Associations between picocyanobacterial ecotypes and cyanophage host genes across ocean basins and depth

An analysis of protists in Pacific oxygen deficient zones: implications for Prochlorococcus and N 2 ‐producing bacteria

(2022) Clara A. Fuchsman et al.   ENVIRONMENTAL MICROBIOLOGY

Viruses affect picocyanobacterial abundance and biogeography in the North Pacific Ocean

(2022) Michael. C. G. Carlson et al.   Nature Microbiology

The cyanobacterium Prochlorococcus has divergent light-harvesting antennae and may have evolved in a low-oxygen ocean

(2021) Osvaldo Ulloa et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Hostile Takeover: How Viruses Reprogram Prokaryotic Metabolism

(2021) Tyler B. Jacobson et al.   Annual Review of Microbiology

Viral community analysis in a marine oxygen minimum zone indicates increased potential for viral manipulation of microbial physiological state

(2021) Sophie K. Jurgensen et al.   ISME Journal

Seasonal mixed layer depth shapes phytoplankton physiology, viral production, and accumulation in the North Atlantic

(2021) Ben P. Diaz et al.   Nature Communications

Genesis and Gappa: processing, analyzing and visualizing phylogenetic (placement) data

(2020) Lucas Czech et al.   BIOINFORMATICS

Double-stranded DNA virioplankton dynamics and reproductive strategies in the oligotrophic open ocean water column

(2020) Elaine Luo et al.   ISME Journal

Dynamic genome evolution and complex virocell metabolism of globally-distributed giant viruses

(2020) Mohammad Moniruzzaman et al.   Nature Communications

Cyanophage host‐derived genes reflect contrasting selective pressures with depth in the oxic and anoxic water column of the Eastern Tropical North Pacific

(2020) Clara A. Fuchsman et al.   ENVIRONMENTAL MICROBIOLOGY

A single-cell polony method reveals low levels of infected Prochlorococcus in oligotrophic waters despite high cyanophage abundances

(2020) Noor Mruwat et al.   ISME Journal

Potential virus-mediated nitrogen cycling in oxygen-depleted oceanic waters

(2020) M. Consuelo Gazitúa et al.   ISME Journal

Microbial ecosystem dynamics drive fluctuating nitrogen loss in marine anoxic zones

(2019) Justin L. Penn et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

RAxML-NG: a fast, scalable and user-friendly tool for maximum likelihood phylogenetic inference

(2019) Alexey M Kozlov et al.   BIOINFORMATICS

A novel uncultured marine cyanophage lineage with lysogenic potential linked to a putative marine Synechococcus ‘relic’ prophage

(2019) José Flores‐Uribe et al.   Environmental Microbiology Reports

Emergence of trait variability through the lens of nitrogen assimilation in Prochlorococcus

(2019) Paul M Berube et al.   eLife

Cyanobacteria and cyanophage contributions to carbon and nitrogen cycling in an oligotrophic oxygen-deficient zone

(2019) Clara A. Fuchsman et al.   ISME Journal

Nitrogen sourcing during viral infection of marine cyanobacteria

(2019) Jacob R. Waldbauer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Nitrogen assimilation in picocyanobacteria inhabiting the oxygen‐deficient waters of the eastern tropical North and South Pacific

(2019) Montserrat Aldunate et al.   LIMNOLOGY AND OCEANOGRAPHY

A distinct lineage of giant viruses brings a rhodopsin photosystem to unicellular marine predators

(2019) David M. Needham et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Resistance in marine cyanobacteria differs against specialist and generalist cyanophages

(2019) Sophia Zborowsky et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Estimating fixed nitrogen loss and associated isotope effects using concentration and isotope measurements of NO 3 – , NO 2 – , and N 2 from the Eastern Tropical South Pacific oxygen deficient zone

(2018) Brian Peters et al.   DEEP-SEA RESEARCH PART II-TOPICAL STUDIES IN OCEANOGRAPHY

Insights Into the Biogeochemical Cycling of Iron, Nitrate, and Phosphate Across a 5,300 km South Pacific Zonal Section (153°E-150°W)

