A Doubling of Microphytobenthos Biomass Coincides with a Tenfold Increase in Denitrifier and Total Bacterial Abundances in Intertidal Sediments of a Temperate Estuary

Microphytobenthic extracellular polymeric substances (EPS) in intertidal sediments fuel both generalist and specialist EPS-degrading bacteria

(2016) Joe D. Taylor et al.   LIMNOLOGY AND OCEANOGRAPHY

Ecology of intertidal microbial biofilms: Mechanisms, patterns and future research needs

(2014) Carl Van Colen et al.   JOURNAL OF SEA RESEARCH

Tidal and seasonal effects on the short-term temporal patterns of bacteria, microphytobenthos and exopolymers in natural intertidal biofilms (Brouage, France)

(2014) Francis Orvain et al.   JOURNAL OF SEA RESEARCH

Detecting Nitrous Oxide Reductase (nosZ) Genes in Soil Metagenomes: Method Development and Implications for the Nitrogen Cycle

(2014) L. H. Orellana et al.   mBio

FunFrame: functional gene ecological analysis pipeline

(2013) David Weisman et al.   BIOINFORMATICS

Microphytobenthic biomass on a subtropical intertidal flat of Paranaguá bay (Southern Brazil): spatio-temporal distribution and the influence of environmental conditions

(2013) Alessandra Larissa D'Oliveira Fonseca et al.   BRAZILIAN JOURNAL OF OCEANOGRAPHY

Differences between aerobic and anaerobic degradation of microphytobenthic biofilm-derived organic matter within intertidal sediments

(2013) Boyd A. McKew et al.   FEMS MICROBIOLOGY ECOLOGY

Microbial minorities modulate methane consumption through niche partitioning

(2013) Paul LE Bodelier et al.   ISME Journal

Patterns and Processes of Microbial Community Assembly

(2013) D. R. Nemergut et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

The Importance of Dissimilatory Nitrate Reduction to Ammonium (DNRA) in the Nitrogen Cycle of Coastal Ecosystems

(2013) Anne Giblin et al.   OCEANOGRAPHY

Taxonomic Classification of Bacterial 16S rRNA Genes Using Short Sequencing Reads: Evaluation of Effective Study Designs

(2013) Orna Mizrahi-Man et al.   PLoS One

Role of Diatoms in the Spatial-Temporal Distribution of Intracellular Nitrate in Intertidal Sediment

(2013) Peter Stief et al.   PLoS One

Functional genes to assess nitrogen cycling and aromatic hydrocarbon degradation: primers and processing matter

(2013) C. Ryan Penton et al.   Frontiers in Microbiology

Transitions in nirS-type denitrifier diversity, community composition, and biogeochemical activity along the Chesapeake Bay estuary

(2013) Christopher A. Francis et al.   Frontiers in Microbiology

Relationship between Abundance and Specific Activity of Bacterioplankton in Open Ocean Surface Waters

(2012) Dana E. Hunt et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Emission of nitrous oxide and dinitrogen by diverse earthworm families from Brazil and resolution of associated denitrifying and nitrate-dissimilating taxa

(2012) Peter S. Depkat-Jakob et al.   FEMS MICROBIOLOGY ECOLOGY

Salt marsh sediment diversity: a test of the variability of the rare biosphere among environmental replicates

(2012) Jennifer L Bowen et al.   ISME Journal

Benthic primary production and bacterial denitrification in a Mediterranean eutrophic coastal lagoon

(2012) M. Bartoli et al.   JOURNAL OF EXPERIMENTAL MARINE BIOLOGY AND ECOLOGY

Interactions between Diatoms and Bacteria

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

Organism-Sediment Interactions Govern Post-Hypoxia Recovery of Ecosystem Functioning

(2012) Carl Van Colen et al.   PLoS One

Barcoded Primers Used in Multiplex Amplicon Pyrosequencing Bias Amplification

(2011) David Berry et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

UCHIME improves sensitivity and speed of chimera detection

(2011) Robert C. Edgar et al.   BIOINFORMATICS

HMM-FRAME: accurate protein domain classification for metagenomic sequences containing frameshift errors

(2011) Yuan Zhang et al.   BMC BIOINFORMATICS

Contrasting denitrifier communities relate to contrasting N2O emission patterns from acidic peat soils in arctic tundra

(2011) Katharina Palmer et al.   ISME Journal

Microbial seed banks: the ecological and evolutionary implications of dormancy

(2011) Jay T. Lennon et al.   NATURE REVIEWS MICROBIOLOGY

Diatoms respire nitrate to survive dark and anoxic conditions

(2011) A. Kamp et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Activity of abundant and rare bacteria in a coastal ocean

(2011) B. J. Campbell et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Denitrifying Bacteria Isolated from Terrestrial Subsurface Sediments Exposed to Mixed-Waste Contamination

