Ubiquity and quantitative significance of bacterioplankton lineages inhabiting the oxygenated hypolimnion of deep freshwater lakes

Evidence for quorum sensing and differential metabolite production by a marine bacterium in response to DMSP

(2016) Winifred M Johnson et al.   ISME Journal

Beyond the Black Queen Hypothesis

(2016) Alix Mas et al.   ISME Journal

Diverse, uncultivated bacteria and archaea underlying the cycling of dissolved protein in the ocean

(2016) William D Orsi et al.   ISME Journal

Distribution and characteristics of ultraviolet absorption and fluorescenceof dissolved organic matter in a large lake (Lake Biwa, Japan)

(2016) Kazuhide Hayakawa et al.   JOURNAL OF GREAT LAKES RESEARCH

Identification, enumeration and diversity of nitrifying planktonic archaea and bacteria in trophic end members of the Laurentian Great Lakes

(2016) Maitreyee Mukherjee et al.   JOURNAL OF GREAT LAKES RESEARCH

Spatiotemporal distribution of bacterioplankton functional groups along a freshwater estuary to pelagic gradient in Lake Michigan

(2016) Masanori Fujimoto et al.   JOURNAL OF GREAT LAKES RESEARCH

Bacterial Community Structures in Freshwater Polar Environments of Svalbard

(2016) Spyridon Ntougias et al.   MICROBES AND ENVIRONMENTS

MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets

(2016) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

Microbial communities within the water column of freshwater Lake Radok, East Antarctica: predominant 16S rDNA phylotypes and bacterial cultures

(2016) Denis S. Karlov et al.   POLAR BIOLOGY

Vertical partitioning of freshwater bacterioplankton community in a deep mesotrophic lake with a fully oxygenated hypolimnion (Lake Biwa, Japan)

(2016) Yusuke Okazaki et al.   Environmental Microbiology Reports

Chloroflexi CL500-11 Populations That Predominate Deep-Lake Hypolimnion Bacterioplankton Rely on Nitrogen-Rich Dissolved Organic Matter Metabolism and C1Compound Oxidation

(2015) Vincent J. Denef et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Distribution patterns and environmental correlates of Thaumarchaeota abundance in six deep subalpine lakes

(2015) Cristiana Callieri et al.   AQUATIC SCIENCES

Auxotrophy and intrapopulation complementary in the ‘interactome’ of a cultivated freshwater model community

(2015) Sarahi L. Garcia et al.   MOLECULAR ECOLOGY

Particle-association lifestyle is a phylogenetically conserved trait in bathypelagic prokaryotes

(2015) Guillem Salazar et al.   MOLECULAR ECOLOGY

Refractory dissolved organic nitrogen accumulation in high-elevation lakes

(2015) S.J. Goldberg et al.   Nature Communications

Ecology and Distribution of Thaumarchaea in the Deep Hypolimnion of Lake Maggiore

(2015) Manuela Coci et al.   ARCHAEA-AN INTERNATIONAL MICROBIOLOGICAL 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

Characterization of a Planctomycetal Organelle: a Novel Bacterial Microcompartment for the Aerobic Degradation of Plant Saccharides

(2014) Onur Erbilgin et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

Comparison of bacterial communities on limnic versus coastal marine particles reveals profound differences in colonization

(2014) Mina Bižić-Ionescu et al.   ENVIRONMENTAL MICROBIOLOGY

Global phylogeography of pelagicPolynucleobacterbacteria: Restricted geographic distribution of subgroups, isolation by distance and influence of climate

(2014) Martin W. Hahn et al.   ENVIRONMENTAL MICROBIOLOGY

Archaea and Bacteria in deep lake hypolimnion: in situ dark inorganic carbon uptake

(2014) Cristiana Callieri et al.   JOURNAL OF LIMNOLOGY

Chemodiversity of dissolved organic matter in lakes driven by climate and hydrology

(2014) Anne M. Kellerman et al.   Nature Communications

Interactions between specific phytoplankton and bacteria affect lake bacterial community succession

(2013) Sara F. Paver et al.   ENVIRONMENTAL MICROBIOLOGY

Spatio-temporal changes in the structure of archaeal communities in two deep freshwater lakes

