Matthew B Sullivan

Matthew B Sullivan

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The spinal cord-gut-immune axis as a master regulator of health and neurological function after spinal cord injury.

Exp Neurol 2020 Jan 22;323:113085. Epub 2019 Oct 22.

The Belford Center for Spinal Cord Injury, the Center for Brain and Spinal Cord Repair, Department of Neuroscience, Wexner Medical Center at The Ohio State University, USA. Electronic address:

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http://dx.doi.org/10.1016/j.expneurol.2019.113085DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6918675PMC
January 2020

Metabolic and biogeochemical consequences of viral infection in aquatic ecosystems.

Nat Rev Microbiol 2020 Jan 5;18(1):21-34. Epub 2019 Nov 5.

Department of the Geophysical Sciences, University of Chicago, Chicago, IL, USA.

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http://dx.doi.org/10.1038/s41579-019-0270-xDOI Listing
January 2020

Phage-specific metabolic reprogramming of virocells.

ISME J 2020 Jan 2. Epub 2020 Jan 2.

Department of Ecology and Evolutionary Biology, University of Michigan, 1105 North University Ave, Ann Arbor, MI, 48109, USA.

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http://dx.doi.org/10.1038/s41396-019-0580-zDOI Listing
January 2020

Prevalence of viral photosynthesis genes along a freshwater to saltwater transect in Southeast USA.

Environ Microbiol Rep 2019 10 16;11(5):672-689. Epub 2019 Jul 16.

School of Biological Sciences, Georgia Institute of Technology, Atlanta, GA, USA.

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http://dx.doi.org/10.1111/1758-2229.12780DOI Listing
October 2019

Numerous cultivated and uncultivated viruses encode ribosomal proteins.

Nat Commun 2019 02 14;10(1):752. Epub 2019 Feb 14.

Unité de Biologie Moléculaire du Gène chez les Extrêmophiles, Département de Microbiologie, Institut Pasteur, Paris, 75015, France.

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http://dx.doi.org/10.1038/s41467-019-08672-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6375957PMC
February 2019

Smoking is associated with quantifiable differences in the human lung DNA virome and metabolome.

Respir Res 2018 Sep 12;19(1):174. Epub 2018 Sep 12.

Division of Pulmonary, Critical Care & Sleep Medicine, The Ohio State University College of Medicine, 201 Davis Heart & Lung Research Institute, 473 West 12th Avenue, Columbus, OH, 43210, USA.

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https://respiratory-research.biomedcentral.com/articles/10.1
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http://dx.doi.org/10.1186/s12931-018-0878-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6136173PMC
September 2018

Iron Chloride Flocculation of Bacteriophages from Seawater.

Methods Mol Biol 2018 ;1681:49-57

Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ, 85721, USA.

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http://dx.doi.org/10.1007/978-1-4939-7343-9_4DOI Listing
June 2018

Dietary energy drives the dynamic response of bovine rumen viral communities.

Microbiome 2017 Nov 28;5(1):155. Epub 2017 Nov 28.

Department of Animal Science, University of Nebraska-Lincoln, C220K Animal Science Complex, Lincoln, NE, 68583-0908, USA.

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http://dx.doi.org/10.1186/s40168-017-0374-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5704599PMC
November 2017

Ecogenomics of virophages and their giant virus hosts assessed through time series metagenomics.

Nat Commun 2017 10 11;8(1):858. Epub 2017 Oct 11.

Department of Microbiology, The Ohio State University, Columbus, OH, 43210, USA.

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http://dx.doi.org/10.1038/s41467-017-01086-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5636890PMC
October 2017

Benchmarking viromics: an evaluation of metagenome-enabled estimates of viral community composition and diversity.

PeerJ 2017 21;5:e3817. Epub 2017 Sep 21.

Department of Microbiology, Ohio State University, Columbus, OH, United States of America.

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http://dx.doi.org/10.7717/peerj.3817DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5610896PMC
September 2017

Lysogeny in nature: mechanisms, impact and ecology of temperate phages.

ISME J 2017 07 14;11(7):1511-1520. Epub 2017 Mar 14.

Department of Microbiology, The Ohio State University, Columbus, OH, USA.

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http://dx.doi.org/10.1038/ismej.2017.16DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5520141PMC
July 2017

Comparative Omics and Trait Analyses of Marine Phages Advance the Phage OTU Concept.

