Characterising and predicting cyanobacterial blooms in an 8-year amplicon sequencing time course

Compositional analysis: a valid approach to analyze microbiome high-throughput sequencing data

(2016) Gregory B. Gloor et al.   CANADIAN JOURNAL OF MICROBIOLOGY

Predicting taxonomic and functional structure of microbial communities in acid mine drainage

(2016) Jialiang Kuang et al.   ISME Journal

DADA2: High-resolution sample inference from Illumina amplicon data

(2016) Benjamin J Callahan et al.   NATURE METHODS

Rapid adaptation of harmful cyanobacteria to rising CO2

(2016) Giovanni Sandrini et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

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

Microbial communities reflect temporal changes in cyanobacterial composition in a shallow ephemeral freshwater lake

(2015) Jason Nicholas Woodhouse et al.   ISME Journal

Dynamic internal drivers of a historically severe cyanobacteria bloom in Lake Champlain revealed through comprehensive monitoring

(2015) Peter D.F. Isles et al.   JOURNAL OF GREAT LAKES RESEARCH

Marine microbial community dynamics and their ecological interpretation

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

Annual periodicity in planktonic bacterial and archaeal community composition of eutrophic Lake Taihu

(2015) Junfeng Li et al.   Scientific Reports

BioMiCo: a supervised Bayesian model for inference of microbial community structure

(2015) Mahdi Shafiei et al.   Microbiome

Structural Diversity of Bacterial Communities Associated with Bloom-Forming Freshwater Cyanobacteria Differs According to the Cyanobacterial Genus

(2015) Imen Louati et al.   PLoS One

A novel model for cyanobacteria bloom formation: the critical role of anoxia and ferrous iron

(2014) L. A. Molot et al.   FRESHWATER BIOLOGY

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

(2014) A Murat Eren et al.   ISME Journal

Seasonal and interannual variability of the marine bacterioplankton community throughout the water column over ten years

(2014) Jacob A Cram et al.   ISME Journal

Comparative single-cell genomics reveals potential ecological niches for the freshwater acI Actinobacteria lineage

(2014) Trevor W Ghylin et al.   ISME Journal

Host-Specificity and Dynamics in Bacterial Communities Associated with Bloom-Forming Freshwater Phytoplankton

(2014) Inessa Lacativa Bagatini et al.   PLoS One

Rising CO2 Levels Will Intensify Phytoplankton Blooms in Eutrophic and Hypertrophic Lakes

(2014) Jolanda M. H. Verspagen et al.   PLoS One

Oxic water column methanogenesis as a major component of aquatic CH4 fluxes

(2014) Matthew J Bogard et al.   Nature Communications

Waste Not, Want Not: Why Rarefying Microbiome Data Is Inadmissible

(2014) Paul J. McMurdie et al.   PLoS Computational Biology

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

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

Linking seasonal inorganic nitrogen shift to the dynamics of microbial communities in the Chesapeake Bay

(2013) Yiguo Hong et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Harmful Cyanobacterial Blooms: Causes, Consequences, and Controls

(2013) Hans W. Paerl et al.   MICROBIAL ECOLOGY

A Filtering Method to Generate High Quality Short Reads Using Illumina Paired-End Technology

(2013) A. Murat Eren et al.   PLoS One

Metagenomic Identification of Bacterioplankton Taxa and Pathways Involved in Microcystin Degradation in Lake Erie

(2013) Xiaozhen Mou et al.   PLoS One

phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data

(2013) Paul J. McMurdie et al.   PLoS One

ANOVA-Like Differential Expression (ALDEx) Analysis for Mixed Population RNA-Seq

(2013) Andrew D. Fernandes et al.   PLoS One

Abundance-weighted phylogenetic diversity measures distinguish microbial community states and are robust to sampling depth

(2013) Connor O. McCoy et al.   PeerJ

Predicting cyanobacterial dynamics in the face of global change: the importance of scale and environmental context

(2012) Zofia E. Taranu et al.   GLOBAL CHANGE BIOLOGY

A decade of seasonal dynamics and co-occurrences within freshwater bacterioplankton communities from eutrophic Lake Mendota, WI, USA

(2012) Emily L Kara et al.   ISME Journal

Predicting bacterial community assemblages using an artificial neural network approach

(2012) Peter E Larsen et al.   NATURE METHODS

Cascade multivariate regression tree: a novel approach for modelling nested explanatory sets

(2012) Marie-Hélène Ouellette et al.   Methods in Ecology and Evolution

Lake warming mimics fertilization

(2012) Monika Winder   Nature Climate Change

Harmful filamentous cyanobacteria favoured by reduced water turnover with lake warming

(2012) Thomas Posch et al.   Nature Climate Change

Fundamentals of Microbial Community Resistance and Resilience

(2012) Ashley Shade et al.   Frontiers in Microbiology

Alga-Derived Substrates Select for Distinct Betaproteobacterial Lineages and Contribute to Niche Separation in Limnohabitans Strains

(2011) Karel Šimek et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Characterization of the bacterial community composition in a hypoxic zone induced by Microcystis blooms in Lake Taihu, China

(2011) Huabing Li et al.   FEMS MICROBIOLOGY ECOLOGY

The rise of harmful cyanobacteria blooms: The potential roles of eutrophication and climate change

(2011) J.M. O’Neil et al.   HARMFUL ALGAE

Coherent dynamics and association networks among lake bacterioplankton taxa

(2011) Alexander Eiler et al.   ISME Journal

A Guide to the Natural History of Freshwater Lake Bacteria

(2011) R. J. Newton et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Climate change: Links to global expansion of harmful cyanobacteria

(2011) Hans W. Paerl et al.   WATER RESEARCH

Detection of Microcystin-Producing Cyanobacteria in Missisquoi Bay, Quebec, Canada, Using Quantitative PCR

(2010) N. Fortin et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Linking environmental nutrient enrichment and disease emergence in humans and wildlife

(2010) Pieter T. J. Johnson et al.   ECOLOGICAL APPLICATIONS

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

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

FastTree: Computing Large Minimum Evolution Trees with Profiles instead of a Distance Matrix

(2009) M. N. Price et al.   MOLECULAR BIOLOGY AND EVOLUTION

Distilling Free-Form Natural Laws from Experimental Data

(2009) Michael Schmidt et al.   SCIENCE

Climate change: a catalyst for global expansion of harmful cyanobacterial blooms

(2009) Hans W. Paerl et al.   Environmental Microbiology Reports

How well can we forecast high biomass algal bloom events in a eutrophic coastal sea?

(2008) J. Icarus Allen et al.   HARMFUL ALGAE

High diversity of cultivable heterotrophic bacteria in association with cyanobacterial water blooms

(2008) Katri A Berg et al.   ISME Journal

CLIMATE: Blooms Like It Hot

(2008) H. W. Paerl et al.   SCIENCE