Complete Genome Sequence of Helicobacter suis Strain SNTW101c, Originally Isolated from a Patient with Nodular Gastritis.

Emiko Rimbara,Masahiko Nakamura,Hirotaka Kobayashi,Shigetarou Mori,Hidenori Matsui,Masato Suzuki,Keigo Shibayama,Steven R Gill

doi:10.1128/mra.01340-19

Emiko Rimbara, Masahiko Nakamura + Show 6 more

Open Access

https://doi.org/10.1128/mra.01340-19

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Abstract

Highlights

Helicobacter suis strain SNTW101c, which was originally obtained from a patient with nodular gastritis, has been maintained in mouse stomach because of difficulty culturing it in vitro
Illumina reads were mapped onto the sequences assembled de novo from MinION reads, and sequencing errors were corrected by extracting the consensus of the mapped reads three times using CLC Genomics Workbench v11.0.1 (Qiagen), with default parameters
As suggested by previous studies [1, 7], both CagA and VacA, the major virulence factors of the human gastric pathogen Helicobacter pylori [8], were absent in strain SNTW101c, indicating that unknown virulence factors contribute to bacterial pathogenesis

Summary

Introduction

Helicobacter suis strain SNTW101c, which was originally obtained from a patient with nodular gastritis, has been maintained in mouse stomach because of difficulty culturing it in vitro. Preparation kit (insert size, 500 to 900 bp); this resulted in a total of 263,361 reads (N50 ϭ 151 bp) and an average coverage depth of 46.1. Illumina reads were mapped onto the sequences assembled de novo from MinION reads, and sequencing errors were corrected by extracting the consensus of the mapped reads three times using CLC Genomics Workbench v11.0.1 (Qiagen), with default parameters.

Results

Conclusion