Genome-wide analysis of chromosomal import patterns after natural transformation of Helicobacter pylori

Recombination plays a dominant role in the evolution of the bacterial pathogen Helicobacter pylori, but its dynamics remain incompletely understood. Here we use an in vitro transformation system combined with genome sequencing to study chromosomal integration patterns after natural transformation. A...

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Main Authors:	Bubendorfer, Sebastian, Krebes, Juliane, Yang, Ines, Hage, Elias, Schulz, Thomas F., Bahlawane, Christelle, Didelot, Xavier, Suerbaum, Sebastian
Format:	Online
Language:	English
Published:	Nature Publishing Group 2016
Online Access:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4917963/

id	pubmed-4917963
recordtype	oai_dc
spelling	pubmed-49179632016-07-07 Genome-wide analysis of chromosomal import patterns after natural transformation of Helicobacter pylori Bubendorfer, Sebastian Krebes, Juliane Yang, Ines Hage, Elias Schulz, Thomas F. Bahlawane, Christelle Didelot, Xavier Suerbaum, Sebastian Article Recombination plays a dominant role in the evolution of the bacterial pathogen Helicobacter pylori, but its dynamics remain incompletely understood. Here we use an in vitro transformation system combined with genome sequencing to study chromosomal integration patterns after natural transformation. A single transformation cycle results in up to 21 imports, and repeated transformations generate a maximum of 92 imports (8% sequence replacement). Import lengths show a bimodal distribution with averages of 28 and 1,645 bp. Reanalysis of paired H. pylori genomes from chronically infected people demonstrates the same bimodal import pattern in vivo. Restriction endonucleases (REases) of the recipient bacteria fail to inhibit integration of homeologous DNA, independently of methylation. In contrast, REases limit the import of heterologous DNA. We conclude that restriction-modification systems inhibit the genomic integration of novel sequences, while they pose no barrier to homeologous recombination, which reconciles the observed stability of the H. pylori gene content and its highly recombinational population structure. Nature Publishing Group 2016-06-22 /pmc/articles/PMC4917963/ /pubmed/27329939 http://dx.doi.org/10.1038/ncomms11995 Text en Copyright © 2016, Nature Publishing Group, a division of Macmillan Publishers Limited. All Rights Reserved. http://creativecommons.org/licenses/by/4.0/ This work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article's Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/
repository_type	Open Access Journal
institution_category	Foreign Institution
institution	US National Center for Biotechnology Information
building	NCBI PubMed
collection	Online Access
language	English
format	Online
author	Bubendorfer, Sebastian Krebes, Juliane Yang, Ines Hage, Elias Schulz, Thomas F. Bahlawane, Christelle Didelot, Xavier Suerbaum, Sebastian
spellingShingle	Bubendorfer, Sebastian Krebes, Juliane Yang, Ines Hage, Elias Schulz, Thomas F. Bahlawane, Christelle Didelot, Xavier Suerbaum, Sebastian Genome-wide analysis of chromosomal import patterns after natural transformation of Helicobacter pylori
author_facet	Bubendorfer, Sebastian Krebes, Juliane Yang, Ines Hage, Elias Schulz, Thomas F. Bahlawane, Christelle Didelot, Xavier Suerbaum, Sebastian
author_sort	Bubendorfer, Sebastian
title	Genome-wide analysis of chromosomal import patterns after natural transformation of Helicobacter pylori
title_short	Genome-wide analysis of chromosomal import patterns after natural transformation of Helicobacter pylori
title_full	Genome-wide analysis of chromosomal import patterns after natural transformation of Helicobacter pylori
title_fullStr	Genome-wide analysis of chromosomal import patterns after natural transformation of Helicobacter pylori
title_full_unstemmed	Genome-wide analysis of chromosomal import patterns after natural transformation of Helicobacter pylori
title_sort	genome-wide analysis of chromosomal import patterns after natural transformation of helicobacter pylori
description	Recombination plays a dominant role in the evolution of the bacterial pathogen Helicobacter pylori, but its dynamics remain incompletely understood. Here we use an in vitro transformation system combined with genome sequencing to study chromosomal integration patterns after natural transformation. A single transformation cycle results in up to 21 imports, and repeated transformations generate a maximum of 92 imports (8% sequence replacement). Import lengths show a bimodal distribution with averages of 28 and 1,645 bp. Reanalysis of paired H. pylori genomes from chronically infected people demonstrates the same bimodal import pattern in vivo. Restriction endonucleases (REases) of the recipient bacteria fail to inhibit integration of homeologous DNA, independently of methylation. In contrast, REases limit the import of heterologous DNA. We conclude that restriction-modification systems inhibit the genomic integration of novel sequences, while they pose no barrier to homeologous recombination, which reconciles the observed stability of the H. pylori gene content and its highly recombinational population structure.
publisher	Nature Publishing Group
publishDate	2016
url	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4917963/
_version_	1613598536504442880

Genome-wide analysis of chromosomal import patterns after natural transformation of Helicobacter pylori

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