Literature DB >> 25639680

Rising to the challenge: accelerated pace of discovery transforms marine virology.

Jennifer R Brum1, Matthew B Sullivan1.   

Abstract

Marine viruses have important roles in microbial mortality, gene transfer, metabolic reprogramming and biogeochemical cycling. In this Review, we discuss recent technological advances in marine virology including the use of near-quantitative, reproducible metagenomics for large-scale investigation of viral communities and the emergence of gene-based viral ecology. We also describe the reprogramming of microbially driven processes by viral metabolic genes, the identification of novel viruses using cultivation-dependent and cultivation-independent tools, and the potential for modelling studies to provide a framework for studying virus-host interactions. These transformative advances have set a rapid pace in exploring and predicting how marine viruses manipulate and respond to their environment.

Mesh:

Year:  2015        PMID: 25639680     DOI: 10.1038/nrmicro3404

Source DB:  PubMed          Journal:  Nat Rev Microbiol        ISSN: 1740-1526            Impact factor:   60.633


  103 in total

1.  Genomic analysis of uncultured marine viral communities.

Authors:  Mya Breitbart; Peter Salamon; Bjarne Andresen; Joseph M Mahaffy; Anca M Segall; David Mead; Farooq Azam; Forest Rohwer
Journal:  Proc Natl Acad Sci U S A       Date:  2002-10-16       Impact factor: 11.205

2.  Diversity and population structure of a near-shore marine-sediment viral community.

Authors:  Mya Breitbart; Ben Felts; Scott Kelley; Joseph M Mahaffy; James Nulton; Peter Salamon; Forest Rohwer
Journal:  Proc Biol Sci       Date:  2004-03-22       Impact factor: 5.349

3.  Enumeration of marine viruses in culture and natural samples by flow cytometry

Authors: 
Journal:  Appl Environ Microbiol       Date:  1999-01       Impact factor: 4.792

4.  Ocean time-series reveals recurring seasonal patterns of virioplankton dynamics in the northwestern Sargasso Sea.

Authors:  Rachel J Parsons; Mya Breitbart; Michael W Lomas; Craig A Carlson
Journal:  ISME J       Date:  2011-08-11       Impact factor: 10.302

5.  Fake virus particles generated by fluorescence microscopy.

Authors:  Patrick Forterre; Nicolas Soler; Mart Krupovic; Evelyne Marguet; Hans-W Ackermann
Journal:  Trends Microbiol       Date:  2012-11-07       Impact factor: 17.079

6.  Bacterial vesicles in marine ecosystems.

Authors:  Steven J Biller; Florence Schubotz; Sara E Roggensack; Anne W Thompson; Roger E Summons; Sallie W Chisholm
Journal:  Science       Date:  2014-01-10       Impact factor: 47.728

7.  Antibiotic treatment expands the resistance reservoir and ecological network of the phage metagenome.

Authors:  Sheetal R Modi; Henry H Lee; Catherine S Spina; James J Collins
Journal:  Nature       Date:  2013-06-09       Impact factor: 49.962

8.  A simple and efficient method for concentration of ocean viruses by chemical flocculation.

Authors:  Seth G John; Carolina B Mendez; Li Deng; Bonnie Poulos; Anne Kathryn M Kauffman; Suzanne Kern; Jennifer Brum; Martin F Polz; Edward A Boyle; Matthew B Sullivan
Journal:  Environ Microbiol Rep       Date:  2011-04       Impact factor: 3.541

9.  The Sorcerer II Global Ocean Sampling expedition: northwest Atlantic through eastern tropical Pacific.

Authors:  Douglas B Rusch; Aaron L Halpern; Granger Sutton; Karla B Heidelberg; Shannon Williamson; Shibu Yooseph; Dongying Wu; Jonathan A Eisen; Jeff M Hoffman; Karin Remington; Karen Beeson; Bao Tran; Hamilton Smith; Holly Baden-Tillson; Clare Stewart; Joyce Thorpe; Jason Freeman; Cynthia Andrews-Pfannkoch; Joseph E Venter; Kelvin Li; Saul Kravitz; John F Heidelberg; Terry Utterback; Yu-Hui Rogers; Luisa I Falcón; Valeria Souza; Germán Bonilla-Rosso; Luis E Eguiarte; David M Karl; Shubha Sathyendranath; Trevor Platt; Eldredge Bermingham; Victor Gallardo; Giselle Tamayo-Castillo; Michael R Ferrari; Robert L Strausberg; Kenneth Nealson; Robert Friedman; Marvin Frazier; J Craig Venter
Journal:  PLoS Biol       Date:  2007-03       Impact factor: 8.029

10.  The Pacific Ocean virome (POV): a marine viral metagenomic dataset and associated protein clusters for quantitative viral ecology.