(2018) Michael J. Ellwood et al.   GLOBAL BIOGEOCHEMICAL CYCLES

Single cell genomic and transcriptomic evidence for the use of alternative nitrogen substrates by anammox bacteria

(2018) Sangita Ganesh et al.   ISME Journal

Fine metagenomic profile of the Mediterranean stratified and mixed water columns revealed by assembly and recruitment

(2018) Jose M. Haro-Moreno et al.   Microbiome

EPA-ng: Massively Parallel Evolutionary Placement of Genetic Sequences

(2018) Pierre Barbera et al.   SYSTEMATIC BIOLOGY

Marine microbial metagenomes sampled across space and time

(2018) Steven J. Biller et al.   Scientific Data

Fundamental differences in diversity and genomic population structure between Atlantic and Pacific Prochlorococcus

(2017) Nadav Kashtan et al.   ISME Journal

Cyanate distribution and uptake above and within the Eastern Tropical South Pacific oxygen deficient zone

(2017) Brittany Widner et al.   LIMNOLOGY AND OCEANOGRAPHY

Energetic cost of building a virus

(2017) Gita Mahmoudabadi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Updating temperature and salinity mean values and trends in the Western Mediterranean: The RADMED project

(2017) M. Vargas-Yáñez et al.   PROGRESS IN OCEANOGRAPHY

Marine viruses discovered via metagenomics shed light on viral strategies throughout the oceans

(2017) Felipe H. Coutinho et al.   Nature Communications

Niche Partitioning of the N Cycling Microbial Community of an Offshore Oxygen Deficient Zone

(2017) Clara A. Fuchsman et al.   Frontiers in Microbiology

Effect of bacterial growth rate on bacteriophage population growth rate

(2017) Dominik Nabergoj et al.   MicrobiologyOpen

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

(2017) Nava Baran et al.   Nature Microbiology

A myovirus encoding both photosystem I and II proteins enhances cyclic electron flow in infected Prochlorococcus cells

(2017) Svetlana Fridman et al.   Nature Microbiology

Effect of the oxygen minimum zone on the second chlorophyll maximum

(2017) J Cepeda-Morales   CIENCIAS MARINAS

Genomic diversification of marine cyanophages into stable ecotypes

(2016) Marcia F. Marston et al.   ENVIRONMENTAL MICROBIOLOGY

Phylogenomic networks reveal limited phylogenetic range of lateral gene transfer by transduction

(2016) Ovidiu Popa et al.   ISME Journal

Speciation and ecological success in dimly lit waters: horizontal gene transfer in a green sulfur bacteria bloom unveiled by metagenomic assembly

(2016) Tomàs Llorens–Marès et al.   ISME Journal

Temporal and vertical variability in picophytoplankton primary productivity in the North Pacific Subtropical Gyre

(2016) YM Rii et al.   MARINE ECOLOGY PROGRESS SERIES

Ecogenomics and potential biogeochemical impacts of globally abundant ocean viruses

(2016) Simon Roux et al.   NATURE

The genomic content and context of auxiliary metabolic genes in marine cyanomyoviruses

(2016) Lisa T. Crummett et al.   VIROLOGY

Temporal and vertical variability in picophytoplankton primary productivity in the North Pacific Subtropical Gyre

(2016) YM Rii et al.   MARINE ECOLOGY PROGRESS SERIES

Organic and Inorganic Nitrogen Impact Chlorella variabilis Productivity and Host Quality for Viral Production and Cell Lysis

(2015) Yu-Shen Cheng et al.   APPLIED BIOCHEMISTRY AND BIOTECHNOLOGY

Copper distribution and speciation across the International GEOTRACES Section GA03

(2015) Jeremy E. Jacquot et al.   DEEP-SEA RESEARCH PART II-TOPICAL STUDIES IN OCEANOGRAPHY

Size-fractionated major particle composition and concentrations from the US GEOTRACES North Atlantic Zonal Transect

(2015) Phoebe J. Lam et al.   DEEP-SEA RESEARCH PART II-TOPICAL STUDIES IN OCEANOGRAPHY

Genomic potential for nitrogen assimilation in uncultivated members of Prochlorococcus from an anoxic marine zone