(2010) S. J. Green et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Effect of pH and dissolved organic matter on the abundance of nirK and nirS denitrifiers in spruce forest soil

(2010) Jiří Bárta et al.   BIOGEOCHEMISTRY

Impact of microphytobenthos on the sediment biogeochemical cycles: A modeling approach

(2010) Sébastien Hochard et al.   ECOLOGICAL MODELLING

Replicate or lie

(2010) James I. Prosser   ENVIRONMENTAL MICROBIOLOGY

Ecological and evolutionary factors underlying global and local assembly of denitrifier communities

(2010) Christopher M Jones et al.   ISME Journal

Dissimilatory reduction of nitrate to ammonium, not denitrification or anammox, dominates benthic nitrate reduction in tropical estuaries

(2010) Liang F. Dong et al.   LIMNOLOGY AND OCEANOGRAPHY

The Stabilisation Potential of Individual and Mixed Assemblages of Natural Bacteria and Microalgae

(2010) Helen V. Lubarsky et al.   PLoS One

Dormancy contributes to the maintenance of microbial diversity

(2010) S. E. Jones et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Evolution and Future of Earth’s Nitrogen Cycle

(2010) Donald E. Canfield et al.   SCIENCE

Denitrifier abundance and activity across the San Francisco Bay estuary

(2010) Annika C. Mosier et al.   Environmental Microbiology Reports

Changes in Benthic Denitrification, Nitrate Ammonification, and Anammox Process Rates and Nitrate and Nitrite Reductase Gene Abundances along an Estuarine Nutrient Gradient (the Colne Estuary, United Kingdom)

(2009) L. F. Dong et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Abundance of Novel and Diverse tfdA-Like Genes, Encoding Putative Phenoxyalkanoic Acid Herbicide-Degrading Dioxygenases, in Soil

(2009) A. Zaprasis et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities

(2009) P. D. Schloss et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Significance of diatom-derived polymers in carbon flow dynamics within estuarine biofilms determined through isotopic enrichment

(2009) BJ Bellinger et al.   AQUATIC MICROBIAL ECOLOGY

Nitrogen dynamics at the sediment–water interface in shallow, sub-tropical Florida Bay: why denitrification efficiency may decrease with increased eutrophication

(2009) Wayne S. Gardner et al.   BIOGEOCHEMISTRY

Adaptations of microphytobenthos assemblages to sediment type and tidal position

(2009) B. Jesus et al.   CONTINENTAL SHELF RESEARCH

Microphytobenthos as a biogeomorphological force in intertidal sediment stabilization

(2009) Lucas J. Stal   ECOLOGICAL ENGINEERING

Toxigenic effects of diatoms on grazers, phytoplankton and other microbes: a review

(2009) Adrianna Ianora et al.   ECOTOXICOLOGY

Biogeographical distribution of diverse anaerobic ammonium oxidizing (anammox) bacteria in Cape Fear River Estuary

(2009) Olivia R. Dale et al.   ENVIRONMENTAL MICROBIOLOGY

Temporal and spatial variability of microphytobenthos in a shallow lagoon: Ria Formosa (Portugal)

(2009) Ana Brito et al.   ESTUARINE COASTAL AND SHELF SCIENCE

Archaeal ammonia oxidizers and nirS-type denitrifiers dominate sediment nitrifying and denitrifying populations in a subtropical macrotidal estuary

(2009) Guy C J Abell et al.   ISME Journal

Advantages of a diluted nutrient broth medium for isolating N2-producing denitrifying bacteria of α-Proteobacteria in surface and subsurface upland soils

(2009) Tomoyoshi Hashimoto et al.   SOIL SCIENCE AND PLANT NUTRITION

Genetic and Functional Variation in Denitrifier Populations along a Short-Term Restoration Chronosequence

(2008) J. M. Smith et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

MEGA: A biologist-centric software for evolutionary analysis of DNA and protein sequences

(2008) S. Kumar et al.   BRIEFINGS IN BIOINFORMATICS

Variations of the abundance and nucleic acid content of heterotrophic bacteria in Beaufort Shelf waters during winter and spring

(2008) Claude Belzile et al.   JOURNAL OF MARINE SYSTEMS

Diversity and Distribution of Sediment NirS-Encoding Bacterial Assemblages in Response to Environmental Gradients in the Eutrophied Jiaozhou Bay, China

(2008) Hongyue Dang et al.   MICROBIAL ECOLOGY

Spreading Dead Zones and Consequences for Marine Ecosystems

(2008) R. J. Diaz et al.   SCIENCE

Differential effect of three polyunsaturated aldehydes on marine bacterial isolates

(2007) Francois Ribalet et al.   AQUATIC TOXICOLOGY