Authors:  Bonnie L Hurwitz; Matthew B Sullivan
Journal:  PLoS One       Date:  2013-02-28       Impact factor: 3.240

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  106 in total

1.  Illuminating structural proteins in viral "dark matter" with metaproteomics.

Authors:  Jennifer R Brum; J Cesar Ignacio-Espinoza; Eun-Hae Kim; Gareth Trubl; Robert M Jones; Simon Roux; Nathan C VerBerkmoes; Virginia I Rich; Matthew B Sullivan
Journal:  Proc Natl Acad Sci U S A       Date:  2016-02-16       Impact factor: 11.205

2.  Temperature is a key factor in Micromonas-virus interactions.

Authors:  David Demory; Laure Arsenieff; Nathalie Simon; Christophe Six; Fabienne Rigaut-Jalabert; Dominique Marie; Pei Ge; Estelle Bigeard; Stéphan Jacquet; Antoine Sciandra; Olivier Bernard; Sophie Rabouille; Anne-Claire Baudoux
Journal:  ISME J       Date:  2017-01-13       Impact factor: 10.302

3.  Quantification of diverse virus populations in the environment using the polony method.

Authors:  Nava Baran; Svetlana Goldin; Ilia Maidanik; Debbie Lindell
Journal:  Nat Microbiol       Date:  2017-10-30       Impact factor: 17.745

Review 4.  Viromes, not gene markers, for studying double-stranded DNA virus communities.

Authors:  Matthew B Sullivan
Journal:  J Virol       Date:  2014-12-24       Impact factor: 5.103

Review 5.  Soil Aggregate Microbial Communities: Towards Understanding Microbiome Interactions at Biologically Relevant Scales.

Authors:  Regina L Wilpiszeski; Jayde A Aufrecht; Scott T Retterer; Matthew B Sullivan; David E Graham; Eric M Pierce; Olivier D Zablocki; Anthony V Palumbo; Dwayne A Elias
Journal:  Appl Environ Microbiol       Date:  2019-07-01       Impact factor: 4.792

6.  Membrane vesicles in sea water: heterogeneous DNA content and implications for viral abundance estimates.

Authors:  Steven J Biller; Lauren D McDaniel; Mya Breitbart; Everett Rogers; John H Paul; Sallie W Chisholm
Journal:  ISME J       Date:  2016-11-08       Impact factor: 10.302

7.  Genomic exploration of individual giant ocean viruses.

Authors:  William H Wilson; Ilana C Gilg; Mohammad Moniruzzaman; Erin K Field; Sergey Koren; Gary R LeCleir; Joaquín Martínez Martínez; Nicole J Poulton; Brandon K Swan; Ramunas Stepanauskas; Steven W Wilhelm
Journal:  ISME J       Date:  2017-05-12       Impact factor: 10.302

8.  Uncovering Earth's virome.

Authors:  David Paez-Espino; Emiley A Eloe-Fadrosh; Georgios A Pavlopoulos; Alex D Thomas; Marcel Huntemann; Natalia Mikhailova; Edward Rubin; Natalia N Ivanova; Nikos C Kyrpides
Journal:  Nature       Date:  2016-08-17       Impact factor: 49.962

9.  Re-examination of the relationship between marine virus and microbial cell abundances.

Authors:  Charles H Wigington; Derek Sonderegger; Corina P D Brussaard; Alison Buchan; Jan F Finke; Jed A Fuhrman; Jay T Lennon; Mathias Middelboe; Curtis A Suttle; Charles Stock; William H Wilson; K Eric Wommack; Steven W Wilhelm; Joshua S Weitz
Journal:  Nat Microbiol       Date:  2016-01-25       Impact factor: 17.745

10.  A Needle in A Haystack: Tracing Bivalve-Associated Viruses in High-Throughput Transcriptomic Data.

Authors:  Umberto Rosani; Maxwell Shapiro; Paola Venier; Bassem Allam
Journal:  Viruses       Date:  2019-03-01       Impact factor: 5.048

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