Are Oligotypes Meaningful Ecological and Phylogenetic Units? A Case Study of Microcystis in Freshwater Lakes

Cyanobacterial harmful algal blooms are a biological disturbance to Western Lake Erie bacterial communities

(2017) Michelle A. Berry et al.   ENVIRONMENTAL MICROBIOLOGY

A review of the global ecology, genomics, and biogeography of the toxic cyanobacterium, Microcystis spp.

(2016) Matthew J. Harke et al.   HARMFUL ALGAE

The dual role of nitrogen supply in controlling the growth and toxicity of cyanobacterial blooms

(2016) Christopher J. Gobler et al.   HARMFUL ALGAE

Complete ecological isolation and cryptic diversity in Polynucleobacter bacteria not resolved by 16S rRNA gene sequences

(2016) Martin W Hahn et al.   ISME Journal

DADA2: High-resolution sample inference from Illumina amplicon data

(2016) Benjamin J Callahan et al.   NATURE METHODS

Influence of Land Use, Nutrients, and Geography on Microbial Communities and Fecal Indicator Abundance at Lake Michigan Beaches

(2015) Danielle D. Cloutier et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Comparison of Sewage and Animal Fecal Microbiomes by Using Oligotyping Reveals Potential Human Fecal Indicators in Multiple Taxonomic Groups

(2015) Jenny C. Fisher et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Nutrient-Controlled Niche Differentiation of Western Lake Erie Cyanobacterial Populations Revealed via Metatranscriptomic Surveys

(2015) Matthew J. Harke et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Diverse, rare microbial taxa responded to the Deepwater Horizon deep-sea hydrocarbon plume

(2015) Sara Kleindienst et al.   ISME Journal

A unique assemblage of cosmopolitan freshwater bacteria and higher community diversity differentiate an urbanized estuary from oligotrophic Lake Michigan

(2015) Ryan J. Newton et al.   Frontiers in Microbiology

Biogeographic patterns of bacterial microdiversity in Arctic deep-sea sediments (HAUSGARTEN, Fram Strait)

(2015) Pier Luigi Buttigieg et al.   Frontiers in Microbiology

Towards a taxonomic coherence between average nucleotide identity and 16S rRNA gene sequence similarity for species demarcation of prokaryotes

(2014) M. Kim et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

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

(2014) A Murat Eren et al.   ISME Journal

Integrating phylogeny, geographic niche partitioning and secondary metabolite synthesis in bloom-forming Planktothrix

(2014) Rainer Kurmayer et al.   ISME Journal

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

Ordering microbial diversity into ecologically and genetically cohesive units

(2014) B. Jesse Shapiro et al.   TRENDS IN MICROBIOLOGY

Phaeocystis antarctica blooms strongly influence bacterial community structures in the Amundsen Sea polynya

(2014) Tom O. Delmont et al.   Frontiers in Microbiology

The R package otu2ot for implementing the entropy decomposition of nucleotide variation in sequence data

(2014) Alban Ramette et al.   Frontiers in Microbiology

Oligotyping reveals community level habitat selection within the genus Vibrio

(2014) Victor T. Schmidt et al.   Frontiers in Microbiology

Oligotyping reveals differences between gut microbiomes of free-ranging sympatric Namibian carnivores (Acinonyx jubatus, Canis mesomelas) on a bacterial species-like level

(2014) Sebastian Menke et al.   Frontiers in Microbiology

MLST revisited: the gene-by-gene approach to bacterial genomics

(2013) Martin C. J. Maiden et al.   NATURE REVIEWS MICROBIOLOGY

Surprisingly extensive mixed phylogenetic and ecological signals among bacterial Operational Taxonomic Units

(2013) Alexander F. Koeppel et al.   NUCLEIC ACIDS RESEARCH

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

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

Phylogenetic conservatism of functional traits in microorganisms

(2012) Adam C Martiny et al.   ISME Journal

Genotype × genotype interactions between the toxic cyanobacteriumMicrocystisand its grazer, the waterfleaDaphnia

(2011) Veerle Lemaire et al.   Evolutionary Applications

High-frequency monitoring of the genetic diversity and the potential toxicity of a Microcystis aeruginosa bloom in a French shallow lake

(2011) David Pobel 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

Exploring the Diversity of Gardnerella vaginalis in the Genitourinary Tract Microbiota of Monogamous Couples Through Subtle Nucleotide Variation

(2011) A. Murat Eren et al.   PLoS One

Population Turnover in a Microcystis Bloom Results in Predominantly Nontoxigenic Variants Late in the Season

(2010) C. S. Bozarth et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Proteogenomic basis for ecological divergence of closely related bacteria in natural acidophilic microbial communities

(2010) V. J. Denef et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The genomic basis of trophic strategy in marine bacteria

(2009) F. M. Lauro et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Identifying the fundamental units of bacterial diversity: A paradigm shift to incorporate ecology into bacterial systematics

(2008) A. Koeppel et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Resource Partitioning and Sympatric Differentiation Among Closely Related Bacterioplankton

(2008) D. E. Hunt et al.   SCIENCE