Concurrent genotyping of Helicobacter pylorivirulence genes and human cytokine SNP sites using whole genome amplified DNA derived from minute amounts of gastric biopsy specimen DNA

Table 4 H. pylori genotyping results.

No	16S rDNA type^a	MP-PCR		vacA-PCR^b	DNA sequencing analysis^c
		cagA	vacA	subtype	s-region	i-region	m-region
6	"Stain A"	+	-	s1/m2	s1a	i2	m2
9	J99	+	+	s1/m1	s1a	i1	m1
12	26695	+	+	s1/m1	s1a	i1	m1
14	26695	+	-	s1/m2	s1a	i1-2^d	m2
18	26695	+	-	s1/m?	s1a	i1-2^d	m2
21	J99	-	-	s?/m2	s2	i2	m2
22	J99	+	+	s1/m1	s1b	i1	m1
23	26695	+	+	s1/m1	s1a	i1	m1
25	26695	+	+	s1/m1	s1a	i1	m1
27	26695	+	+	s1/m1	s1a	i1	m1
28	26695/J99	-	+	s1/m1	s1b	i1	m1
control	HP 26695	+	+	s1/m1	s1a	i1	m1
control	HP J99	+	+	s1/m1	s1b	i1	m1

H. pylori virulence-gene typing using MDA-amplified DNA. H. pylori 26695 and J99 were included as control strains.
a) For details see table 1.
b) Question mark indicates the absence of a detectable PCR amplicon (s/m-genotype).
c) The s/i/m-region sequences were aligned and compared with sequences retrieved from GenBank (for details see Materials and methods).
d) The intermediate region represents a mixture of i1/i2 sequences.

ISSN: 1471-2180