Genomic Characterization of the Lytic Phage vB_EcoP_EcoN5 that infects Shiga toxin-producing Escherichia coli O157: H7
| dc.contributor.author | Solano Castañeda, Cristian Alfredo | |
| dc.date.accessioned | 2020-02-11T22:29:23Z | |
| dc.date.available | 2020-02-11T22:29:23Z | |
| dc.date.issued | 2019 | |
| dc.description.abstract | Los bacteriófagos infectan y matan bacterias de forma selectiva y eficiente.La diseminación de cepas de Escherichia coli resistentes a los antibióticos volvió a atraer a los fagos como agentes terapéuticos potenciales. El objetivo de este estudio fue caracterizar un nuevo fago lítico, vB_EcoP_EcoN5, que infecta Escherichia coli O157: H7 productora de toxina shiga donde se tomó muestras de aguas residuales en Barranquilla – Colombia, para asilar el bacteriófago mediante un método de enriquecimiento, el cual permitió determinar la susceptibilidad H7 y se secuenció el genoma completo; una vez obtenida la biblioteca final que fue secuenciada con el instrumento de celda de flujo MiSeq v3 (Illumina Inc.), para generar al menos un millón de lecturas se ensamblaron en un único contig con una cobertura de 14217 veces usando SPAdes, después que Trimmomatic eliminó las secuencias del adaptador se realizó la respectiva anotación utilizando RAST (Anotación Rápida Usando Tecnología de Subsistema) (http://rast.theseed.org/FIG/rast.cgi), que es un servicio totalmente automatizado para anotar genomas completos de arca y fagos, y asignar funciones a los genes (Inicialmente se ejecutó un BLAST (https://blast.ncbi.nlm.nih.gov), para encontrar genomas con alta identidad como referencia y se usó también vB_EcoP_Eco32 como genoma de referencia (ID de taxonomía: 490103, Genbank NC: 010324), en la plataforma RAST, el genoma de referencia con su taxonomía ID se utilizó para llevar a cabo el proceso de anotación y se obtuvo un archivo gbk; el cual fue visualizado por Uniprot UGENE mediante BLASTP se verificó manualmente la función de cada ORF y la base de datos Pfam. | spa |
| dc.description.abstract | Bacteriophages infect and kill bacteria selectively and efficiently. The dissemination of antibiotic-resistance strains of Escherichia coli, reattracted phages as potential therapeutic agents. The aim of this study was to characterize a novel lytic phage, vB_EcoP_EcoN5, infecting shiga toxin-producing Escherichia coli O157: H7. The genome was 76,083 bp long of dsDNA with a G+C of 42.09%. Annotation of EcoN5 revealed 128 ORFs where 40 ORFs had a predicted function by Blastp and HHPred analysis. EcoN5 genome codes for a rare arginine tRNA-anticodon UCU, which could give this phage a replication advantage during the infection cycle. Phylogenetic analysis and average nucleotide identity placed EcoN5 as new member of the Kuravirus genre within the Podoviridae family. This study advances the knowledge of E. coli phages and provides a possible candidate to be considered for phage therapy. | eng |
| dc.format.mimetype | spa | |
| dc.identifier.uri | https://hdl.handle.net/20.500.12442/4725 | |
| dc.language.iso | spa | spa |
| dc.publisher | Ediciones Universidad Simón Bolívar | spa |
| dc.publisher | Facultad de Ciencias Básicas y Biomédicas | spa |
| dc.rights | Attribution-NonCommercial-NoDerivatives 4.0 Internacional | eng |
| dc.rights.accessrights | info:eu-repo/semantics/restrictedAccess | spa |
| dc.rights.uri | http://creativecommons.org/licenses/by-nc-nd/4.0/ | |
| dc.subject | Terapia con fagos | spa |
| dc.subject | Diversidad de fagos | spa |
| dc.subject | Resistencia a antibióticos | spa |
| dc.subject | Fagos de E. coli | spa |
| dc.subject | Phage therapy | eng |
| dc.subject | Phage diversity | eng |
| dc.subject | Antibiotic-resistance | eng |
| dc.subject | E. coli phages | eng |
| dc.title | Genomic Characterization of the Lytic Phage vB_EcoP_EcoN5 that infects Shiga toxin-producing Escherichia coli O157: H7 | eng |
| dc.type | Other | spa |
| dc.type.driver | Other | spa |
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| oaire.version | info:eu-repo/semantics/acceptedVersion | spa |
| sb.programa | Maestría en Genética | spa |
| sb.sede | Sede Barranquilla | spa |