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Locality and diel cycling of viral production revealed by a 24 h time course cross-omics analysis in a coastal region of Japan

Viruses infecting microorganisms are ubiquitous and abundant in the ocean. However, it is unclear when and where the numerous viral particles we observe in the sea are produced and whether they are active. To address these questions, we performed time-series analyses of viral metagenomes and microbi...

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Autores principales: Yoshida, Takashi, Nishimura, Yosuke, Watai, Hiroyasu, Haruki, Nana, Morimoto, Daichi, Kaneko, Hiroto, Honda, Takashi, Yamamoto, Keigo, Hingamp, Pascal, Sako, Yoshihiko, Goto, Susumu, Ogata, Hiroyuki
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5932082/
https://www.ncbi.nlm.nih.gov/pubmed/29382948
http://dx.doi.org/10.1038/s41396-018-0052-x
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author Yoshida, Takashi
Nishimura, Yosuke
Watai, Hiroyasu
Haruki, Nana
Morimoto, Daichi
Kaneko, Hiroto
Honda, Takashi
Yamamoto, Keigo
Hingamp, Pascal
Sako, Yoshihiko
Goto, Susumu
Ogata, Hiroyuki
author_facet Yoshida, Takashi
Nishimura, Yosuke
Watai, Hiroyasu
Haruki, Nana
Morimoto, Daichi
Kaneko, Hiroto
Honda, Takashi
Yamamoto, Keigo
Hingamp, Pascal
Sako, Yoshihiko
Goto, Susumu
Ogata, Hiroyuki
author_sort Yoshida, Takashi
collection PubMed
description Viruses infecting microorganisms are ubiquitous and abundant in the ocean. However, it is unclear when and where the numerous viral particles we observe in the sea are produced and whether they are active. To address these questions, we performed time-series analyses of viral metagenomes and microbial metatranscriptomes collected over a period of 24 h at a Japanese coastal site. Through mapping the metatranscriptomic reads on three sets of viral genomes ((i) 878 contigs of Osaka Bay viromes (OBV), (ii) 1766 environmental viral genomes from marine viromes, and (iii) 2429 reference viral genomes), we revealed that all the local OBV contigs were transcribed in the host fraction. This indicates that the majority of viral populations detected in viromes are active, and suggests that virions are rapidly diluted as a result of diffusion, currents, and mixing. Our data further revealed a peak of cyanophage gene expression in the afternoon/dusk followed by an increase of genomes from their virions at night and less-coherent infectious patterns for viruses putatively infecting various groups of heterotrophs. This suggests that cyanophages drive the diel release of cyanobacteria-derived organic matter into the environment and viruses of heterotrophic bacteria might have adapted to the population-specific life cycles of hosts.
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spelling pubmed-59320822018-05-04 Locality and diel cycling of viral production revealed by a 24 h time course cross-omics analysis in a coastal region of Japan Yoshida, Takashi Nishimura, Yosuke Watai, Hiroyasu Haruki, Nana Morimoto, Daichi Kaneko, Hiroto Honda, Takashi Yamamoto, Keigo Hingamp, Pascal Sako, Yoshihiko Goto, Susumu Ogata, Hiroyuki ISME J Article Viruses infecting microorganisms are ubiquitous and abundant in the ocean. However, it is unclear when and where the numerous viral particles we observe in the sea are produced and whether they are active. To address these questions, we performed time-series analyses of viral metagenomes and microbial metatranscriptomes collected over a period of 24 h at a Japanese coastal site. Through mapping the metatranscriptomic reads on three sets of viral genomes ((i) 878 contigs of Osaka Bay viromes (OBV), (ii) 1766 environmental viral genomes from marine viromes, and (iii) 2429 reference viral genomes), we revealed that all the local OBV contigs were transcribed in the host fraction. This indicates that the majority of viral populations detected in viromes are active, and suggests that virions are rapidly diluted as a result of diffusion, currents, and mixing. Our data further revealed a peak of cyanophage gene expression in the afternoon/dusk followed by an increase of genomes from their virions at night and less-coherent infectious patterns for viruses putatively infecting various groups of heterotrophs. This suggests that cyanophages drive the diel release of cyanobacteria-derived organic matter into the environment and viruses of heterotrophic bacteria might have adapted to the population-specific life cycles of hosts. Nature Publishing Group UK 2018-01-30 2018-05 /pmc/articles/PMC5932082/ /pubmed/29382948 http://dx.doi.org/10.1038/s41396-018-0052-x Text en © The Author(s) 2018 Open Access This article is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License, which permits any non-commercial use, sharing, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, and provide a link to the Creative Commons license. You do not have permission under this license to share adapted material derived from this article or parts of it. 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-nc-nd/4.0/.
spellingShingle Article
Yoshida, Takashi
Nishimura, Yosuke
Watai, Hiroyasu
Haruki, Nana
Morimoto, Daichi
Kaneko, Hiroto
Honda, Takashi
Yamamoto, Keigo
Hingamp, Pascal
Sako, Yoshihiko
Goto, Susumu
Ogata, Hiroyuki
Locality and diel cycling of viral production revealed by a 24 h time course cross-omics analysis in a coastal region of Japan
title Locality and diel cycling of viral production revealed by a 24 h time course cross-omics analysis in a coastal region of Japan
title_full Locality and diel cycling of viral production revealed by a 24 h time course cross-omics analysis in a coastal region of Japan
title_fullStr Locality and diel cycling of viral production revealed by a 24 h time course cross-omics analysis in a coastal region of Japan
title_full_unstemmed Locality and diel cycling of viral production revealed by a 24 h time course cross-omics analysis in a coastal region of Japan
title_short Locality and diel cycling of viral production revealed by a 24 h time course cross-omics analysis in a coastal region of Japan
title_sort locality and diel cycling of viral production revealed by a 24 h time course cross-omics analysis in a coastal region of japan
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5932082/
https://www.ncbi.nlm.nih.gov/pubmed/29382948
http://dx.doi.org/10.1038/s41396-018-0052-x
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