From virus isolation to metagenome generation for investigating viral diversity in deep-sea sediments

Abstract Viruses are the most abundant and, likely, one of the most diverse biological components in the oceans. By infecting their hosts, they play key roles in biogeochemical cycles and ecosystem functioning at a global scale. The ocean interior hosts most of the microbial life, and, despite deep-...

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Autores principales:	Cinzia Corinaldesi, Michael Tangherlini, Antonio Dell’Anno
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2017
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/a10c5dbbc35d4361ab39cd8049b9dce5
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spelling	oai:doaj.org-article:a10c5dbbc35d4361ab39cd8049b9dce52021-12-02T16:08:13ZFrom virus isolation to metagenome generation for investigating viral diversity in deep-sea sediments10.1038/s41598-017-08783-42045-2322https://doaj.org/article/a10c5dbbc35d4361ab39cd8049b9dce52017-08-01T00:00:00Zhttps://doi.org/10.1038/s41598-017-08783-4https://doaj.org/toc/2045-2322Abstract Viruses are the most abundant and, likely, one of the most diverse biological components in the oceans. By infecting their hosts, they play key roles in biogeochemical cycles and ecosystem functioning at a global scale. The ocean interior hosts most of the microbial life, and, despite deep-sea sediments represent the main repository of this component and the largest biome on Earth, viral diversity in these ecosystems remains almost completely unknown. We compared a physical-chemical procedure and a previously published sediment washing-based procedure for isolating viruses from benthic deep-sea ecosystems to generate viromes through high-throughput sequencing. The procedure based on a physical-chemical dislodgment of viral particles from the sediments, followed by vacuum filtration was much more efficient allowing us to recover >85% of the extractable viruses. By using this procedure, a high fraction of viral DNA was recovered and new viromes from different benthic deep-sea sites were generated. Such viromes were diversified in terms of both viral families and putative functions. Overall, the results presented here provide new insights for evaluating benthic deep-sea viral diversity through metagenomic analyses, and reveal that deep-sea sediments are a hot spot of novel viral genotypes and functions.Cinzia CorinaldesiMichael TangherliniAntonio Dell’AnnoNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 7, Iss 1, Pp 1-12 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Cinzia Corinaldesi Michael Tangherlini Antonio Dell’Anno From virus isolation to metagenome generation for investigating viral diversity in deep-sea sediments
description	Abstract Viruses are the most abundant and, likely, one of the most diverse biological components in the oceans. By infecting their hosts, they play key roles in biogeochemical cycles and ecosystem functioning at a global scale. The ocean interior hosts most of the microbial life, and, despite deep-sea sediments represent the main repository of this component and the largest biome on Earth, viral diversity in these ecosystems remains almost completely unknown. We compared a physical-chemical procedure and a previously published sediment washing-based procedure for isolating viruses from benthic deep-sea ecosystems to generate viromes through high-throughput sequencing. The procedure based on a physical-chemical dislodgment of viral particles from the sediments, followed by vacuum filtration was much more efficient allowing us to recover >85% of the extractable viruses. By using this procedure, a high fraction of viral DNA was recovered and new viromes from different benthic deep-sea sites were generated. Such viromes were diversified in terms of both viral families and putative functions. Overall, the results presented here provide new insights for evaluating benthic deep-sea viral diversity through metagenomic analyses, and reveal that deep-sea sediments are a hot spot of novel viral genotypes and functions.
format	article
author	Cinzia Corinaldesi Michael Tangherlini Antonio Dell’Anno
author_facet	Cinzia Corinaldesi Michael Tangherlini Antonio Dell’Anno
author_sort	Cinzia Corinaldesi
title	From virus isolation to metagenome generation for investigating viral diversity in deep-sea sediments
title_short	From virus isolation to metagenome generation for investigating viral diversity in deep-sea sediments
title_full	From virus isolation to metagenome generation for investigating viral diversity in deep-sea sediments
title_fullStr	From virus isolation to metagenome generation for investigating viral diversity in deep-sea sediments
title_full_unstemmed	From virus isolation to metagenome generation for investigating viral diversity in deep-sea sediments
title_sort	from virus isolation to metagenome generation for investigating viral diversity in deep-sea sediments
publisher	Nature Portfolio
publishDate	2017
url	https://doaj.org/article/a10c5dbbc35d4361ab39cd8049b9dce5
work_keys_str_mv	AT cinziacorinaldesi fromvirusisolationtometagenomegenerationforinvestigatingviraldiversityindeepseasediments AT michaeltangherlini fromvirusisolationtometagenomegenerationforinvestigatingviraldiversityindeepseasediments AT antoniodellanno fromvirusisolationtometagenomegenerationforinvestigatingviraldiversityindeepseasediments
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From virus isolation to metagenome generation for investigating viral diversity in deep-sea sediments

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