MiDAS: the field guide to the microbes of activated sludge

Back to Basics – The Influence of DNA Extraction and Primer Choice on Phylogenetic Analysis of Activated Sludge Communities

(2015) Mads Albertsen et al.   PLoS One

High quality draft genome sequence of Meganema perideroedes str. Gr1T and a proposal for its reclassification to the family Meganemaceae fam. nov.

(2015) Simon J McIlroy et al.   Standards in Genomic Sciences

Uniting the classification of cultured and uncultured bacteria and archaea using 16S rRNA gene sequences

(2014) Pablo Yarza et al.   NATURE REVIEWS MICROBIOLOGY

rrnDB: improved tools for interpreting rRNA gene abundance in bacteria and archaea and a new foundation for future development

(2014) Steven F. Stoddard et al.   NUCLEIC ACIDS RESEARCH

Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomes

(2013) Mads Albertsen et al.   NATURE BIOTECHNOLOGY

LPSN—list of prokaryotic names with standing in nomenclature

(2013) Aidan C. Parte   NUCLEIC ACIDS RESEARCH

Ribosomal Database Project: data and tools for high throughput rRNA analysis

(2013) James R. Cole et al.   NUCLEIC ACIDS RESEARCH

The Microbial Database for Danish wastewater treatment plants with nutrient removal (MiDas-DK) – a tool for understanding activated sludge population dynamics and community stability

(2013) A. T. Mielczarek et al.   WATER SCIENCE AND TECHNOLOGY

‘CandidatusHalomonas phosphatis’, a novel polyphosphate-accumulating organism in full-scale enhanced biological phosphorus removal plants

(2012) Hien Thi Thu Nguyen et al.   ENVIRONMENTAL MICROBIOLOGY

High and stable substrate specificities of microorganisms in enhanced biological phosphorus removal plants

(2012) Tomonori Kindaichi et al.   ENVIRONMENTAL MICROBIOLOGY

Nitrification expanded: discovery, physiology and genomics of a nitrite-oxidizing bacterium from the phylum Chloroflexi

(2012) Dimitry Y Sorokin et al.   ISME Journal

Phylogenetic conservatism of functional traits in microorganisms

(2012) Adam C Martiny et al.   ISME Journal

Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms

(2012) J Gregory Caporaso et al.   ISME Journal

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

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

Population dynamics of filamentous bacteria in Danish wastewater treatment plants with nutrient removal

(2012) Artur Tomasz Mielczarek et al.   WATER RESEARCH

Microbial communities involved in enhanced biological phosphorus removal from wastewater—a model system in environmental biotechnology

(2011) Per Halkjær Nielsen et al.   CURRENT OPINION IN BIOTECHNOLOGY

Domestic Wastewater Treatment as a Net Energy Producer–Can This be Achieved?

(2011) Perry L. McCarty et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Eikelboom's morphotype 0803 in activated sludge belongs to the genus Caldilinea in the phylum Chloroflexi

(2011) Caroline Kragelund et al.   FEMS MICROBIOLOGY ECOLOGY

A metagenome of a full-scale microbial community carrying out enhanced biological phosphorus removal

(2011) Mads Albertsen 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

454 Pyrosequencing reveals bacterial diversity of activated sludge from 14 sewage treatment plants

(2011) Tong Zhang et al.   ISME Journal

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

A conceptual ecosystem model of microbial communities in enhanced biological phosphorus removal plants

(2010) Per Halkjær Nielsen et al.   WATER RESEARCH

The activated sludge bulking filament Eikelboom morphotype 0914 is a member of the Chloroflexi

(2010) Lachlan B. M. Speirs et al.   Environmental Microbiology Reports

The Human Oral Microbiome Database: a web accessible resource for investigating oral microbe taxonomic and genomic information

(2010) T. Chen et al.   Database-The Journal of Biological Databases and Curation

Filamentous Bacterium Eikelboom Type 0092 in Activated Sludge Plants in Australia Is a Member of the Phylum Chloroflexi

(2009) L. Speirs et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Adhesion characteristics of nitrifying bacteria in activated sludge

(2008) Poul Larsen et al.   WATER RESEARCH