Transfer of energy pathway genes in microbial enhanced biological phosphorus removal communities

Genome Reconstruction and Gene Expression of “Candidatus Accumulibacter phosphatis” Clade IB Performing Biological Phosphorus Removal

(2014) Yanping Mao et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Sequencing depth and coverage: key considerations in genomic analyses

(2014) David Sims et al.   NATURE REVIEWS GENETICS

Low Acetate Concentrations Favor Polyphosphate-Accumulating Organisms over Glycogen-Accumulating Organisms in Enhanced Biological Phosphorus Removal from Wastewater

(2013) Yunjie Tu et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Comparative genomics of two ‘Candidatus Accumulibacter’ clades performing biological phosphorus removal

(2013) Jason J Flowers et al.   ISME Journal

‘Candidatus Competibacter’-lineage genomes retrieved from metagenomes reveal functional metabolic diversity

(2013) Simon J McIlroy et al.   ISME Journal

Community-wide plasmid gene mobilization and selection

(2013) Vladimir Sentchilo et al.   ISME Journal

Previously Undescribed Plasmids Recovered from Activated Sludge Confer Tetracycline Resistance and Phenotypic Changes to Acinetobacter oleivorans DR1

(2013) Hyerim Hong et al.   MICROBIAL ECOLOGY

Metabolic versatility in full-scale wastewater treatment plants performing enhanced biological phosphorus removal

(2013) Ana B. Lanham et al.   WATER RESEARCH

Phosphorus recovery from wastewater through microbial processes

(2012) Zhiguo Yuan et al.   CURRENT OPINION IN BIOTECHNOLOGY

Rapid identification of high-confidence taxonomic assignments for metagenomic data

(2012) Norman J. MacDonald et al.   NUCLEIC ACIDS RESEARCH

Assessment of Metagenomic Assembly Using Simulated Next Generation Sequencing Data

(2012) Daniel R. Mende et al.   PLoS One

Population dynamics of bacteria involved in enhanced biological phosphorus removal in Danish wastewater treatment plants

(2012) Artur Tomasz Mielczarek et al.   WATER RESEARCH

Dynamics of Microbial Community Structure of and Enhanced Biological Phosphorus Removal by Aerobic Granules Cultivated on Propionate or Acetate

(2011) Graciela Gonzalez-Gil et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Classifying short genomic fragments from novel lineages using composition and homology

(2011) Donovan H Parks et al.   BMC BIOINFORMATICS

Evaluation of short read metagenomic assembly

(2011) Anveshi Charuvaka et al.   BMC GENOMICS

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

Directed networks reveal genomic barriers and DNA repair bypasses to lateral gene transfer among prokaryotes

(2011) O. Popa et al.   GENOME RESEARCH

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

(2011) Mads Albertsen et al.   ISME Journal

PHAST: A Fast Phage Search Tool

(2011) Y. Zhou et al.   NUCLEIC ACIDS RESEARCH

Evaluating the Fidelity of De Novo Short Read Metagenomic Assembly Using Simulated Data

(2011) Miguel Pignatelli et al.   PLoS One

Plasmid Metagenome Reveals High Levels of Antibiotic Resistance Genes and Mobile Genetic Elements in Activated Sludge

(2011) Tong Zhang et al.   PLoS One

Microbiology of ‘Candidatus Accumulibacter’ in activated sludge

(2011) Shaomei He et al.   Microbial Biotechnology

DendroPy: a Python library for phylogenetic computing

(2010) J. Sukumaran et al.   BIOINFORMATICS

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Monitoring associations between clade-level variation, overall community structure and ecosystem function in enhanced biological phosphorus removal (EBPR) systems using terminal-restriction fragment length polymorphism (T-RFLP)

(2010) F.R. Slater et al.   WATER RESEARCH

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

(2010) Per Halkjær Nielsen et al.   WATER RESEARCH

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

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

ACLAME: A CLAssification of Mobile genetic Elements, update 2010

(2009) Raphaël Leplae et al.   NUCLEIC ACIDS RESEARCH

Insight into the plasmid metagenome of wastewater treatment plant bacteria showing reduced susceptibility to antimicrobial drugs analysed by the 454-pyrosequencing technology

(2008) Rafael Szczepanowski et al.   JOURNAL OF BIOTECHNOLOGY

The National Center for Biotechnology Information's Protein Clusters Database

(2008) William Klimke et al.   NUCLEIC ACIDS RESEARCH