTTTAACCAAAGTATC

247

[48]

iceA1-R

CTATAGCCASTYTCTTTGCA

[48]

iceA2

iceA2-F

GTTGGGTATATCACAATTTAT

229/334

[48]

iceA2-R

TTRCCCTATTTTCTAGTAGGT

[48]

cag empty site

Luni1

ACATTTTGGCTAAATAAACGCTG

550

[49]

R5280

GGTTGCACGCATTTTCCCTTAATC

[49]

  1. aY is C or T, R is A or G and S is C or G