Front Microbiol 2017 6;8:1241. Epub 2017 Jul 6.

Department of Microbiology, The Ohio State University, ColumbusOH, United States.

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http://dx.doi.org/10.3389/fmicb.2017.01241DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5498523PMC
July 2017

Putative archaeal viruses from the mesopelagic ocean.

PeerJ 2017 15;5:e3428. Epub 2017 Jun 15.

Department of Microbiology, Ohio State University, Columbus, OH, United States of America.

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http://dx.doi.org/10.7717/peerj.3428DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5474096PMC
June 2017

Single-virus genomics reveals hidden cosmopolitan and abundant viruses.

Nat Commun 2017 06 23;8:15892. Epub 2017 Jun 23.

Department of Physiology, Genetics, and Microbiology, University of Alicante, Carretera San Vicente del Raspeig, San Vicente del Raspeig, Alicante 03690, Spain.

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http://dx.doi.org/10.1038/ncomms15892DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5490008PMC
June 2017

vConTACT: an iVirus tool to classify double-stranded DNA viruses that infect and .

PeerJ 2017 3;5:e3243. Epub 2017 May 3.

Department of Microbiology, Ohio State University, Columbus, OH, United States.

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http://dx.doi.org/10.7717/peerj.3243DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5419219PMC
May 2017

Modelling plankton ecosystems in the meta-omics era. Are we ready?

Mar Genomics 2017 Apr 7;32:1-17. Epub 2017 Mar 7.

Stazione Zoologica Anton Dohrn, Villa Comunale, 80121 Naples, Italy. Electronic address:

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http://dx.doi.org/10.1016/j.margen.2017.02.006DOI Listing
April 2017

Visualizing Adsorption of Cyanophage P-SSP7 onto Marine Prochlorococcus.

Sci Rep 2017 03 10;7:44176. Epub 2017 Mar 10.

National Center for Macromolecular Imaging, Verna and Marrs McLean Dept. of Biochemistry &Molecular Biology, Baylor College of Medicine, Houston, TX, 77030, USA.

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http://dx.doi.org/10.1038/srep44176DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5345008PMC
March 2017

Viral ecology comes of age.

Environ Microbiol Rep 2017 02;9(1):33-35

Department of Microbiology, The University of Tennessee, Knoxville, TN, 37996, USA.

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http://dx.doi.org/10.1111/1758-2229.12504DOI Listing
February 2017

Regulation of infection efficiency in a globally abundant marine Bacteriodetes virus.

ISME J 2017 01 17;11(1):284-295. Epub 2016 May 17.

Department of Molecular and Cellular Biology, University of Arizona, Tucson, AZ, USA.

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http://dx.doi.org/10.1038/ismej.2016.81DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5335546PMC
January 2017

Phages rarely encode antibiotic resistance genes: a cautionary tale for virome analyses.

ISME J 2017 01 21;11(1):237-247. Epub 2016 Jun 21.

Micalis Institute, INRA, AgroParisTech, Université Paris-Saclay, Jouy-en-Josas, France.

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http://dx.doi.org/10.1038/ismej.2016.90DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5315482PMC
January 2017

Towards quantitative viromics for both double-stranded and single-stranded DNA viruses.

PeerJ 2016 8;4:e2777. Epub 2016 Dec 8.

Department of Microbiology, The Ohio State University, Columbus, OH, United States; Department of Civil, Environmental and Geodetic Engineering, The Ohio State University, Columbus, OH, United States.

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http://dx.doi.org/10.7717/peerj.2777DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5168678PMC
December 2016

Large-scale maps of variable infection efficiencies in aquatic Bacteroidetes phage-host model systems.

Environ Microbiol 2016 11 27;18(11):3949-3961. Epub 2016 Jun 27.

Department of Molecular and Cellular Biology, University of Arizona, Tucson, AZ, USA.

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http://dx.doi.org/10.1111/1462-2920.13392DOI Listing
November 2016

Optimization of viral resuspension methods for carbon-rich soils along a permafrost thaw gradient.

PeerJ 2016 17;4:e1999. Epub 2016 May 17.

Current affiliation: Department of Microbiology, Ohio State University, Columbus, OH, United States; Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ, United States; Current affiliation: Department of Ecology, Evolution and Organismal Biology, Ohio State University, Columbus, OH, United States; Current affiliation: Department of Civil, Environmental and Geodetic Engineering, Ohio State University, Columbus, OH, United States.

