Efficient dilution-to-extinction isolation of novel virus–host model systems for fastidious heterotrophic bacteria
dc.contributor.author | Buchholz, HH | |
dc.contributor.author | Michelsen, ML | |
dc.contributor.author | Bolanos, LM | |
dc.contributor.author | Browne, E | |
dc.contributor.author | Allen, MJ | |
dc.contributor.author | Temperton, B | |
dc.date.accessioned | 2021-01-06T15:08:42Z | |
dc.date.issued | 2021-01-25 | |
dc.description.abstract | Microbes and their associated viruses are key drivers of biogeochemical processes in marine and soil biomes. While viruses of phototrophic cyanobacteria are well-represented in model systems, challenges of isolating marine microbial heterotrophs and their viruses have hampered experimental approaches to quantify the importance of viruses in nutrient recycling. A resurgence in cultivation efforts has improved the availability of fastidious bacteria for hypothesis testing, but this has not been matched by similar efforts to cultivate their associated bacteriophages. Here, we describe a high25 throughput method for isolating important virus-host systems for fastidious heterotrophic bacteria that couples advances in culturing of hosts with sequential enrichment and isolation of associated phages. Applied to six monthly samples from the Western English Channel, we first isolated one new member of the globally dominant bacterial SAR11 clade and three new members of the methylotrophic bacterial clade OM43. We used these as bait to isolate 117 new phages including the first known siphophage infecting SAR11, and the first isolated phage for OM43. Genomic analyses of 13 novel viruses revealed representatives of three new viral genera, and infection assays showed that the viruses infecting SAR11 have ecotype-specific host-ranges. Similar to the abundant human33 associated phage ɸCrAss001, infection dynamics within the majority of isolates suggested either prevalent lysogeny or chronic infection, despite a lack of associated genes; or host phenotypic bistability with lysis putatively maintained within a susceptible subpopulation. Broader representation of important virus-host systems in culture collections and genomic databases will improve both our understanding of virus-host interactions, and accuracy of computational approaches to evaluate ecological patterns from metagenomic data. | en_GB |
dc.description.sponsorship | Simons Foundation | en_GB |
dc.description.sponsorship | Natural Environment Research Council (NERC) | en_GB |
dc.identifier.citation | Published online 25 January 2021 | en_GB |
dc.identifier.doi | 10.1038/s41396-020-00872-z | |
dc.identifier.grantnumber | NE/R010935/1 | en_GB |
dc.identifier.uri | http://hdl.handle.net/10871/124316 | |
dc.language.iso | en | en_GB |
dc.publisher | Springer Nature / International Society for Microbial Ecology | en_GB |
dc.rights | © The Author(s) 2021. 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/ | |
dc.subject | bacteriophages | en_GB |
dc.subject | high-throughput culturing | en_GB |
dc.subject | marine microbiology | en_GB |
dc.subject | virus-host systems | en_GB |
dc.subject | Western English Channel | en_GB |
dc.title | Efficient dilution-to-extinction isolation of novel virus–host model systems for fastidious heterotrophic bacteria | en_GB |
dc.type | Article | en_GB |
dc.date.available | 2021-01-06T15:08:42Z | |
dc.identifier.issn | 1751-7362 | |
dc.description | This is the final version. Available on open access from Springer Nature via the DOI in this record | en_GB |
dc.identifier.eissn | 1751-7370 | |
dc.identifier.journal | ISME Journal | en_GB |
dc.rights.uri | https://creativecommons.org/licenses/by/4.0/ | en_GB |
dcterms.dateAccepted | 2020-12-07 | |
exeter.funder | ::Simons Foundation | en_GB |
exeter.funder | ::Natural Environment Research Council (NERC) | en_GB |
rioxxterms.version | VoR | en_GB |
rioxxterms.licenseref.startdate | 2020-12-07 | |
rioxxterms.type | Journal Article/Review | en_GB |
refterms.dateFCD | 2021-01-06T14:41:36Z | |
refterms.versionFCD | AM | |
refterms.dateFOA | 2021-02-03T10:45:14Z | |
refterms.panel | A | en_GB |
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Except where otherwise noted, this item's licence is described as © The Author(s) 2021. 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/