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      Seasonal Dynamics of Haptophytes and dsDNA Algal Viruses Suggest Complex Virus-Host Relationship

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          Abstract

          Viruses influence the ecology and diversity of phytoplankton in the ocean. Most studies of phytoplankton host–virus interactions have focused on bloom-forming species like Emiliania huxleyi or Phaeocystis spp. The role of viruses infecting phytoplankton that do not form conspicuous blooms have received less attention. Here we explore the dynamics of phytoplankton and algal viruses over several sequential seasons, with a focus on the ubiquitous and diverse phytoplankton division Haptophyta, and their double-stranded DNA viruses, potentially with the capacity to infect the haptophytes. Viral and phytoplankton abundance and diversity showed recurrent seasonal changes, mainly explained by hydrographic conditions. By 454 tag-sequencing we revealed 93 unique haptophyte operational taxonomic units (OTUs), with seasonal changes in abundance. Sixty-one unique viral OTUs, representing Megaviridae and Phycodnaviridae, showed only distant relationship with currently isolated algal viruses. Haptophyte and virus community composition and diversity varied substantially throughout the year, but in an uncoordinated manner. A minority of the viral OTUs were highly abundant at specific time-points, indicating a boom-bust relationship with their host. Most of the viral OTUs were very persistent, which may represent viruses that coexist with their hosts, or able to exploit several host species.

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          ETE 3: Reconstruction, Analysis, and Visualization of Phylogenomic Data

          The Environment for Tree Exploration (ETE) is a computational framework that simplifies the reconstruction, analysis, and visualization of phylogenetic trees and multiple sequence alignments. Here, we present ETE v3, featuring numerous improvements in the underlying library of methods, and providing a novel set of standalone tools to perform common tasks in comparative genomics and phylogenetics. The new features include (i) building gene-based and supermatrix-based phylogenies using a single command, (ii) testing and visualizing evolutionary models, (iii) calculating distances between trees of different size or including duplications, and (iv) providing seamless integration with the NCBI taxonomy database. ETE is freely available at http://etetoolkit.org
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            Precision Farming: Technologies and Information as Risk-Reduction Tools

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              Primary Production of the Biosphere: Integrating Terrestrial and Oceanic Components

              C Field (1998)
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                Author and article information

                Contributors
                Role: Academic Editor
                Role: Academic Editor
                Journal
                Viruses
                Viruses
                viruses
                Viruses
                MDPI
                1999-4915
                20 April 2017
                April 2017
                : 9
                : 4
                : 84
                Affiliations
                [1 ]Vaxxinova Norway AS, Kong Christian Frederiks plass 3, 5006 Bergen, Norway; torillvjohannessen@ 123456gmail.com
                [2 ]Uni Research Environment, N-5008 Bergen, Norway; aud.larsen@ 123456bio.uib.no
                [3 ]Department of Biology, University of Bergen, N-5020 Bergen, Norway; gunnar.bratbak@ 123456bio.uib.no (G.B.); antonio.pagarete@ 123456uib.no (A.P.)
                [4 ]Department of Biosciences, University of Oslo, 0316 Oslo, Norway; bente.edvardsen@ 123456ibv.uio.no (B.E.); elianne.egge@ 123456gmail.com (E.D.E.)
                Author notes
                Article
                viruses-09-00084
                10.3390/v9040084
                5408690
                28425942
                d49237ab-dbfe-467e-8775-ef461d45db2b
                © 2017 by the authors.

                Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license ( http://creativecommons.org/licenses/by/4.0/).

                History
                : 31 January 2017
                : 13 April 2017
                Categories
                Article

                Microbiology & Virology
                haptophyta,phycodnaviridae,megaviridae,viral–host interactions,metagenomics,marine viral ecology

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