Transposition Behavior Revealed by High-Resolution Description of Pseudomonas Aeruginosa Saltovirus Integration Sites
Transposable phages, also called saltoviruses, of which the Escherichia coli phage Mu is the reference, are temperate phages that multiply their genome through replicative transposition at multiple sites in their host chromosome. The viral genome is packaged together with host DNA at both ends. In t...
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doaj-c496b5b07d2944779e9250bdd25fe6d72020-11-24T23:18:58ZengMDPI AGViruses1999-49152018-05-0110524510.3390/v10050245v10050245Transposition Behavior Revealed by High-Resolution Description of Pseudomonas Aeruginosa Saltovirus Integration SitesGilles Vergnaud0Cédric Midoux1Yann Blouin2Maria Bourkaltseva3Victor Krylov4Christine Pourcel5Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ. Paris-Sud, Université Paris-Saclay, 91198 Gif-sur-Yvette CEDEX, FranceInstitute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ. Paris-Sud, Université Paris-Saclay, 91198 Gif-sur-Yvette CEDEX, FranceInstitute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ. Paris-Sud, Université Paris-Saclay, 91198 Gif-sur-Yvette CEDEX, FranceI. I. Mechnikov Research Institute for Vaccines & Sera, Moscow 105064, RussiaI. I. Mechnikov Research Institute for Vaccines & Sera, Moscow 105064, RussiaInstitute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ. Paris-Sud, Université Paris-Saclay, 91198 Gif-sur-Yvette CEDEX, FranceTransposable phages, also called saltoviruses, of which the Escherichia coli phage Mu is the reference, are temperate phages that multiply their genome through replicative transposition at multiple sites in their host chromosome. The viral genome is packaged together with host DNA at both ends. In the present work, genome sequencing of three Pseudomonas aeruginosa transposable phages, HW12, 2P1, and Ab30, incidentally gave us access to the location of thousands of replicative integration sites and revealed the existence of a variable number of hotspots. Taking advantage of deep sequencing, we then designed an experiment to study 13,000,000 transposon integration sites of bacteriophage Ab30. The investigation revealed the presence of 42 transposition hotspots adjacent to bacterial interspersed mosaic elements (BIME) accounting for 5% of all transposition sites. The rest of the sites appeared widely distributed with the exception of coldspots associated with low G-C content segments, including the putative O-antigen biosynthesis cluster. Surprisingly, 0.4% of the transposition events occurred in a copy of the phage genome itself, indicating that the previously described immunity against such events is slightly leaky. This observation allowed drawing an image of the phage chromosome supercoiling into four loops.http://www.mdpi.com/1999-4915/10/5/245transposable phagestransposon integrationhotspotsdeep sequencingchromosomal domainsupercoilingimaging |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Gilles Vergnaud Cédric Midoux Yann Blouin Maria Bourkaltseva Victor Krylov Christine Pourcel |
spellingShingle |
Gilles Vergnaud Cédric Midoux Yann Blouin Maria Bourkaltseva Victor Krylov Christine Pourcel Transposition Behavior Revealed by High-Resolution Description of Pseudomonas Aeruginosa Saltovirus Integration Sites Viruses transposable phages transposon integration hotspots deep sequencing chromosomal domain supercoiling imaging |
author_facet |
Gilles Vergnaud Cédric Midoux Yann Blouin Maria Bourkaltseva Victor Krylov Christine Pourcel |
author_sort |
Gilles Vergnaud |
title |
Transposition Behavior Revealed by High-Resolution Description of Pseudomonas Aeruginosa Saltovirus Integration Sites |
title_short |
Transposition Behavior Revealed by High-Resolution Description of Pseudomonas Aeruginosa Saltovirus Integration Sites |
title_full |
Transposition Behavior Revealed by High-Resolution Description of Pseudomonas Aeruginosa Saltovirus Integration Sites |
title_fullStr |
Transposition Behavior Revealed by High-Resolution Description of Pseudomonas Aeruginosa Saltovirus Integration Sites |
title_full_unstemmed |
Transposition Behavior Revealed by High-Resolution Description of Pseudomonas Aeruginosa Saltovirus Integration Sites |
title_sort |
transposition behavior revealed by high-resolution description of pseudomonas aeruginosa saltovirus integration sites |
publisher |
MDPI AG |
series |
Viruses |
issn |
1999-4915 |
publishDate |
2018-05-01 |
description |
Transposable phages, also called saltoviruses, of which the Escherichia coli phage Mu is the reference, are temperate phages that multiply their genome through replicative transposition at multiple sites in their host chromosome. The viral genome is packaged together with host DNA at both ends. In the present work, genome sequencing of three Pseudomonas aeruginosa transposable phages, HW12, 2P1, and Ab30, incidentally gave us access to the location of thousands of replicative integration sites and revealed the existence of a variable number of hotspots. Taking advantage of deep sequencing, we then designed an experiment to study 13,000,000 transposon integration sites of bacteriophage Ab30. The investigation revealed the presence of 42 transposition hotspots adjacent to bacterial interspersed mosaic elements (BIME) accounting for 5% of all transposition sites. The rest of the sites appeared widely distributed with the exception of coldspots associated with low G-C content segments, including the putative O-antigen biosynthesis cluster. Surprisingly, 0.4% of the transposition events occurred in a copy of the phage genome itself, indicating that the previously described immunity against such events is slightly leaky. This observation allowed drawing an image of the phage chromosome supercoiling into four loops. |
topic |
transposable phages transposon integration hotspots deep sequencing chromosomal domain supercoiling imaging |
url |
http://www.mdpi.com/1999-4915/10/5/245 |
work_keys_str_mv |
AT gillesvergnaud transpositionbehaviorrevealedbyhighresolutiondescriptionofpseudomonasaeruginosasaltovirusintegrationsites AT cedricmidoux transpositionbehaviorrevealedbyhighresolutiondescriptionofpseudomonasaeruginosasaltovirusintegrationsites AT yannblouin transpositionbehaviorrevealedbyhighresolutiondescriptionofpseudomonasaeruginosasaltovirusintegrationsites AT mariabourkaltseva transpositionbehaviorrevealedbyhighresolutiondescriptionofpseudomonasaeruginosasaltovirusintegrationsites AT victorkrylov transpositionbehaviorrevealedbyhighresolutiondescriptionofpseudomonasaeruginosasaltovirusintegrationsites AT christinepourcel transpositionbehaviorrevealedbyhighresolutiondescriptionofpseudomonasaeruginosasaltovirusintegrationsites |
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