(2013) Lyria Berdjeb et al.   FEMS MICROBIOLOGY ECOLOGY

Biogeochemical control on fluorescent dissolved organic matter dynamics in a large freshwater lake (Lake Biwa, Japan)

(2013) Shoji D. Thottathil et al.   LIMNOLOGY AND OCEANOGRAPHY

Comparative analysis of biodiversity in the planktonic and biofilm bacterial communities in Lake Baikal

(2013) V. V. Parfenova et al.   MICROBIOLOGY

UPARSE: highly accurate OTU sequences from microbial amplicon reads

(2013) Robert C Edgar   NATURE METHODS

The Diversity of the Limnohabitans Genus, an Important Group of Freshwater Bacterioplankton, by Characterization of 35 Isolated Strains

(2013) Vojtěch Kasalický et al.   PLoS One

Patterns of Limnohabitans Microdiversity across a Large Set of Freshwater Habitats as Revealed by Reverse Line Blot Hybridization

(2013) Jan Jezbera et al.   PLoS One

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

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

Characterization of Protein-like Fluorophores Released from Lake Phytoplankton on the Basis of Fractionation and Electrophoresis

(2012) Etsu YAMADA et al.   ANALYTICAL SCIENCES

SINA: Accurate high-throughput multiple sequence alignment of ribosomal RNA genes

(2012) Elmar Pruesse et al.   BIOINFORMATICS

Coverage-based rarefaction and extrapolation: standardizing samples by completeness rather than size

(2012) Anne Chao et al.   ECOLOGY

Seasonal and vertical distribution of putative ammonia-oxidizing thaumarchaeotal communities in an oligotrophic lake

(2012) Elisabeth W. Vissers et al.   FEMS MICROBIOLOGY ECOLOGY

Seasonal dominance of CL500-11 bacterioplankton (phylumChloroflexi) in the oxygenated hypolimnion of Lake Biwa, Japan

(2012) Yusuke Okazaki et al.   FEMS MICROBIOLOGY ECOLOGY

Vertical segregation and phylogenetic characterization of ammonia-oxidizing Archaea in a deep oligotrophic lake

(2012) Jean-Christophe Auguet et al.   ISME Journal

Rates and controls of nitrification in a large oligotrophic lake

(2012) Gaston E. Small et al.   LIMNOLOGY AND OCEANOGRAPHY

Microbial Diversity in Deep-sea Methane Seep Sediments Presented by SSU rRNA Gene Tag Sequencing

(2012) Takuro Nunoura et al.   MICROBES AND ENVIRONMENTS

The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

The Black Queen Hypothesis: Evolution of Dependencies through Adaptive Gene Loss

(2012) J. J. Morris et al.   mBio

Recalcitrant Dissolved Organic Carbon Fractions

(2011) Dennis A. Hansell   Annual Review of Marine Science

The Microbial Carbon Pump: from Genes to Ecosystems

(2011) Nianzhi Jiao et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Spatiotemporal Changes in the Structure and Composition of a Less-Abundant Bacterial Phylum (Planctomycetes) in Two Perialpine Lakes

(2011) Thomas Pollet et al.   APPLIED AND ENVIRONMENTAL 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

Temporal Variability of Coastal Planctomycetes Clades at Kabeltonne Station, North Sea

(2011) Ilaria Pizzetti et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Ubiquity of Polynucleobacter necessarius subspecies asymbioticus results from ecological diversification

(2011) Jan Jezbera et al.   ENVIRONMENTAL MICROBIOLOGY

Seasonal bloom dynamics and ecophysiology of the freshwater sister clade of SAR11 bacteria ‘that rule the waves’ (LD12)

(2011) Michaela M Salcher 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

Genome of a Low-Salinity Ammonia-Oxidizing Archaeon Determined by Single-Cell and Metagenomic Analysis

(2011) Paul C. Blainey et al.   PLoS One

Vertical structure of small eukaryotes in three lakes that differ by their trophic status: a quantitative approach

(2010) Cecile Lepère et al.   ISME Journal

Autochthonous origin of semi-labile dissolved organic carbon in a large monomictic lake (Lake Biwa): carbon stable isotopic evidence

(2009) Koh Maki et al.   LIMNOLOGY

Production of bio-refractory fluorescent dissolved organic matter in the ocean interior

(2008) Youhei Yamashita et al.   Nature Geoscience