Prevalence and Correlation with Clinical Diseases of Helicobacter pylori cagA and vacA Genotype among Gastric Patients from Northeast China

Table 1

Primer sets used for genotyping H. pylori by PCR.

Target site	Amplicon size (bp)	Primer names and sequences	Annealing temperature	References
16S rRNA	138	HP-F (5-GCGACCTGCTGGAACATTAC-3); HP-R (5-CGTTAGCTGCATTACTGGAGA-3)	60°C	Gramley et al., 1999 [18]
UreA	411	HPU1-F (5-GCCAATGGTAAATTAGTT-3); HPU1-R (5-CTCCTTAATTGTTTTTAC-3)	45°C	Smith et al., 2004 [19]
vacAs1a	190	AA1-F (5-GTCAGCATCACACCGCAAC-3); AA1-R (5-TGCTTGAATGCGCCAAAC-3)	56°C	Atherton et al., 1995 [9]
vacAs1b	187	SS3-F (5-AGCGCCATACCGCAAGAG-3); SS3-R (5-CTGCTTGAATGCGCCAAAC-3)	56°C	Atherton et al., 1995 [9]
vacAs1c	213	S1C-F (5-CTCGCTTTAGTGGGGCTA-3); S1C-R (5-CTGCTTGAATGCGCCAAAC-3)	56°C	Yamaoka et al., 1999 [20]
vacAs2	199	SS2-F (5-GCTAACACGCCAAATGATCC-3); SS2-R (5-CTGCTTGAATGCGCCAAAC-3)	56°C	Atherton et al., 1995 [9]
vacAm1/m2	570/645	VAG-F (5-CAATCTGTCCAATCAAGCGAG-3); VAG-R (5-GCGTCTAAATAATTCCAAGG-3)	57°C	Yamaoka et al., 1999 [20]
cagA	189	CAGA-F (5-TTGACCAACAACCACAAACCGAAG-3); CAGA-R (5-CTTCCCTTAATTGCGAGATTCC-3)	62°C	van Doorn et al., 1998 [21]
Western type cagA	Variable	CAGT-F (5-ACCCTAGTCGGTAATGGG-3); CAGW-R (5-TGCCCTACAMCACCSAAACCAC-3); CAGW-F (5-AAAAATTGACCRACTCAATC-3); CAGT-R (5-GCTTTAGCTTCTGAYACYGC-3)	61°C	Yamaoka et al., 1999 [22]
East-Asian type cagA	Variable	CAGT-F (5-ACCCTAGTCGGTAATGGG-3); CAGJ-R (5-GCAATTTTGTTAATCCGGTC-3); CAGJ-F (5-GCATCAGCAGGTAAAGGAGT-3); CAGT-R (5-GCTTTAGCTTCTGAYACYGC-3)	52°C	Yamaoka et al., 2000 [14]