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An In Silico Approach for Identification of the Pathogenic Species, Helicobacter pylori and Its Relatives

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Abstract

Helicobacter is an economically important genus within the phylum Proteobacteria and include many species which cause many diseases in humans. With the conventional methods, it is difficult to identify them easily due to the high genetic similarity among its species. In the present study, 361 16S rRNA (rrs) gene sequences belonging to 45 species of genus Helicobacter were analyzed. Out of these, 264 sequences of 10 clinically relevant species (including Helicobacter pylori) were used. rrs gene sequences were analyzed to obtain a phylogenetic framework tree, in silico restriction enzyme analysis and species-specific conserved motifs. Protein sequences of another housekeeping gene, hsp60 were also subjected to phylogenetic analysis to supplement the data obtained using rrs sequences. Using these approaches, six out of ten species (including H. pylori) were easily segregated, whereas four species namely H. bilis, H. cinaedi, H. felis and Candidatus H. heilmannii were found to be heterogeneous. The above approaches have also helped in segregating unclassified sequences, thus proving them as an easy diagnostic method for identifying members of genus Helicobacter up to species level.

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Acknowledgments

A.P., A.R. acknowledge Delhi University Innovative Scheme for providing the fellowship and opportunity for undertaking this project.

Authors’ Information

This work is performed by the undergraduate students at Sri Venkateswara College, University of Delhi.

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Authors and Affiliations

  1. Department of Zoology, Sri Venkateswara College, University of Delhi, South Campus, New Delhi, 110 021, India

    Ayush Puri, Arshiya Rai, P. S. Dhanaraj, Dev Dutt Patel & Mansi Verma

  2. Molecular Biology Laboratory, Department of Zoology, University of Delhi, Delhi, 110 007, India

    Rup Lal & Mansi Verma

  3. Department of Biochemistry, Sri Venkateswara College, University of Delhi, South Campus, New Delhi, 110 021, India

    Anju Kaicker

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  1. Ayush Puri
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Correspondence to Mansi Verma.

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Puri, A., Rai, A., Dhanaraj, P.S. et al. An In Silico Approach for Identification of the Pathogenic Species, Helicobacter pylori and Its Relatives. Indian J Microbiol 56, 277–286 (2016). https://doi.org/10.1007/s12088-016-0575-7

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  • DOI: https://doi.org/10.1007/s12088-016-0575-7

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