Predicting the occurrence of monooxygenases and their associated phylotypes in soil microcosms

Sequential anaerobic and aerobic bioaugmentation for commingled groundwater contamination of trichloroethene and 1,4-dioxane

(2021) Fei Li et al.   SCIENCE OF THE TOTAL ENVIRONMENT

Congruent changes in microbial community dynamics and ecosystem methane fluxes following natural drought in two restored fens

(2021) Viktoria Unger et al.   SOIL BIOLOGY & BIOCHEMISTRY

Genesis and Gappa: processing, analyzing and visualizing phylogenetic (placement) data

(2020) Lucas Czech et al.   BIOINFORMATICS

PICRUSt2 for prediction of metagenome functions

(2020) Gavin M. Douglas et al.   NATURE BIOTECHNOLOGY

Discovery of an Inducible Toluene Monooxygenase that Co-oxidizes 1,4-Dioxane and 1,1-Dichloroethylene in Propanotrophic Azoarcus sp. DD4

(2020) Daiyong Deng et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Low Abundance of Methanotrophs in Sediments of Shallow Boreal Coastal Zones With High Water Methane Concentrations

(2020) Elias Broman et al.   Frontiers in Microbiology

The Chemistry, Biology and Modulation of Ammonium Nitrification in Soil

(2019) Sebastian Wendeborn   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Evaluation of methanotrophic bacterial communities capable of biodegrading trichloroethene (TCE) in acidic aquifers

(2019) Yiru Shao et al.   BIODEGRADATION

MMOD-induced structural changes of hydroxylase in soluble methane monooxygenase

(2019) Hanseong Kim et al.   Science Advances

Diclofenac, carbamazepine and triclocarban biodegradation in agricultural soils and the microorganisms and metabolic pathways affected

(2018) Jean-Rene Thelusmond et al.   SCIENCE OF THE TOTAL ENVIRONMENT

EPA-ng: Massively Parallel Evolutionary Placement of Genetic Sequences

(2018) Pierre Barbera et al.   SYSTEMATIC BIOLOGY

Members of the Genus Methylobacter Are Inferred To Account for the Majority of Aerobic Methane Oxidation in Oxic Soils from a Freshwater Wetland

(2018) Garrett J. Smith et al.   mBio

Microbial degradation of chloroethenes: a review

(2017) Iva Dolinová et al.   ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH

The identification of carbamazepine biodegrading phylotypes and phylotypes sensitive to carbamazepine exposure in two soil microbial communities

(2016) Jean-Rene Thelusmond et al.   SCIENCE OF THE TOTAL ENVIRONMENT

Diversity and Habitat Preferences of Cultivated and Uncultivated Aerobic Methanotrophic Bacteria Evaluated Based on pmoA as Molecular Marker

(2015) Claudia Knief   Frontiers in Microbiology

SmoXYB1C1Z of Mycobacterium sp. Strain NBB4: a Soluble Methane Monooxygenase (sMMO)-Like Enzyme, Active on C2to C4Alkanes and Alkenes

(2014) Kiri E. Martin et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

circlize implements and enhances circular visualization in R

(2014) Zuguang Gu et al.   BIOINFORMATICS

Identification of toluene degraders in a methanogenic enrichment culture

(2014) S. Jane Fowler et al.   FEMS MICROBIOLOGY ECOLOGY

Development of a Dual-Index Sequencing Strategy and Curation Pipeline for Analyzing Amplicon Sequence Data on the MiSeq Illumina Sequencing Platform

(2013) James J. Kozich et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data

(2013) Paul J. McMurdie et al.   PLoS One

The impact of chlorinated solvent co-contaminants on the biodegradation kinetics of 1,4-dioxane

(2012) Shaily Mahendra et al.   CHEMOSPHERE

Methyloferula stellata gen. nov., sp. nov., an acidophilic, obligately methanotrophic bacterium that possesses only a soluble methane monooxygenase

(2010) A. V. Vorobev et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Desulfitobacterium aromaticivorans sp. nov. and Geobacter toluenoxydans sp. nov., iron-reducing bacteria capable of anaerobic degradation of monoaromatic hydrocarbons

(2009) U. Kunapuli et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

A High-Throughput DNA Sequence Aligner for Microbial Ecology Studies

(2009) Patrick D. Schloss   PLoS One

A Parsimony Approach to Biological Pathway Reconstruction/Inference for Genomes and Metagenomes

(2009) Yuzhen Ye et al.   PLoS Computational Biology