Free-living bacteria and potential bacterial pathogens in sewage treatment plants

Patterns of bacterial diversity in the marine planktonic particulate matter continuum

(2017) Mireia Mestre et al.   ISME Journal

Diversity and community composition of particle-associated and free-living bacteria in mesopelagic and bathypelagic Southern Ocean water masses: Evidence of dispersal limitation in the Bransfield Strait

(2017) Mathias Milici et al.   LIMNOLOGY AND OCEANOGRAPHY

1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life

(2017) Supratim Mukherjee et al.   NATURE BIOTECHNOLOGY

What Makes a Bacterial Species Pathogenic?:Comparative Genomic Analysis of the Genus Leptospira

(2016) Derrick E. Fouts et al.   PLoS Neglected Tropical Diseases

High Levels of Antibiotic Resistance Genes and Their Correlations with Bacterial Community and Mobile Genetic Elements in Pharmaceutical Wastewater Treatment Bioreactors

(2016) Wenda Tao et al.   PLoS One

Metagenomic Assembly Reveals Hosts of Antibiotic Resistance Genes and the Shared Resistome in Pig, Chicken, and Human Feces

(2015) Liping Ma et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Profile and Fate of Bacterial Pathogens in Sewage Treatment Plants Revealed by High-Throughput Metagenomic Approach

(2015) Bing Li et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes

(2015) Donovan H. Parks et al.   GENOME RESEARCH

MetaPhlAn2 for enhanced metagenomic taxonomic profiling

(2015) Duy Tin Truong et al.   NATURE METHODS

VFDB 2016: hierarchical and refined dataset for big data analysis—10 years on

(2015) Lihong Chen et al.   NUCLEIC ACIDS RESEARCH

Perspective for Aquaponic Systems: “Omic” Technologies for Microbial Community Analysis

(2015) Perla Munguia-Fragozo et al.   Biomed Research International

Bacterial Pathogens and Community Composition in Advanced Sewage Treatment Systems Revealed by Metagenomics Analysis Based on High-Throughput Sequencing

(2015) Xin Lu et al.   PLoS One

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

A comprehensive insight into bacterial virulence in drinking water using 454 pyrosequencing and Illumina high-throughput sequencing

(2014) Kailong Huang et al.   ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY

Prevalence of Antibiotic Resistance Genes and Bacterial Pathogens in Long-Term Manured Greenhouse Soils As Revealed by Metagenomic Survey

(2014) Hua Fang et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Comparison of the Microbial Community Structures of Untreated Wastewaters from Different Geographic Locales

(2013) Orin C. Shanks et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Tracking human sewage microbiome in a municipal wastewater treatment plant

(2013) Lin Cai et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Taxonomic relatedness shapes bacterial assembly in activated sludge of globally distributed wastewater treatment plants

(2013) Feng Ju et al.   ENVIRONMENTAL MICROBIOLOGY

Detecting Human Bacterial Pathogens in Wastewater Treatment Plants by a High-Throughput Shotgun Sequencing Technique

(2013) Lin Cai et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Potential Human Pathogenic Bacteria in a Mixed Urban Watershed as Revealed by Pyrosequencing

(2013) A. Mark Ibekwe et al.   PLoS One

Microbial selectivity of UV treatment on antibiotic-resistant heterotrophic bacteria in secondary effluents of a municipal wastewater treatment plant

(2013) Mei-Ting Guo et al.   WATER RESEARCH

IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth

(2012) Y. Peng et al.   BIOINFORMATICS

Municipal wastewater treatment plants as pathogen removal systems and as a contamination source of noroviruses and Enterococcus faecalis

(2012) Hui-Wen A. Cheng et al.   JOURNAL OF WATER AND HEALTH

The Passive Yet Successful Way of Planktonic Life: Genomic and Experimental Analysis of the Ecology of a Free-Living Polynucleobacter Population

(2012) Martin W. Hahn et al.   PLoS One

Detection of pathogens in water: from phylochips to qPCR to pyrosequencing

(2011) Tiong Gim Aw et al.   CURRENT OPINION IN BIOTECHNOLOGY

Pathogenic Bacteria in Sewage Treatment Plants as Revealed by 454 Pyrosequencing

(2011) Lin Ye et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons

(2011) B. J. Haas 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

Analysis of human and animal fecal microbiota for microbial source tracking

(2010) Jung Eun Lee et al.   ISME Journal

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

Systematic artifacts in metagenomes from complex microbial communities

(2009) Vicente Gomez-Alvarez et al.   ISME Journal

Detection and identification of specific bacteria in wound biofilms using peptide nucleic acid fluorescent in situ hybridization (PNA FISH)

(2009) S. Malic et al.   MICROBIOLOGY-SGM

Roles of DacB and Spm Proteins in Clostridium perfringens Spore Resistance to Moist Heat, Chemicals, and UV Radiation

(2008) D. Paredes-Sabja et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Fate of pathogenic microorganisms and indicators in secondary activated sludge wastewater treatment plants

(2008) Qinxue Wen et al.   JOURNAL OF ENVIRONMENTAL MANAGEMENT

Behaviour of pathogenic and indicator bacteria during urban wastewater treatment and sludge composting, as revealed by quantitative PCR

(2007) Nathalie Wéry et al.   WATER RESEARCH