caa a22 4500 47573792X CHVBK 20180406123451.0 cr unu---uuuuu 170329e20001101xx s 000 0 eng 10.1007/s004300000049 doi (NATIONALLICENCE)springer-10.1007/s004300000049 New approaches for genotyping of Helicobacter pylori based on amplification of polymorphisms in intergenic DNA regions and at the insertion site of the cag pathogenicity island [Elektronische Daten] [Stefan Bereswill, Ruth Schönenberger, Constance Thies, Frank Stähler, Sonja Strobel, Petra Pfefferle, Lutz Wille, Manfred Kist] The population of the gastric pathogen Helicobacter pylori shows a high degree of genetic diversity. It is well established that heterogeneity at the isolate level is caused by nucleotide transitions within genes, differences in the gene order, and by genetic instability of single genes as well as of a large virulence-associated genomic DNA region, the cag pathogenicity island (PAI). Analysis of intergenic regions with specific PCR-assays developed in this study, revealed that DNA polymorphisms in the noncoding DNA localized in front of the genes ribA and vacA and at the insertion site of the cag PAI contribute to the genetic diversity of H. pylori and are useful for differentiation of individual isolates. Thirteen individual genotypes were identified by PCR analysis of these polymorphic loci in 487, 241, and 182 clinical H. pylori isolates. Sequence analysis revealed that genetic variability in front of genes ribA and vacA, and in the intergenic region at the PAI insertion site is caused by insertion and deletions of so-far-unknown DNA sequences as well as by parts of the H. pylori IS elements IS605 and IS606, respectively. The new genotypes identified could be used to differentiate antrum and corpus isolates from the same patients. Their combination with vacA allele subtypes and with the cagA status allowed to differentiate 140 isolates in 51 subtypes. In 36 cases the corresponding genotype patterns were isolate specific. In summary, the results confirm that DNA polymorphisms in intergenic regions contribute to the genetic diversity of H. pylori. Although individual H. pylori genotypes were not associated with peptic ulcer disease, the PCR-based approaches for their detection developed here should be of use for further investigation of genetic diversity in H. pylori and for epidemiological purposes. Springer-Verlag Berlin Heidelberg, 2000 Key wordsHelicobacter pylori nationallicence Polymerase chain reaction nationallicence Genetic diversity nationallicence cag pathogenicity island nationallicence Genetic instability nationallicence Bereswill Stefan Institute of Medical Microbiology and Hygiene, Department of Microbiology, University Hospital Freiburg, Hermann-Herder-Strasse 11, 79104 Freiburg, Germany e-mail: bereswil@ukl.uni-freiburg.de Tel.: +49-761-2036539; Fax: +49-761-2036562, DE aut Schönenberger Ruth Institute of Medical Microbiology and Hygiene, Department of Microbiology, University Hospital Freiburg, Hermann-Herder-Strasse 11, 79104 Freiburg, Germany e-mail: bereswil@ukl.uni-freiburg.de Tel.: +49-761-2036539; Fax: +49-761-2036562, DE aut Thies Constance Institute of Medical Microbiology and Hygiene, Department of Microbiology, University Hospital Freiburg, Hermann-Herder-Strasse 11, 79104 Freiburg, Germany e-mail: bereswil@ukl.uni-freiburg.de Tel.: +49-761-2036539; Fax: +49-761-2036562, DE aut Stähler Frank Institute of Medical Microbiology and Hygiene, Department of Microbiology, University Hospital Freiburg, Hermann-Herder-Strasse 11, 79104 Freiburg, Germany e-mail: bereswil@ukl.uni-freiburg.de Tel.: +49-761-2036539; Fax: +49-761-2036562, DE aut Strobel Sonja Institute of Medical Microbiology and Hygiene, Department of Microbiology, University Hospital Freiburg, Hermann-Herder-Strasse 11, 79104 Freiburg, Germany e-mail: bereswil@ukl.uni-freiburg.de Tel.: +49-761-2036539; Fax: +49-761-2036562, DE aut Pfefferle Petra Department of Public Health Medicine, School of Public Health, University of Bielefeld, PO box 100131, 33501 Bielefeld, Germany, DE aut Wille Lutz Department of Public Health Medicine, School of Public Health, University of Bielefeld, PO box 100131, 33501 Bielefeld, Germany, DE aut Kist Manfred Institute of Medical Microbiology and Hygiene, Department of Microbiology, University Hospital Freiburg, Hermann-Herder-Strasse 11, 79104 Freiburg, Germany e-mail: bereswil@ukl.uni-freiburg.de Tel.: +49-761-2036539; Fax: +49-761-2036562, DE aut https://doi.org/10.1007/s004300000049 text/html Onlinezugriff via DOI 1 research-article jats NATIONALLICENCE 856 40 https://doi.org/10.1007/s004300000049 text/html Onlinezugriff via DOI NATIONALLICENCE 700 1- Bereswill Stefan Institute of Medical Microbiology and Hygiene, Department of Microbiology, University Hospital Freiburg, Hermann-Herder-Strasse 11, 79104 Freiburg, Germany e-mail: bereswil@ukl.uni-freiburg.de Tel.: +49-761-2036539; Fax: +49-761-2036562, DE aut NATIONALLICENCE 700 1- Schönenberger Ruth Institute of Medical Microbiology and Hygiene, Department of Microbiology, University Hospital Freiburg, Hermann-Herder-Strasse 11, 79104 Freiburg, Germany e-mail: bereswil@ukl.uni-freiburg.de Tel.: +49-761-2036539; Fax: +49-761-2036562, DE aut NATIONALLICENCE 700 1- Thies Constance Institute of Medical Microbiology and Hygiene, Department of Microbiology, University Hospital Freiburg, Hermann-Herder-Strasse 11, 79104 Freiburg, Germany e-mail: bereswil@ukl.uni-freiburg.de Tel.: +49-761-2036539; Fax: +49-761-2036562, DE aut NATIONALLICENCE 700 1- Stähler Frank Institute of Medical Microbiology and Hygiene, Department of Microbiology, University Hospital Freiburg, Hermann-Herder-Strasse 11, 79104 Freiburg, Germany e-mail: bereswil@ukl.uni-freiburg.de Tel.: +49-761-2036539; Fax: +49-761-2036562, DE aut NATIONALLICENCE 700 1- Strobel Sonja Institute of Medical Microbiology and Hygiene, Department of Microbiology, University Hospital Freiburg, Hermann-Herder-Strasse 11, 79104 Freiburg, Germany e-mail: bereswil@ukl.uni-freiburg.de Tel.: +49-761-2036539; Fax: +49-761-2036562, DE aut NATIONALLICENCE 700 1- Pfefferle Petra Department of Public Health Medicine, School of Public Health, University of Bielefeld, PO box 100131, 33501 Bielefeld, Germany, DE aut NATIONALLICENCE 700 1- Wille Lutz Department of Public Health Medicine, School of Public Health, University of Bielefeld, PO box 100131, 33501 Bielefeld, Germany, DE aut NATIONALLICENCE 700 1- Kist Manfred Institute of Medical Microbiology and Hygiene, Department of Microbiology, University Hospital Freiburg, Hermann-Herder-Strasse 11, 79104 Freiburg, Germany e-mail: bereswil@ukl.uni-freiburg.de Tel.: +49-761-2036539; Fax: +49-761-2036562, DE aut Metadata rights reserved Springer special CC-BY-NC licence nationallicence BK010053 XK010053 XK010000 NATIONALLICENCE NATIONALLICENCE NL-springer