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Burkholderia cenocepacia Prophages—Prevalence, Chromosome Location and Major Genes Involved

Burkholderia cenocepacia, is a Gram-negative opportunistic pathogen that belongs to Burkholderia cepacia complex (BCC) group. BCC representatives carry various pathogenicity factors and can infect humans and plants. Phages as bacterial viruses play a significant role in biodiversity and ecological b...

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Autores principales: Roszniowski, Bartosz, McClean, Siobhán, Drulis-Kawa, Zuzanna
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6024312/
https://www.ncbi.nlm.nih.gov/pubmed/29857552
http://dx.doi.org/10.3390/v10060297
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author Roszniowski, Bartosz
McClean, Siobhán
Drulis-Kawa, Zuzanna
author_facet Roszniowski, Bartosz
McClean, Siobhán
Drulis-Kawa, Zuzanna
author_sort Roszniowski, Bartosz
collection PubMed
description Burkholderia cenocepacia, is a Gram-negative opportunistic pathogen that belongs to Burkholderia cepacia complex (BCC) group. BCC representatives carry various pathogenicity factors and can infect humans and plants. Phages as bacterial viruses play a significant role in biodiversity and ecological balance in the environment. Specifically, horizontal gene transfer (HGT) and lysogenic conversion (temperate phages) influence microbial diversification and fitness. In this study, we describe the prevalence and gene content of prophages in 16 fully sequenced B. cenocepacia genomes stored in NCBI database. The analysis was conducted in silico by manual and automatic approaches. Sixty-three potential prophage regions were found and classified as intact, incomplete, questionable, and artifacts. The regions were investigated for the presence of known virulence factors, resulting in the location of sixteen potential pathogenicity mechanisms, including toxin–antitoxin systems (TA), Major Facilitator Superfamily (MFS) transporters and responsible for drug resistance. Investigation of the region’s closest neighborhood highlighted three groups of genes with the highest occurrence—tRNA-Arg, dehydrogenase family proteins, and ABC transporter substrate-binding proteins. Searches for antiphage systems such as BacteRiophage EXclusion (BREX) and Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) in the analyzed strains suggested 10 sequence sets of CRISPR elements. Our results suggest that intact B. cenocepacia prophages may provide an evolutionary advantage to the bacterium, while domesticated prophages may help to maintain important genes.
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spelling pubmed-60243122018-07-16 Burkholderia cenocepacia Prophages—Prevalence, Chromosome Location and Major Genes Involved Roszniowski, Bartosz McClean, Siobhán Drulis-Kawa, Zuzanna Viruses Article Burkholderia cenocepacia, is a Gram-negative opportunistic pathogen that belongs to Burkholderia cepacia complex (BCC) group. BCC representatives carry various pathogenicity factors and can infect humans and plants. Phages as bacterial viruses play a significant role in biodiversity and ecological balance in the environment. Specifically, horizontal gene transfer (HGT) and lysogenic conversion (temperate phages) influence microbial diversification and fitness. In this study, we describe the prevalence and gene content of prophages in 16 fully sequenced B. cenocepacia genomes stored in NCBI database. The analysis was conducted in silico by manual and automatic approaches. Sixty-three potential prophage regions were found and classified as intact, incomplete, questionable, and artifacts. The regions were investigated for the presence of known virulence factors, resulting in the location of sixteen potential pathogenicity mechanisms, including toxin–antitoxin systems (TA), Major Facilitator Superfamily (MFS) transporters and responsible for drug resistance. Investigation of the region’s closest neighborhood highlighted three groups of genes with the highest occurrence—tRNA-Arg, dehydrogenase family proteins, and ABC transporter substrate-binding proteins. Searches for antiphage systems such as BacteRiophage EXclusion (BREX) and Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) in the analyzed strains suggested 10 sequence sets of CRISPR elements. Our results suggest that intact B. cenocepacia prophages may provide an evolutionary advantage to the bacterium, while domesticated prophages may help to maintain important genes. MDPI 2018-05-31 /pmc/articles/PMC6024312/ /pubmed/29857552 http://dx.doi.org/10.3390/v10060297 Text en © 2018 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Roszniowski, Bartosz
McClean, Siobhán
Drulis-Kawa, Zuzanna
Burkholderia cenocepacia Prophages—Prevalence, Chromosome Location and Major Genes Involved
title Burkholderia cenocepacia Prophages—Prevalence, Chromosome Location and Major Genes Involved
title_full Burkholderia cenocepacia Prophages—Prevalence, Chromosome Location and Major Genes Involved
title_fullStr Burkholderia cenocepacia Prophages—Prevalence, Chromosome Location and Major Genes Involved
title_full_unstemmed Burkholderia cenocepacia Prophages—Prevalence, Chromosome Location and Major Genes Involved
title_short Burkholderia cenocepacia Prophages—Prevalence, Chromosome Location and Major Genes Involved
title_sort burkholderia cenocepacia prophages—prevalence, chromosome location and major genes involved
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6024312/
https://www.ncbi.nlm.nih.gov/pubmed/29857552
http://dx.doi.org/10.3390/v10060297
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