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A comparative genomics approach for identifying host-range determinants in Streptococcus thermophilus bacteriophages

Comparative genomics has proven useful in exploring the biodiversity of phages and understanding phage-host interactions. This knowledge is particularly useful for phages infecting Streptococcus thermophilus, as they constitute a constant threat during dairy fermentations. Here, we explore the genet...

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Autores principales: Szymczak, Paula, Rau, Martin Holm, Monteiro, João M., Pinho, Mariana G., Filipe, Sérgio Raposo, Vogensen, Finn Kvist, Zeidan, Ahmad A., Janzen, Thomas
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6541646/
https://www.ncbi.nlm.nih.gov/pubmed/31142793
http://dx.doi.org/10.1038/s41598-019-44481-z
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author Szymczak, Paula
Rau, Martin Holm
Monteiro, João M.
Pinho, Mariana G.
Filipe, Sérgio Raposo
Vogensen, Finn Kvist
Zeidan, Ahmad A.
Janzen, Thomas
author_facet Szymczak, Paula
Rau, Martin Holm
Monteiro, João M.
Pinho, Mariana G.
Filipe, Sérgio Raposo
Vogensen, Finn Kvist
Zeidan, Ahmad A.
Janzen, Thomas
author_sort Szymczak, Paula
collection PubMed
description Comparative genomics has proven useful in exploring the biodiversity of phages and understanding phage-host interactions. This knowledge is particularly useful for phages infecting Streptococcus thermophilus, as they constitute a constant threat during dairy fermentations. Here, we explore the genetic diversity of S. thermophilus phages to identify genetic determinants with a signature for host specificity, which could be linked to the bacterial receptor genotype. A comparative genomic analysis was performed on 142 S. thermophilus phage genomes, 55 of which were sequenced in this study. Effectively, 94 phages were assigned to the group cos (DT1), 36 to the group pac (O1205), six to the group 5093, and six to the group 987. The core genome-based phylogeny of phages from the two dominating groups and their receptor binding protein (RBP) phylogeny corresponded to the phage host-range. A role of RBP in host recognition was confirmed by constructing a fluorescent derivative of the RBP of phage CHPC951, followed by studying the binding of the protein to the host strain. Furthermore, the RBP phylogeny of the cos group was found to correlate with the host genotype of the exocellular polysaccharide-encoding operon. These findings provide novel insights towards developing strategies to combat phage infections in dairies.
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spelling pubmed-65416462019-06-07 A comparative genomics approach for identifying host-range determinants in Streptococcus thermophilus bacteriophages Szymczak, Paula Rau, Martin Holm Monteiro, João M. Pinho, Mariana G. Filipe, Sérgio Raposo Vogensen, Finn Kvist Zeidan, Ahmad A. Janzen, Thomas Sci Rep Article Comparative genomics has proven useful in exploring the biodiversity of phages and understanding phage-host interactions. This knowledge is particularly useful for phages infecting Streptococcus thermophilus, as they constitute a constant threat during dairy fermentations. Here, we explore the genetic diversity of S. thermophilus phages to identify genetic determinants with a signature for host specificity, which could be linked to the bacterial receptor genotype. A comparative genomic analysis was performed on 142 S. thermophilus phage genomes, 55 of which were sequenced in this study. Effectively, 94 phages were assigned to the group cos (DT1), 36 to the group pac (O1205), six to the group 5093, and six to the group 987. The core genome-based phylogeny of phages from the two dominating groups and their receptor binding protein (RBP) phylogeny corresponded to the phage host-range. A role of RBP in host recognition was confirmed by constructing a fluorescent derivative of the RBP of phage CHPC951, followed by studying the binding of the protein to the host strain. Furthermore, the RBP phylogeny of the cos group was found to correlate with the host genotype of the exocellular polysaccharide-encoding operon. These findings provide novel insights towards developing strategies to combat phage infections in dairies. Nature Publishing Group UK 2019-05-29 /pmc/articles/PMC6541646/ /pubmed/31142793 http://dx.doi.org/10.1038/s41598-019-44481-z Text en © The Author(s) 2019 Open Access This 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 license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license 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 license, visit http://creativecommons.org/licenses/by/4.0/.
spellingShingle Article
Szymczak, Paula
Rau, Martin Holm
Monteiro, João M.
Pinho, Mariana G.
Filipe, Sérgio Raposo
Vogensen, Finn Kvist
Zeidan, Ahmad A.
Janzen, Thomas
A comparative genomics approach for identifying host-range determinants in Streptococcus thermophilus bacteriophages
title A comparative genomics approach for identifying host-range determinants in Streptococcus thermophilus bacteriophages
title_full A comparative genomics approach for identifying host-range determinants in Streptococcus thermophilus bacteriophages
title_fullStr A comparative genomics approach for identifying host-range determinants in Streptococcus thermophilus bacteriophages
title_full_unstemmed A comparative genomics approach for identifying host-range determinants in Streptococcus thermophilus bacteriophages
title_short A comparative genomics approach for identifying host-range determinants in Streptococcus thermophilus bacteriophages
title_sort comparative genomics approach for identifying host-range determinants in streptococcus thermophilus bacteriophages
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6541646/
https://www.ncbi.nlm.nih.gov/pubmed/31142793
http://dx.doi.org/10.1038/s41598-019-44481-z
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