Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
. 2025 Jun 12;14(6):e0008225.
doi: 10.1128/mra.00082-25. Epub 2025 May 20.

Complete genome sequence of Helicobacter pylori isolated from residents in southwestern Colombia using Oxford Nanopore sequencing technology

Lizeth Mejia  1   2 , Julie Benavides-Melo  3 , Ernesto Argoty  4 , Liliana Montenegro  5 , Nelson Rivera-Franco  1   6 , Diana López-Alvarez  6   7 , Álvaro Pazos  2   8
Affiliations

Complete genome sequence of Helicobacter pylori isolated from residents in southwestern Colombia using Oxford Nanopore sequencing technology

Lizeth Mejia et al. Microbiol Resour Announc. .

Abstract

Genome sequences of Helicobacter pylori strains isolated from patients in Nariño, Colombia, with gastric lesions were assembled using Nanopore sequencing. Plasmids were detected in some strains and were predicted to be mobilizable, with relaxases of the MOBP type. H. pylori's virulence genes may explain the link with gastric cancer.

Keywords: Helicobacter pylori; precancerous gastric lesions; whole-genome sequencing.

PubMed Disclaimer

Conflict of interest statement

The authors declare no conflict of interest.

Figures

Fig 1
Fig 1
Maximum likelihood tree of the full database (192 sequences) of genomes of H. pylori. Color annotations are given in the circles around the terminal nodes, indicating the country of origin for the H. pylori isolates included in the tree. The color of the tips represents the lineage from which each genome was reported. The gray area indicates NCBI genomes, and the blue one the genomes obtained in this study.
See this image and copyright information in PMC

References

    1. Ramis IB. 2017. Molecular methods for detection of Helicobacter pylori infection: could they be the gold standard? J Bras Patol Med Lab 53:4. doi: 10.5935/1676-2444.20170005 - DOI
    1. Thorell K, Bengtsson-Palme J, Liu OH-F, Palacios Gonzales RV, Nookaew I, Rabeneck L, Paszat L, Graham DY, Nielsen J, Lundin SB, Sjöling Å. 2017. In vivo analysis of the viable microbiota and Helicobacter pylori transcriptome in gastric infection and early stages of carcinogenesis. Infect Immun 85:e00031-17. doi: 10.1128/IAI.00031-17 - DOI - PMC - PubMed
    1. Kodaman N, Pazos A, Schneider BG, Piazuelo MB, Mera R, Sobota RS, Sicinschi LA, Shaffer CL, Romero-Gallo J, de Sablet T, Harder RH, Bravo LE, Peek RM Jr, Wilson KT, Cover TL, Williams SM, Correa P. 2014. Human and Helicobacter pylori coevolution shapes the risk of gastric disease. Proc Natl Acad Sci USA 111:1455–1460. doi: 10.1073/pnas.1318093111 - DOI - PMC - PubMed
    1. Wick RR, Judd LM, Holt KE. 2019. Performance of neural network basecalling tools for Oxford Nanopore sequencing. Genome Biol 20:129. doi: 10.1186/s13059-019-1727-y - DOI - PMC - PubMed
    1. Martin M. 2011. Cutadapt removes adapter sequences from high-throughput sequencing reads. EMBnet J 17:10. doi: 10.14806/ej.17.1.200 - DOI

LinkOut - more resources