Helicobacter pylori vacA s1a and s1b alleles from clinical isolates from different regions of Chile show a distinct geographic distribution

Figure 2 Alignment of s and m alleles as vacA amino acid partial sequences. A: Alignment of amino acid sequences corresponding to the amplified m1 vacA allele of Chilean strains CH-CTX1 and LA-12 with other representative m1 Indian sequences obtained from the GenBank; B: Alignment of amino acid sequences corresponding to the amplified m2 vacA allele and other representative m2 sequences obtained from the GenBank. The m2 allele from strain SA-64 was amplified using primers VA4F and VA4R and both strands were sequenced. The oligonucleotide sequence was translated (126 amino acids) and compared with other representative m2 allele sequences. These m2 sequences were obtained from GenBanK and corresponded to strains 95-54 from Italy, India 90, 97-203 from USA and V-296 from Taiwan; C: Alignment of amino acid sequences corresponding to Chilean strains having the s1a allele (CH-CTX1 and LA-12) and comparison with a s1a sequences from China. Sequences of Chilean s1b strains (IQ-61, QU-31 and QU-61) and comparison with other s1b sequences obtained from the GenBank from Argentinean strains AR-312 and AR-710; D: Alignment and comparison of amino acid sequences corresponding to the s2 sequence of the Chilean strain SA-64 and other sequences obtained from the GenBank of strains isolated in different locations. Sequences of the s2 vacA allele from different strains were aligned starting from amino acid position 30 in the vacA precursor sequence and the segment was fit with the ends defined by the Atherton primers for amplification of the s2 allele. ◆ Includes identical s2 sequences for strains: SA-64 from Chile, USA2781 from Arizona, USA, SS-1 from Australia, NA2010 and NA1986 from Colombia. ●Represents identical s2 sequences from strains NA1995, NA1992 and NA1685 from Colombia, India 3 and Alaska 5 from USA. Accession numbers are displayed in Materials and methods.