Cargando…
Genomic insights into phage-host interaction in the deep-sea chemolithoautotrophic Campylobacterota, Nitratiruptor
The genus Nitratiruptor represents one of the most numerically abundant chemolithoautotrophic Campylobacterota populations in the mixing zones of habitats between hydrothermal fluids and ambient seawater in deep-sea hydrothermal environments. We isolated and characterized four novel temperate phages...
Autores principales: | , , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2022
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9723563/ https://www.ncbi.nlm.nih.gov/pubmed/37938718 http://dx.doi.org/10.1038/s43705-022-00194-5 |
_version_ | 1784844209946099712 |
---|---|
author | Yoshida-Takashima, Yukari Takaki, Yoshihiro Yoshida, Mitsuhiro Zhang, Yi Nunoura, Takuro Takai, Ken |
author_facet | Yoshida-Takashima, Yukari Takaki, Yoshihiro Yoshida, Mitsuhiro Zhang, Yi Nunoura, Takuro Takai, Ken |
author_sort | Yoshida-Takashima, Yukari |
collection | PubMed |
description | The genus Nitratiruptor represents one of the most numerically abundant chemolithoautotrophic Campylobacterota populations in the mixing zones of habitats between hydrothermal fluids and ambient seawater in deep-sea hydrothermal environments. We isolated and characterized four novel temperate phages (NrS-2, NrS-3, NrS-4, and NrS-5) having a siphoviral morphology, infecting Nitratiruptor strains from the Hatoma Knoll hydrothermal field in the southern-Okinawa Trough, Japan, and conducted comparative genomic analyses among Nitratiruptor strains and their phages. The Nitratiruptor temperate phages shared many potential core genes (e.g., integrase, Cro, two structural proteins, lysozyme, and MazG) with each other despite their diverse morphological and genetic features. Some homologs of coding sequences (CDSs) of the temperate phages were dispersed throughout the non-prophage regions of the Nitratiruptor genomes. In addition, several regions of the phage genome sequences matched to spacer sequences within clustered regularly interspaced short palindromic repeats (CRISPR) in Nitratiruptor genomes. Moreover, a restriction-modification system found in a temperate phage affected an epigenetic feature of its host. These results strongly suggested a coevolution of temperate phages and their host genomes via the acquisition of temperate phages, the CRISPR systems, the nucleotide substitution, and the epigenetic regulation during multiple phage infections in the deep-sea environments. |
format | Online Article Text |
id | pubmed-9723563 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-97235632023-01-04 Genomic insights into phage-host interaction in the deep-sea chemolithoautotrophic Campylobacterota, Nitratiruptor Yoshida-Takashima, Yukari Takaki, Yoshihiro Yoshida, Mitsuhiro Zhang, Yi Nunoura, Takuro Takai, Ken ISME Commun Article The genus Nitratiruptor represents one of the most numerically abundant chemolithoautotrophic Campylobacterota populations in the mixing zones of habitats between hydrothermal fluids and ambient seawater in deep-sea hydrothermal environments. We isolated and characterized four novel temperate phages (NrS-2, NrS-3, NrS-4, and NrS-5) having a siphoviral morphology, infecting Nitratiruptor strains from the Hatoma Knoll hydrothermal field in the southern-Okinawa Trough, Japan, and conducted comparative genomic analyses among Nitratiruptor strains and their phages. The Nitratiruptor temperate phages shared many potential core genes (e.g., integrase, Cro, two structural proteins, lysozyme, and MazG) with each other despite their diverse morphological and genetic features. Some homologs of coding sequences (CDSs) of the temperate phages were dispersed throughout the non-prophage regions of the Nitratiruptor genomes. In addition, several regions of the phage genome sequences matched to spacer sequences within clustered regularly interspaced short palindromic repeats (CRISPR) in Nitratiruptor genomes. Moreover, a restriction-modification system found in a temperate phage affected an epigenetic feature of its host. These results strongly suggested a coevolution of temperate phages and their host genomes via the acquisition of temperate phages, the CRISPR systems, the nucleotide substitution, and the epigenetic regulation during multiple phage infections in the deep-sea environments. Nature Publishing Group UK 2022-11-01 /pmc/articles/PMC9723563/ /pubmed/37938718 http://dx.doi.org/10.1038/s43705-022-00194-5 Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/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/ (https://creativecommons.org/licenses/by/4.0/) . |
spellingShingle | Article Yoshida-Takashima, Yukari Takaki, Yoshihiro Yoshida, Mitsuhiro Zhang, Yi Nunoura, Takuro Takai, Ken Genomic insights into phage-host interaction in the deep-sea chemolithoautotrophic Campylobacterota, Nitratiruptor |
title | Genomic insights into phage-host interaction in the deep-sea chemolithoautotrophic Campylobacterota, Nitratiruptor |
title_full | Genomic insights into phage-host interaction in the deep-sea chemolithoautotrophic Campylobacterota, Nitratiruptor |
title_fullStr | Genomic insights into phage-host interaction in the deep-sea chemolithoautotrophic Campylobacterota, Nitratiruptor |
title_full_unstemmed | Genomic insights into phage-host interaction in the deep-sea chemolithoautotrophic Campylobacterota, Nitratiruptor |
title_short | Genomic insights into phage-host interaction in the deep-sea chemolithoautotrophic Campylobacterota, Nitratiruptor |
title_sort | genomic insights into phage-host interaction in the deep-sea chemolithoautotrophic campylobacterota, nitratiruptor |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9723563/ https://www.ncbi.nlm.nih.gov/pubmed/37938718 http://dx.doi.org/10.1038/s43705-022-00194-5 |
work_keys_str_mv | AT yoshidatakashimayukari genomicinsightsintophagehostinteractioninthedeepseachemolithoautotrophiccampylobacterotanitratiruptor AT takakiyoshihiro genomicinsightsintophagehostinteractioninthedeepseachemolithoautotrophiccampylobacterotanitratiruptor AT yoshidamitsuhiro genomicinsightsintophagehostinteractioninthedeepseachemolithoautotrophiccampylobacterotanitratiruptor AT zhangyi genomicinsightsintophagehostinteractioninthedeepseachemolithoautotrophiccampylobacterotanitratiruptor AT nunouratakuro genomicinsightsintophagehostinteractioninthedeepseachemolithoautotrophiccampylobacterotanitratiruptor AT takaiken genomicinsightsintophagehostinteractioninthedeepseachemolithoautotrophiccampylobacterotanitratiruptor |