Bacterioplankton Dynamics within a Large Anthropogenically Impacted Urban Estuary

Distribution and population structure characteristics of microorganisms in urban sewage system

(2015) Yanchen Liu et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

River bacterioplankton community responses to a high inflow event

(2015) RL Carney et al.   AQUATIC MICROBIAL ECOLOGY

Chemotaxis by natural populations of coral reef bacteria

(2015) Jessica Tout et al.   ISME Journal

Marine microbial community dynamics and their ecological interpretation

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

Phylogenetic shifts of bacterioplankton community composition along the Pearl Estuary: the potential impact of hypoxia and nutrients

(2015) Jiwen Liu et al.   Frontiers in Microbiology

Redox-Specialized Bacterioplankton Metacommunity in a Temperate Estuary

(2015) Peeter Laas et al.   PLoS One

STAMP: statistical analysis of taxonomic and functional profiles

(2014) Donovan H. Parks et al.   BIOINFORMATICS

Comparative metagenomic and metatranscriptomic analyses of microbial communities in acid mine drainage

(2014) Lin-xing Chen et al.   ISME Journal

Taxonomical and functional microbial community selection in soybean rhizosphere

(2014) Lucas W Mendes et al.   ISME Journal

Niche Differentiation of Ammonia-Oxidising Archaea (AOA) and Bacteria (AOB) in Response to Paper and Pulp Mill Effluent

(2014) G. C. J. Abell et al.   MICROBIAL ECOLOGY

Nitrifying and denitrifying microbial communities and their relationship to nutrient fluxes and sediment geochemistry in the Derwent Estuary, Tasmania

(2013) GCJ Abell et al.   AQUATIC MICROBIAL ECOLOGY

Core sediment bacteria drive community response to anthropogenic contamination over multiple environmental gradients

(2013) Melanie Y. Sun et al.   ENVIRONMENTAL MICROBIOLOGY

Colonization of freshwater biofilms by nitrifying bacteria from activated sludge

(2013) Marc Mußmann et al.   FEMS MICROBIOLOGY ECOLOGY

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

(2013) David M Needham et al.   ISME Journal

Determining indicator taxa across spatial and seasonal gradients in the Columbia River coastal margin

(2013) Caroline S Fortunato et al.   ISME Journal

Evidence for a persistent microbial seed bank throughout the global ocean

(2013) S. M. Gibbons et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Acinetobacter, Aeromonas and Trichococcus populations dominate the microbial community within urban sewer infrastructure

(2012) J. L. VandeWalle et al.   ENVIRONMENTAL MICROBIOLOGY

Bacterial diversity, community structure and potential growth rates along an estuarine salinity gradient

(2012) Barbara J Campbell et al.   ISME Journal

Bacterial communities are sensitive indicators of contaminant stress

(2012) Melanie Y. Sun et al.   MARINE POLLUTION BULLETIN

Global biogeography of SAR11 marine bacteria

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

Microbial ecology of expanding oxygen minimum zones

(2012) Jody J. Wright et al.   NATURE REVIEWS MICROBIOLOGY

Structuring of Bacterioplankton Diversity in a Large Tropical Bay

(2012) Gustavo B. Gregoracci et al.   PLoS One

A Platform-Independent Method for Detecting Errors in Metagenomic Sequencing Data: DRISEE

(2012) Kevin P. Keegan et al.   PLoS Computational Biology

Effects of freshwater inputs on the lower trophic levels of a temperate estuary: physical, physiological or trophic forcing?

(2011) Enrique González-Ortegón et al.   AQUATIC SCIENCES

Multi-locus sequence analysis, taxonomic resolution and biogeography of marine Synechococcus

(2011) Sophie Mazard et al.   ENVIRONMENTAL MICROBIOLOGY

Metals, nutrients and total suspended solids discharged during different flow conditions in highly urbanised catchments

(2011) Hayden J. Beck et al.   ENVIRONMENTAL MONITORING AND ASSESSMENT

Field and modelling investigations of fresh-water plume behaviour in response to infrequent high-precipitation events, Sydney Estuary, Australia

(2011) Serena B. Lee et al.   ESTUARINE COASTAL AND SHELF SCIENCE

Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons

(2011) B. J. Haas et al.   GENOME RESEARCH

Spatial variability overwhelms seasonal patterns in bacterioplankton communities across a river to ocean gradient

(2011) Caroline S Fortunato et al.   ISME Journal

An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea

(2011) Daniel McDonald et al.   ISME Journal

Urban Stormwater Runoff Drives Denitrifying Community Composition Through Changes in Sediment Texture and Carbon Content

(2011) Shane E. Perryman et al.   MICROBIAL ECOLOGY

Novel Analysis of Oceanic Surface Water Metagenomes Suggests Importance of Polyphosphate Metabolism in Oligotrophic Environments

(2011) Ben Temperton et al.   PLoS One

Detecting Novel Associations in Large Data Sets

(2011) D. N. Reshef et al.   SCIENCE

Identifying biologically relevant differences between metagenomic communities

(2010) Donovan H. Parks et al.   BIOINFORMATICS

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Ecosystem Engineers in the Pelagic Realm: Alteration of Habitat by Species Ranging from Microbes to Jellyfish

(2010) D. L. Breitburg et al.   INTEGRATIVE AND COMPARATIVE BIOLOGY

Experimental factors affecting PCR-based estimates of microbial species richness and evenness

(2010) Anna Engelbrektson et al.   ISME Journal

Distinct flavobacterial communities in contrasting water masses of the North Atlantic Ocean

(2010) Paola R Gómez-Pereira et al.   ISME Journal

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

(2010) Morgan N. Price et al.   PLoS One

Seasonal Changes in Bacterial and Archaeal Gene Expression Patterns across Salinity Gradients in the Columbia River Coastal Margin

(2010) Maria W. Smith et al.   PLoS One

The Taxonomic and Functional Diversity of Microbes at a Temperate Coastal Site: A ‘Multi-Omic’ Study of Seasonal and Diel Temporal Variation

(2010) Jack A. Gilbert et al.   PLoS One

PyNAST: a flexible tool for aligning sequences to a template alignment

(2009) J. G. Caporaso et al.   BIOINFORMATICS

Occurrence of phosphate acquisition genes inProchlorococcuscells from different ocean regions

(2009) Adam C. Martiny et al.   ENVIRONMENTAL MICROBIOLOGY

Modelling nutrient loads to Sydney estuary (Australia)

(2009) Gavin F. Birch et al.   ENVIRONMENTAL MONITORING AND ASSESSMENT

Stormwater metal loading to a well-mixed/stratified estuary (Sydney Estuary, Australia) and management implications

(2009) Gavin F. Birch et al.   ENVIRONMENTAL MONITORING AND ASSESSMENT

Systematic artifacts in metagenomes from complex microbial communities

(2009) Vicente Gomez-Alvarez et al.   ISME Journal

The microbial ocean from genomes to biomes

(2009) Edward F. DeLong   NATURE

The metagenomics RAST server – a public resource for the automatic phylogenetic and functional analysis of metagenomes

(2008) F Meyer et al.   BMC BIOINFORMATICS

Spreading Dead Zones and Consequences for Marine Ecosystems

(2008) R. J. Diaz et al.   SCIENCE