Comparative genomics of Helicobacter pylori isolates recovered from ulcer disease patients in England.
BACKGROUND
Genomic diversity of H. pylori from many different human populations is largely unknown. We compared genomes of 65 H. pylori strains from Nottingham, England. Molecular analysis was carried out to identify rearrangements within and outside the cag-pathogenicity-island (cag PAI) and DNA sequence divergence in candidate genes. Phylogenetic analysis was carried out based on various high-resolution genotyping techniques.


RESULTS
Analyses of virulence genes (cagT, cagE, cagA, vacA, iceA, oipA and babB) revealed that H. pylori strains from England are genetically distinct from strains obtained from other countries. The toxigenic vacA s1m1 genotype was found to be less common and the plasticity region cluster was found to be disrupted in all the isolates. English isolates showed a predominance of iceA1 alleles and a functional proinflammatory oipA gene. The English H. pylori gene pool revealed several Asian/oriental features. This included the predominance of cagA - glr (cagA right junction) motif types III and II (up to 42%), presence of vacA m1c alleles and phylogenetic affinity towards East Asian / Amerindian gene pools based on fluorescent amplified fragment length polymorphism (FAFLP) analysis and glmM sequence analysis.


CONCLUSIONS
Overall, our results demonstrated genetic affinities of H. pylori in England with both European and the Asian gene pools and some distinctive genetic features of virulence genes that may have evolved in this important European population.
Kauser
Farhana
F
Pathogen Evolution Group, Laboratory of Molecular and Cell Biology, Centre for DNA Fingerprinting and Diagnostics (CDFD), Hyderabad, India. farhana@cdfd.org.in
Hussain
M Abid
MA
Ahmed
Irshad
I
Srinivas
Sriramula
S
Devi
S Manjulata
SM
Majeed
Ahmed A
AA
Rao
K Rajender
KR
Khan
Aleem A
AA
Sechi
Leonardo A
LA
Ahmed
Niyaz
N
D001426:Bacterial Proteins / Q000235:genetics; D004739:England / Q000453:epidemiology; D014644:Genetic Variation; D016680:Genome, Bacterial; D023281:Genomics; D016481:Helicobacter Infections / Q000453:epidemiology / Q000382:microbiology*; D016480:Helicobacter pylori / Q000235:genetics* / Q000302:isolation & purification*; D006801:Humans; D010802:Phylogeny; D013276:Stomach Ulcer / Q000453:epidemiology / Q000382:microbiology*; D037521:Virulence Factors
D001426:Bacterial Proteins; D037521:Virulence Factors