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http://dx.doi.org/10.7717/peerj.1999DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4878379PMC
May 2016

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

Proc Natl Acad Sci U S A 2016 Mar 16;113(9):2436-41. Epub 2016 Feb 16.

Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ 85721; Department of Molecular and Cellular Biology, University of Arizona, Tucson, AZ 85721; Department of Soil, Water and Environmental Science, University of Arizona, Tucson, AZ 85721;

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http://dx.doi.org/10.1073/pnas.1525139113DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4780635PMC
March 2016

Seasonal time bombs: dominant temperate viruses affect Southern Ocean microbial dynamics.

ISME J 2016 Feb 21;10(2):437-49. Epub 2015 Aug 21.

Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ, USA.

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http://dx.doi.org/10.1038/ismej.2015.125DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4737935PMC
February 2016

Six Pseudoalteromonas Strains Isolated from Surface Waters of Kabeltonne, Offshore Helgoland, North Sea.

Genome Announc 2016 Feb 11;4(1). Epub 2016 Feb 11.

Department of Microbiology, The Ohio State University, Columbus, Ohio, USA Department of Civil, Environmental and Geodetic Engineering, The Ohio State University, Columbus, Ohio, USA.

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http://dx.doi.org/10.1128/genomeA.01697-15DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4751314PMC
February 2016

Variably lytic infection dynamics of large Bacteroidetes podovirus phi38:1 against two Cellulophaga baltica host strains.

Environ Microbiol 2015 Nov 16;17(11):4659-71. Epub 2015 Sep 16.

Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ, USA.

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http://doi.wiley.com/10.1111/1462-2920.13009
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http://dx.doi.org/10.1111/1462-2920.13009DOI Listing
November 2015

Viral dark matter and virus-host interactions resolved from publicly available microbial genomes.

Elife 2015 Jul 22;4. Epub 2015 Jul 22.

Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, United States.

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http://dx.doi.org/10.7554/eLife.08490DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4533152PMC
July 2015

VirSorter: mining viral signal from microbial genomic data.

PeerJ 2015 28;3:e985. Epub 2015 May 28.

Ecology and Evolutionary Biology, University of Arizona , USA.

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https://peerj.com/articles/985
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http://dx.doi.org/10.7717/peerj.985DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4451026PMC
June 2015

An inexpensive, accurate, and precise wet-mount method for enumerating aquatic viruses.

Appl Environ Microbiol 2015 May 20;81(9):2995-3000. Epub 2015 Feb 20.

Department of Earth and Ocean Sciences, University of South Carolina, Columbia, South Carolina, USA

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http://dx.doi.org/10.1128/AEM.03642-14DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4393455PMC
May 2015

Ocean plankton. Patterns and ecological drivers of ocean viral communities.

Science 2015 May;348(6237):1261498

Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ 85721, USA. Department of Molecular and Cellular Biology, University of Arizona, Tucson, AZ 85721, USA. Soil, Water, and Environmental Science, University of Arizona, Tucson, AZ 85721, USA.

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http://dx.doi.org/10.1126/science.1261498DOI Listing
May 2015

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

J Virol 2015 Mar 24;89(5):2459-61. Epub 2014 Dec 24.

Department of Ecology and Evolutionary Biology, University of Arizona, Tucson Arizona, USA

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http://dx.doi.org/10.1128/JVI.03289-14DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4325738PMC
March 2015

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

Nat Rev Microbiol 2015 Mar 2;13(3):147-59. Epub 2015 Feb 2.

Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, Arizona 85721, USA.

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http://dx.doi.org/10.1038/nrmicro3404DOI Listing
March 2015

Depth-stratified functional and taxonomic niche specialization in the 'core' and 'flexible' Pacific Ocean Virome.

ISME J 2015 Feb 5;9(2):472-84. Epub 2014 Aug 5.

Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ, USA.

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http://dx.doi.org/10.1038/ismej.2014.143DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4303639PMC
February 2015

Emerging methods to study bacteriophage infection at the single-cell level.

Front Microbiol 2014 23;5:724. Epub 2014 Dec 23.

Department of Ecology and Evolutionary Biology, University of Arizona Tucson, AZ, USA ; Department of Molecular and Cellular Biology, University of Arizona Tucson, AZ, USA.