(2015) Marcia Astorga-Eló et al.   ISME Journal

Co-occurring Synechococcus ecotypes occupy four major oceanic regimes defined by temperature, macronutrients and iron

(2015) Jill A Sohm et al.   ISME Journal

Transcriptome dynamics of a broad host-range cyanophage and its hosts

(2015) Shany Doron et al.   ISME Journal

VirSorter: mining viral signal from microbial genomic data

(2015) Simon Roux et al.   PeerJ

Prokka: rapid prokaryotic genome annotation

(2014) T. Seemann   BIOINFORMATICS

Depth-stratified functional and taxonomic niche specialization in the ‘core’ and ‘flexible’ Pacific Ocean Virome

(2014) Bonnie L Hurwitz et al.   ISME Journal

Effect of P-limitation on prokaryotic and viral production in surface waters of the Northwestern Mediterranean Sea

(2014) Chiaki Motegi et al.   JOURNAL OF PLANKTON RESEARCH

The elemental composition of virus particles: implications for marine biogeochemical cycles

(2014) Luis F. Jover et al.   NATURE REVIEWS MICROBIOLOGY

Single-Cell Genomics Reveals Hundreds of Coexisting Subpopulations in Wild Prochlorococcus

(2014) N. Kashtan et al.   SCIENCE

Genetic diversity in cultured and wild marine cyanomyoviruses reveals phosphorus stress as a strong selective agent

(2013) Libusha Kelly et al.   ISME Journal

Present and future global distributions of the marine Cyanobacteria Prochlorococcus and Synechococcus

(2013) P. Flombaum et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Metabolic reprogramming by viruses in the sunlit and dark ocean

(2013) Bonnie L Hurwitz et al.   GENOME BIOLOGY

Reconstruction of Novel Cyanobacterial Siphovirus Genomes from Mediterranean Metagenomic Fosmids

(2012) Carolina Megumi Mizuno et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Phylogenomics of T4 cyanophages: lateral gene transfer in the ‘core’ and origins of host genes

(2012) J. Cesar Ignacio-Espinoza et al.   ENVIRONMENTAL MICROBIOLOGY

Genomes of marine cyanopodoviruses reveal multiple origins of diversity

(2012) S. J. Labrie et al.   ENVIRONMENTAL MICROBIOLOGY

Aligning short reads to reference alignments and trees

(2011) Simon A. Berger et al.   BIOINFORMATICS

Genome sequences of siphoviruses infecting marine Synechococcus unveil a diverse cyanophage group and extensive phage-host genetic exchanges

(2011) Sijun Huang et al.   ENVIRONMENTAL MICROBIOLOGY

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

(2011) Rachel J Parsons et al.   ISME Journal

Phage auxiliary metabolic genes and the redirection of cyanobacterial host carbon metabolism

(2011) L. R. Thompson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Temporal dynamics of Prochlorococcus ecotypes in the Atlantic and Pacific oceans

(2010) Rex R Malmstrom et al.   ISME Journal

Novel lineages of Prochlorococcus thrive within the oxygen minimum zone of the eastern tropical South Pacific

(2010) Paris Lavin et al.   Environmental Microbiology Reports

Carrying photosynthesis genes increases ecological fitness of cyanophagein silico

(2009) Ferdi L. Hellweger   ENVIRONMENTAL MICROBIOLOGY

The genome and structural proteome of an ocean siphovirus: a new window into the cyanobacterial ‘mobilome’

(2009) Matthew B. Sullivan et al.   ENVIRONMENTAL MICROBIOLOGY

Phytoplankton in the ocean use non-phosphorus lipids in response to phosphorus scarcity

(2009) Benjamin A. S. Van Mooy et al.   NATURE

Efficient Phage-Mediated Pigment Biosynthesis in Oceanic Cyanobacteria

(2008) Thorben Dammeyer et al.   CURRENT BIOLOGY

Modeling the Fitness Consequences of a Cyanophage-Encoded Photosynthesis Gene

(2008) Jason G. Bragg et al.   PLoS One