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In silico Analysis of Virulence Associated Genes in Genomes of Escherichia Coli Strains Causing Colibacillosis in Poultry

INTRODUCTION: Colibacillosis – the most common disease of poultry, is caused mainly by avian pathogenic Escherichia coli (APEC). However, thus far, no pattern to the molecular basis of the pathogenicity of these bacteria has been established beyond dispute. In this study, genomes of APEC were invest...

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Autores principales: Kołsut, Joanna, Borówka, Paulina, Marciniak, Błażej, Wójcik, Ewelina, Wojtasik, Arkadiusz, Strapagiel, Dominik, Dastych, Jarosław
Formato: Online Artículo Texto
Lenguaje:English
Publicado: De Gruyter Open 2017
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5937339/
https://www.ncbi.nlm.nih.gov/pubmed/29978104
http://dx.doi.org/10.1515/jvetres-2017-0051
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author Kołsut, Joanna
Borówka, Paulina
Marciniak, Błażej
Wójcik, Ewelina
Wojtasik, Arkadiusz
Strapagiel, Dominik
Dastych, Jarosław
author_facet Kołsut, Joanna
Borówka, Paulina
Marciniak, Błażej
Wójcik, Ewelina
Wojtasik, Arkadiusz
Strapagiel, Dominik
Dastych, Jarosław
author_sort Kołsut, Joanna
collection PubMed
description INTRODUCTION: Colibacillosis – the most common disease of poultry, is caused mainly by avian pathogenic Escherichia coli (APEC). However, thus far, no pattern to the molecular basis of the pathogenicity of these bacteria has been established beyond dispute. In this study, genomes of APEC were investigated to ascribe importance and explore the distribution of 16 genes recognised as their virulence factors. MATERIAL AND METHODS: A total of 14 pathogenic for poultry E. coli strains were isolated, and their DNA was sequenced, assembled de novo, and annotated. Amino acid sequences from these bacteria and an additional 16 freely available APEC amino acid sequences were analysed with the DIFFIND tool to define their virulence factors. RESULTS: The DIFFIND tool enabled quick, reliable, and convenient assessment of the differences between compared amino acid sequences from bacterial genomes. The presence of 16 protein sequences indicated as pathogenicity factors in poultry resulted in the generation of a heatmap which categorises genomes in terms of the existence and similarity of the analysed protein sequences. CONCLUSION: The proposed method of detection of virulence factors using the capabilities of the DIFFIND tool may be useful in the analysis of similarities of E. coli and other sequences deriving from bacteria. Phylogenetic analysis resulted in reliable segregation of 30 APEC strains into five main clusters containing various virulence associated genes (VAGs).
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spelling pubmed-59373392018-07-05 In silico Analysis of Virulence Associated Genes in Genomes of Escherichia Coli Strains Causing Colibacillosis in Poultry Kołsut, Joanna Borówka, Paulina Marciniak, Błażej Wójcik, Ewelina Wojtasik, Arkadiusz Strapagiel, Dominik Dastych, Jarosław J Vet Res Research Article INTRODUCTION: Colibacillosis – the most common disease of poultry, is caused mainly by avian pathogenic Escherichia coli (APEC). However, thus far, no pattern to the molecular basis of the pathogenicity of these bacteria has been established beyond dispute. In this study, genomes of APEC were investigated to ascribe importance and explore the distribution of 16 genes recognised as their virulence factors. MATERIAL AND METHODS: A total of 14 pathogenic for poultry E. coli strains were isolated, and their DNA was sequenced, assembled de novo, and annotated. Amino acid sequences from these bacteria and an additional 16 freely available APEC amino acid sequences were analysed with the DIFFIND tool to define their virulence factors. RESULTS: The DIFFIND tool enabled quick, reliable, and convenient assessment of the differences between compared amino acid sequences from bacterial genomes. The presence of 16 protein sequences indicated as pathogenicity factors in poultry resulted in the generation of a heatmap which categorises genomes in terms of the existence and similarity of the analysed protein sequences. CONCLUSION: The proposed method of detection of virulence factors using the capabilities of the DIFFIND tool may be useful in the analysis of similarities of E. coli and other sequences deriving from bacteria. Phylogenetic analysis resulted in reliable segregation of 30 APEC strains into five main clusters containing various virulence associated genes (VAGs). De Gruyter Open 2017-12-27 /pmc/articles/PMC5937339/ /pubmed/29978104 http://dx.doi.org/10.1515/jvetres-2017-0051 Text en © 2017 J. Kołsut et al. http://creativecommons.org/licenses/by-nc-nd/3.0/ This is an open access article distributed under the Creative Commons Attribution-NonCommercial-NoDerivs license
spellingShingle Research Article
Kołsut, Joanna
Borówka, Paulina
Marciniak, Błażej
Wójcik, Ewelina
Wojtasik, Arkadiusz
Strapagiel, Dominik
Dastych, Jarosław
In silico Analysis of Virulence Associated Genes in Genomes of Escherichia Coli Strains Causing Colibacillosis in Poultry
title In silico Analysis of Virulence Associated Genes in Genomes of Escherichia Coli Strains Causing Colibacillosis in Poultry
title_full In silico Analysis of Virulence Associated Genes in Genomes of Escherichia Coli Strains Causing Colibacillosis in Poultry
title_fullStr In silico Analysis of Virulence Associated Genes in Genomes of Escherichia Coli Strains Causing Colibacillosis in Poultry
title_full_unstemmed In silico Analysis of Virulence Associated Genes in Genomes of Escherichia Coli Strains Causing Colibacillosis in Poultry
title_short In silico Analysis of Virulence Associated Genes in Genomes of Escherichia Coli Strains Causing Colibacillosis in Poultry
title_sort in silico analysis of virulence associated genes in genomes of escherichia coli strains causing colibacillosis in poultry
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5937339/
https://www.ncbi.nlm.nih.gov/pubmed/29978104
http://dx.doi.org/10.1515/jvetres-2017-0051
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