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Genomic characterization of bacteriophage BI-EHEC infecting strains of Enterohemorrhagic Escherichia coli
OBJECTIVE: The aims of this research were to determine the genomic properties of BI-EHEC to control Enterohemorrhagic Escherichia coli (EHEC), which was isolated from previous study. Genomic analysis of this phage is essential for the assessment of this bacteriophage for further application as food...
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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BioMed Central
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8686590/ https://www.ncbi.nlm.nih.gov/pubmed/34930434 http://dx.doi.org/10.1186/s13104-021-05881-5 |
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author | Dewanggana, Marta Nisita Waturangi, Diana Elizabeth Yogiara |
author_facet | Dewanggana, Marta Nisita Waturangi, Diana Elizabeth Yogiara |
author_sort | Dewanggana, Marta Nisita |
collection | PubMed |
description | OBJECTIVE: The aims of this research were to determine the genomic properties of BI-EHEC to control Enterohemorrhagic Escherichia coli (EHEC), which was isolated from previous study. Genomic analysis of this phage is essential for the assessment of this bacteriophage for further application as food preservatives. RESULTS: Genome of BI-EHEC was successfully annotated using multiPhATE2. Structural and lytic cycle-related proteins such as head, tail, capsid, and lysozyme (lysin) were annotated. The phylogenetic tree of tail fiber protein and BRIG results showed that BI-EHEC was similar to phages of the same host in the bacteriophage genome database. There were no indications of virulence properties, antibiotic resistance genes and lysogenic protein among annotated genes which implied BI-EHEC followed a lytic life cycle. PHACTS analysis was done to confirm this notion further and yielded a lytic cycle result. Further analysis using CARD found that BI-EHEC does not contain residual ARGs per recommended parameter. Furthermore, BI-EHEC confirmed as lytic bacteriophage, making it a good candidate for biocontrol agent. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s13104-021-05881-5. |
format | Online Article Text |
id | pubmed-8686590 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-86865902021-12-20 Genomic characterization of bacteriophage BI-EHEC infecting strains of Enterohemorrhagic Escherichia coli Dewanggana, Marta Nisita Waturangi, Diana Elizabeth Yogiara BMC Res Notes Research Note OBJECTIVE: The aims of this research were to determine the genomic properties of BI-EHEC to control Enterohemorrhagic Escherichia coli (EHEC), which was isolated from previous study. Genomic analysis of this phage is essential for the assessment of this bacteriophage for further application as food preservatives. RESULTS: Genome of BI-EHEC was successfully annotated using multiPhATE2. Structural and lytic cycle-related proteins such as head, tail, capsid, and lysozyme (lysin) were annotated. The phylogenetic tree of tail fiber protein and BRIG results showed that BI-EHEC was similar to phages of the same host in the bacteriophage genome database. There were no indications of virulence properties, antibiotic resistance genes and lysogenic protein among annotated genes which implied BI-EHEC followed a lytic life cycle. PHACTS analysis was done to confirm this notion further and yielded a lytic cycle result. Further analysis using CARD found that BI-EHEC does not contain residual ARGs per recommended parameter. Furthermore, BI-EHEC confirmed as lytic bacteriophage, making it a good candidate for biocontrol agent. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s13104-021-05881-5. BioMed Central 2021-12-20 /pmc/articles/PMC8686590/ /pubmed/34930434 http://dx.doi.org/10.1186/s13104-021-05881-5 Text en © The Author(s) 2021 https://creativecommons.org/licenses/by/4.0/Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/ (https://creativecommons.org/publicdomain/zero/1.0/) ) applies to the data made available in this article, unless otherwise stated in a credit line to the data. |
spellingShingle | Research Note Dewanggana, Marta Nisita Waturangi, Diana Elizabeth Yogiara Genomic characterization of bacteriophage BI-EHEC infecting strains of Enterohemorrhagic Escherichia coli |
title | Genomic characterization of bacteriophage BI-EHEC infecting strains of Enterohemorrhagic Escherichia coli |
title_full | Genomic characterization of bacteriophage BI-EHEC infecting strains of Enterohemorrhagic Escherichia coli |
title_fullStr | Genomic characterization of bacteriophage BI-EHEC infecting strains of Enterohemorrhagic Escherichia coli |
title_full_unstemmed | Genomic characterization of bacteriophage BI-EHEC infecting strains of Enterohemorrhagic Escherichia coli |
title_short | Genomic characterization of bacteriophage BI-EHEC infecting strains of Enterohemorrhagic Escherichia coli |
title_sort | genomic characterization of bacteriophage bi-ehec infecting strains of enterohemorrhagic escherichia coli |
topic | Research Note |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8686590/ https://www.ncbi.nlm.nih.gov/pubmed/34930434 http://dx.doi.org/10.1186/s13104-021-05881-5 |
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