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http://journal.frontiersin.org/article/10.3389/fmicb.2014.00
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http://dx.doi.org/10.3389/fmicb.2014.00724DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4274963PMC
January 2015

Viral tagging reveals discrete populations in Synechococcus viral genome sequence space.

Nature 2014 Sep 13;513(7517):242-5. Epub 2014 Jul 13.

1] Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, Arizona 85719, USA [2] Department of Molecular and Cellular Biology, University of Arizona, Tucson, Arizona 85719, USA.

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http://www.nature.com/doifinder/10.1038/nature13459
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http://dx.doi.org/10.1038/nature13459DOI Listing
September 2014

Contrasting genomic patterns and infection strategies of two co-existing Bacteroidetes podovirus genera.

Environ Microbiol 2014 Aug 18;16(8):2501-13. Epub 2014 Feb 18.

Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ, USA.

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http://dx.doi.org/10.1111/1462-2920.12391DOI Listing
August 2014

Modeling ecological drivers in marine viral communities using comparative metagenomics and network analyses.

Proc Natl Acad Sci U S A 2014 Jul 7;111(29):10714-9. Epub 2014 Jul 7.

Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ 85721;

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http://dx.doi.org/10.1073/pnas.1319778111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4115555PMC
July 2014

Preparation of metagenomic libraries from naturally occurring marine viruses.

Methods Enzymol 2013 ;531:143-65

Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, Arizona, USA.

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http://dx.doi.org/10.1016/B978-0-12-407863-5.00008-3DOI Listing
April 2014

The global virome: not as big as we thought?

Curr Opin Virol 2013 Oct 26;3(5):566-71. Epub 2013 Jul 26.

Department of Molecular and Cellular Biology, University of Arizona, Tucson, AZ, USA.

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http://dx.doi.org/10.1016/j.coviro.2013.07.004DOI Listing
October 2013

Global morphological analysis of marine viruses shows minimal regional variation and dominance of non-tailed viruses.

ISME J 2013 Sep 2;7(9):1738-51. Epub 2013 May 2.

Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ 85721, USA.

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http://dx.doi.org/10.1038/ismej.2013.67DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3749506PMC
September 2013

Single-cell and population level viral infection dynamics revealed by phageFISH, a method to visualize intracellular and free viruses.

Environ Microbiol 2013 Aug 14;15(8):2306-18. Epub 2013 Mar 14.

Department of Ecology and Evolutionary Biology, University of Arizona, Life Sciences South, 1007 East Lowell Street, Tucson, AZ 85721, USA.

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http://dx.doi.org/10.1111/1462-2920.12100DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3884771PMC
August 2013

Twelve previously unknown phage genera are ubiquitous in global oceans.

Proc Natl Acad Sci U S A 2013 Jul 15;110(31):12798-803. Epub 2013 Jul 15.

Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ 85721, USA.

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http://dx.doi.org/10.1073/pnas.1305956110DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3732932PMC
July 2013

Evaluation of methods to concentrate and purify ocean virus communities through comparative, replicated metagenomics.

Environ Microbiol 2013 May 30;15(5):1428-40. Epub 2012 Jul 30.

Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ 85721, USA.

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http://dx.doi.org/10.1111/j.1462-2920.2012.02836.xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3655615PMC
May 2013

Diversity and population structure of Marine Group A bacteria in the Northeast subarctic Pacific Ocean.

ISME J 2013 Feb 15;7(2):256-68. Epub 2012 Nov 15.

Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, Arizona 85721, USA.

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http://dx.doi.org/10.1038/ismej.2012.108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3554399PMC
February 2013

Phage-bacteria infection networks.

Trends Microbiol 2013 Feb 14;21(2):82-91. Epub 2012 Dec 14.

School of Biology, Georgia Institute of Technology, Atlanta, GA, USA.

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http://dx.doi.org/10.1016/j.tim.2012.11.003DOI Listing
February 2013

Abundant SAR11 viruses in the ocean.

Nature 2013 Feb 13;494(7437):357-60. Epub 2013 Feb 13.

Department of Microbiology, Oregon State University, Corvallis, Oregon 97331, USA.

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http://dx.doi.org/10.1038/nature11921DOI Listing
February 2013

Ocean viruses: rigorously evaluating the metagenomic sample-to-sequence pipeline.

Virology 2012 Dec 16;434(2):181-6. Epub 2012 Oct 16.

Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI, USA.

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http://dx.doi.org/10.1016/j.virol.2012.09.036DOI Listing
December 2012