Ecological dynamics and co-occurrence among marine phytoplankton, bacteria and myoviruses shows microdiversity matters

Genetic diversity affects ecological performance and stress response of marine diatom populations

(2016) Conny O Sjöqvist et al.   ISME Journal

Evaluating community–environment relationships along fine to broad taxonomic resolutions reveals evolutionary forces underlying community assembly

(2016) Hsiao-Pei Lu et al.   ISME Journal

Regulation of infection efficiency in a globally abundant marine Bacteriodetes virus

(2016) Cristina Howard-Varona et al.   ISME Journal

DADA2: High-resolution sample inference from Illumina amplicon data

(2016) Benjamin J Callahan et al.   NATURE METHODS

Recurring patterns in bacterioplankton dynamics during coastal spring algae blooms

(2016) Hanno Teeling et al.   eLife

Pronounced daily succession of phytoplankton, archaea and bacteria following a spring bloom

(2016) David M. Needham et al.   Nature Microbiology

Water column stratification structures viral community composition in the Sargasso Sea

(2015) DB Goldsmith et al.   AQUATIC MICROBIAL ECOLOGY

Every base matters: assessing small subunit rRNA primers for marine microbiomes with mock communities, time series and global field samples

(2015) Alma E. Parada et al.   ENVIRONMENTAL MICROBIOLOGY

Single-cell genomics-based analysis of virus–host interactions in marine surface bacterioplankton

(2015) Jessica M Labonté et al.   ISME Journal

Interaction and signalling between a cosmopolitan phytoplankton and associated bacteria

(2015) S. A. Amin et al.   NATURE

Strain recovery from metagenomes

(2015) C Titus Brown   NATURE BIOTECHNOLOGY

Marine microbial community dynamics and their ecological interpretation

(2015) Jed A. Fuhrman et al.   NATURE REVIEWS MICROBIOLOGY

Sewage Reflects the Microbiomes of Human Populations

(2015) Ryan J. Newton et al.   mBio

Oligotyping reveals stronger relationship of organic soil bacterial community structure with N-amendments and soil chemistry in comparison to that of mineral soil at Harvard Forest, MA, USA

(2015) Swathi A. Turlapati et al.   Frontiers in Microbiology

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Contrasting genomic patterns and infection strategies of two co-existingBacteroidetespodovirus genera

(2014) Karin Holmfeldt et al.   ENVIRONMENTAL MICROBIOLOGY

Interpreting 16S metagenomic data without clustering to achieve sub-OTU resolution

(2014) Mikhail Tikhonov et al.   ISME Journal

Minimum entropy decomposition: Unsupervised oligotyping for sensitive partitioning of high-throughput marker gene sequences

(2014) A Murat Eren et al.   ISME Journal

Host-specificity among abundant and rare taxa in the sponge microbiome

(2014) Julie Reveillaud et al.   ISME Journal

Viral tagging reveals discrete populations in Synechococcus viral genome sequence space

(2014) Li Deng et al.   NATURE

Temporal Changes in Population Structure of a Marine Planktonic Diatom

(2014) Sylvie V. M. Tesson et al.   PLoS One

A theoretical analysis of how strain-specific viruses can control microbial species diversity

(2014) T. F. Thingstad et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

PNAS Plus: From the Cover: Oligotyping analysis of the human oral microbiome

(2014) A. M. Eren et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

(2014) N. Kashtan et al.   SCIENCE

Distribution-Based Clustering: Using Ecology To Refine the Operational Taxonomic Unit

(2013) Sarah P. Preheim et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Strong Seasonality and Interannual Recurrence in Marine Myovirus Communities

(2013) A. Pagarete et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Top-down controls on bacterial community structure: microbial network analysis of bacteria, T4-like viruses and protists

(2013) Cheryl-Emiliane T Chow et al.   ISME Journal

Short-term observations of marine bacterial and viral communities: patterns, connections and resilience

(2013) David M Needham et al.   ISME Journal

Abundant SAR11 viruses in the ocean

(2013) Yanlin Zhao et al.   NATURE

UPARSE: highly accurate OTU sequences from microbial amplicon reads

(2013) Robert C Edgar   NATURE METHODS

Comparing effective population sizes of dominant marine alphaproteobacteria lineages

(2013) Haiwei Luo et al.   Environmental Microbiology Reports

Oligotyping: differentiating between closely related microbial taxa using 16S rRNA gene data

(2013) A. Murat Eren et al.   Methods in Ecology and Evolution

Efficient statistical significance approximation for local similarity analysis of high-throughput time series data

(2012) Li C. Xia et al.   BIOINFORMATICS

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

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

Seasonality and monthly dynamics of marine myovirus communities

(2012) Cheryl-Emiliane T. Chow et al.   ENVIRONMENTAL MICROBIOLOGY

Interactions between Diatoms and Bacteria

(2012) S. A. Amin et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Global biogeography of SAR11 marine bacteria

(2012) Mark V Brown et al.   Molecular Systems Biology

Genetic Diversity and Ecosystem Functioning in the Face of Multiple Stressors

(2012) Fabian Roger et al.   PLoS One

Rapid diversification of coevolving marine Synechococcus and a virus

(2012) M. F. Marston et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Unicellular Cyanobacterium Symbiotic with a Single-Celled Eukaryotic Alga

(2012) A. W. Thompson et al.   SCIENCE

Substrate-Controlled Succession of Marine Bacterioplankton Populations Induced by a Phytoplankton Bloom

(2012) H. Teeling et al.   SCIENCE

Extended local similarity analysis (eLSA) of microbial community and other time series data with replicates

(2011) Li C Xia et al.   BMC Systems Biology

Metagenomic analysis of a complex marine planktonic thaumarchaeal community from the Gulf of Maine

(2011) Benjamin J. Tully et al.   ENVIRONMENTAL MICROBIOLOGY

Genomic island variability facilitates Prochlorococcus–virus coexistence

(2011) Sarit Avrani et al.   NATURE

Viral and microbial community dynamics in four aquatic environments

(2010) Beltran Rodriguez-Brito et al.   ISME Journal

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Genomes of the T4-related bacteriophages as windows on microbial genome evolution

(2010) Vasiliy M Petrov et al.   Virology Journal

KaKs_Calculator 2.0: A Toolkit Incorporating Gamma-Series Methods and Sliding Window Strategies

(2010) Dapeng Wang et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

Recombination and microdiversity in coastal marine cyanophages

(2009) Marcia F. Marston et al.   ENVIRONMENTAL MICROBIOLOGY

Elevated Lytic Phage Production as a Consequence of Particle Colonization by a Marine Flavobacterium (Cellulophaga sp.)

(2008) Lasse Riemann et al.   MICROBIAL ECOLOGY