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Whole-genome sequencing of Listeria innocua recovered from retail milk and dairy products in Egypt

The similarity of the Listeria innocua genome with Listeria monocytogenes and their presence in the same niche may facilitate gene transfer between them. A better understanding of the mechanisms responsible for bacterial virulence requires an in-depth knowledge of the genetic characteristics of thes...

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Autores principales: Ramadan, Hazem, Al-Ashmawy, Maha, Soliman, Ahmed M., Elbediwi, Mohammed, Sabeq, Islam, Yousef, Mona, Algammal, Abdelazeem M., Hiott, Lari M., Berrang, Mark E., Frye, Jonathan G., Jackson, Charlene R.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10206011/
https://www.ncbi.nlm.nih.gov/pubmed/37234542
http://dx.doi.org/10.3389/fmicb.2023.1160244
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author Ramadan, Hazem
Al-Ashmawy, Maha
Soliman, Ahmed M.
Elbediwi, Mohammed
Sabeq, Islam
Yousef, Mona
Algammal, Abdelazeem M.
Hiott, Lari M.
Berrang, Mark E.
Frye, Jonathan G.
Jackson, Charlene R.
author_facet Ramadan, Hazem
Al-Ashmawy, Maha
Soliman, Ahmed M.
Elbediwi, Mohammed
Sabeq, Islam
Yousef, Mona
Algammal, Abdelazeem M.
Hiott, Lari M.
Berrang, Mark E.
Frye, Jonathan G.
Jackson, Charlene R.
author_sort Ramadan, Hazem
collection PubMed
description The similarity of the Listeria innocua genome with Listeria monocytogenes and their presence in the same niche may facilitate gene transfer between them. A better understanding of the mechanisms responsible for bacterial virulence requires an in-depth knowledge of the genetic characteristics of these bacteria. In this context, draft whole genome sequences were completed on five L. innocua isolated from milk and dairy products in Egypt. The assembled sequences were screened for antimicrobial resistance and virulence genes, plasmid replicons and multilocus sequence types (MLST); phylogenetic analysis of the sequenced isolates was also performed. The sequencing results revealed the presence of only one antimicrobial resistance gene, fosX, in the L. innocua isolates. However, the five isolates carried 13 virulence genes involved in adhesion, invasion, surface protein anchoring, peptidoglycan degradation, intracellular survival, and heat stress; all five lacked the Listeria Pathogenicity Island 1 (LIPI-1) genes. MLST assigned these five isolates into the same sequence type (ST), ST-1085; however, single nucleotide polymorphism (SNP)-based phylogenetic analysis revealed 422–1,091 SNP differences between our isolates and global lineages of L. innocua. The five isolates possessed an ATP-dependent protease (clpL) gene, which mediates heat resistance, on a rep25 type plasmids. Blast analysis of clpL-carrying plasmid contigs showed approximately 99% sequence similarity to the corresponding parts of plasmids of L. monocytogenes strains 2015TE24968 and N1-011A previously isolated from Italy and the United States, respectively. Although this plasmid has been linked to L. monocytogenes that was responsible for a serious outbreak, this is the first report of L. innocua containing clpL-carrying plasmids. Various genetic mechanisms of virulence transfer among Listeria species and other genera could raise the possibility of the evolution of virulent strains of L. innocua. Such strains could challenge processing and preservation protocols and pose health risks from dairy products. Ongoing genomic research is necessary to identify these alarming genetic changes and develop preventive and control measures.
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spelling pubmed-102060112023-05-25 Whole-genome sequencing of Listeria innocua recovered from retail milk and dairy products in Egypt Ramadan, Hazem Al-Ashmawy, Maha Soliman, Ahmed M. Elbediwi, Mohammed Sabeq, Islam Yousef, Mona Algammal, Abdelazeem M. Hiott, Lari M. Berrang, Mark E. Frye, Jonathan G. Jackson, Charlene R. Front Microbiol Microbiology The similarity of the Listeria innocua genome with Listeria monocytogenes and their presence in the same niche may facilitate gene transfer between them. A better understanding of the mechanisms responsible for bacterial virulence requires an in-depth knowledge of the genetic characteristics of these bacteria. In this context, draft whole genome sequences were completed on five L. innocua isolated from milk and dairy products in Egypt. The assembled sequences were screened for antimicrobial resistance and virulence genes, plasmid replicons and multilocus sequence types (MLST); phylogenetic analysis of the sequenced isolates was also performed. The sequencing results revealed the presence of only one antimicrobial resistance gene, fosX, in the L. innocua isolates. However, the five isolates carried 13 virulence genes involved in adhesion, invasion, surface protein anchoring, peptidoglycan degradation, intracellular survival, and heat stress; all five lacked the Listeria Pathogenicity Island 1 (LIPI-1) genes. MLST assigned these five isolates into the same sequence type (ST), ST-1085; however, single nucleotide polymorphism (SNP)-based phylogenetic analysis revealed 422–1,091 SNP differences between our isolates and global lineages of L. innocua. The five isolates possessed an ATP-dependent protease (clpL) gene, which mediates heat resistance, on a rep25 type plasmids. Blast analysis of clpL-carrying plasmid contigs showed approximately 99% sequence similarity to the corresponding parts of plasmids of L. monocytogenes strains 2015TE24968 and N1-011A previously isolated from Italy and the United States, respectively. Although this plasmid has been linked to L. monocytogenes that was responsible for a serious outbreak, this is the first report of L. innocua containing clpL-carrying plasmids. Various genetic mechanisms of virulence transfer among Listeria species and other genera could raise the possibility of the evolution of virulent strains of L. innocua. Such strains could challenge processing and preservation protocols and pose health risks from dairy products. Ongoing genomic research is necessary to identify these alarming genetic changes and develop preventive and control measures. Frontiers Media S.A. 2023-05-10 /pmc/articles/PMC10206011/ /pubmed/37234542 http://dx.doi.org/10.3389/fmicb.2023.1160244 Text en Copyright © 2023 Ramadan, Al-Ashmawy, Soliman, Elbediwi, Sabeq, Yousef, Algammal, Hiott, Berrang, Frye and Jackson. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Microbiology
Ramadan, Hazem
Al-Ashmawy, Maha
Soliman, Ahmed M.
Elbediwi, Mohammed
Sabeq, Islam
Yousef, Mona
Algammal, Abdelazeem M.
Hiott, Lari M.
Berrang, Mark E.
Frye, Jonathan G.
Jackson, Charlene R.
Whole-genome sequencing of Listeria innocua recovered from retail milk and dairy products in Egypt
title Whole-genome sequencing of Listeria innocua recovered from retail milk and dairy products in Egypt
title_full Whole-genome sequencing of Listeria innocua recovered from retail milk and dairy products in Egypt
title_fullStr Whole-genome sequencing of Listeria innocua recovered from retail milk and dairy products in Egypt
title_full_unstemmed Whole-genome sequencing of Listeria innocua recovered from retail milk and dairy products in Egypt
title_short Whole-genome sequencing of Listeria innocua recovered from retail milk and dairy products in Egypt
title_sort whole-genome sequencing of listeria innocua recovered from retail milk and dairy products in egypt
topic Microbiology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10206011/
https://www.ncbi.nlm.nih.gov/pubmed/37234542
http://dx.doi.org/10.3389/fmicb.2023.1160244
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