Synergistic interactions of Desulfovibrio and Petrimonas for sulfate-reduction coupling polycyclic aromatic hydrocarbon degradation

Deterministic Assembly and Diversity Gradient Altered the Biofilm Community Performances of Bioreactors

(2019) Zhaojing Zhang et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Interactions in self-assembled microbial communities saturate with diversity

(2019) Xiaoqian Yu et al.   ISME Journal

Metabolic reconstruction of the genome of candidate Desulfatiglans TRIP_1 and identification of key candidate enzymes for anaerobic phenanthrene degradation

(2019) Ivana Kraiselburd et al.   ENVIRONMENTAL MICROBIOLOGY

The presence of in situ sulphamethoxazole degraders and their interactions with other microbes in activated sludge as revealed by DNA stable isotope probing and molecular ecological network analysis

(2019) Mengke Song et al.   ENVIRONMENT INTERNATIONAL

Metagenomic analysis exhibited the co-metabolism of polycyclic aromatic hydrocarbons by bacterial community from estuarine sediment

(2019) Shuangfei Zhang et al.   ENVIRONMENT INTERNATIONAL

Synergistic degradation of crude oil by indigenous bacterial consortium and exogenous fungus Scedosporium boydii

(2018) Xiaoyu Yuan et al.   BIORESOURCE TECHNOLOGY

Expanded diversity of microbial groups that shape the dissimilatory sulfur cycle

(2018) Karthik Anantharaman et al.   ISME Journal

Synergistic degradation of pyrene by five culturable bacteria in a mangrove sediment-derived bacterial consortium

(2018) Pagakrong Wanapaisan et al.   JOURNAL OF HAZARDOUS MATERIALS

Anaerobic degradation of phenanthrene by a sulfate-reducing enrichment culture

(2018) Anne M. Himmelberg et al.   ENVIRONMENTAL MICROBIOLOGY

Emergent simplicity in microbial community assembly

(2018) Joshua E. Goldford et al.   SCIENCE

MetaWRAP—a flexible pipeline for genome-resolved metagenomic data analysis

(2018) Gherman V. Uritskiy et al.   Microbiome

Exact sequence variants should replace operational taxonomic units in marker-gene data analysis

(2017) Benjamin J Callahan et al.   ISME Journal

Competitive network determines the direction of the diversity–function relationship

(2017) Daniel S. Maynard et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Anaerobic biodegradation of (emerging) organic contaminants in the aquatic environment

(2017) Ann-Kathrin Ghattas et al.   WATER RESEARCH

Blue-white screening as a new readout for deoxyribozyme activity in bacterial cells

(2017) S. Sadeghi et al.   RSC Advances

Characterization of Biosurfactant Produced during Degradation of Hydrocarbons Using Crude Oil As Sole Source of Carbon

(2017) Kaustuvmani Patowary et al.   Frontiers in Microbiology

Anaerobic Degradation of Benzene and Polycyclic Aromatic Hydrocarbons

(2016) Rainer U. Meckenstock et al.   JOURNAL OF MOLECULAR MICROBIOLOGY AND BIOTECHNOLOGY

DADA2: High-resolution sample inference from Illumina amplicon data

(2016) Benjamin J Callahan et al.   NATURE METHODS

Network analysis reveals functional redundancy and keystone taxa amongst bacterial and fungal communities during organic matter decomposition in an arable soil

(2016) Samiran Banerjee et al.   SOIL BIOLOGY & BIOCHEMISTRY

MaxBin 2.0: an automated binning algorithm to recover genomes from multiple metagenomic datasets

(2015) Yu-Wei Wu et al.   BIOINFORMATICS

MEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph

(2015) Dinghua Li et al.   BIOINFORMATICS

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

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

Networks of energetic and metabolic interactions define dynamics in microbial communities

(2015) Mallory Embree et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Bacterial networks and co-occurrence relationships in the lettuce root microbiota

(2014) Massimiliano Cardinale et al.   ENVIRONMENTAL MICROBIOLOGY

Elevated nitrate enriches microbial functional genes for potential bioremediation of complexly contaminated sediments

(2014) Meiying Xu et al.   ISME Journal

Syntrophic exchange in synthetic microbial communities

(2014) M. T. Mee et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genomic distribution of B-vitamin auxotrophy and uptake transporters in environmental bacteria from theChloroflexiphylum

(2014) Irina A. Rodionova et al.   Environmental Microbiology Reports

Insights into the phylogeny and coding potential of microbial dark matter

(2013) Christian Rinke et al.   NATURE

Unifying concepts in anaerobic respiration: Insights from dissimilatory sulfur metabolism

(2012) Fabian Grein et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS

Engineering ecosystems and synthetic ecologies

(2012) Michael T. Mee et al.   Molecular BioSystems

Prodigal: prokaryotic gene recognition and translation initiation site identification

(2010) Doug Hyatt et al.   BMC BIOINFORMATICS

Genomic insights into the metabolic potential of the polycyclic aromatic hydrocarbon degrading sulfate-reducing Deltaproteobacterium N47

(2010) Franz Bergmann et al.   ENVIRONMENTAL MICROBIOLOGY

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Genome Sequence of the Deltaproteobacterial Strain NaphS2 and Analysis of Differential Gene Expression during Anaerobic Growth on Naphthalene

(2010) Raymond J. DiDonato et al.   PLoS One

Amino acid biosynthesis deficiency in bacteria associated with human and animal hosts

(2009) Xue-Jie Yu et al.   INFECTION GENETICS AND EVOLUTION

Synergic degradation of phenanthrene by consortia of newly isolated bacterial strains

(2009) Young Mi Kim et al.   JOURNAL OF BIOTECHNOLOGY

Azospirillum brasilense Az39 and Bradyrhizobium japonicum E109, inoculated singly or in combination, promote seed germination and early seedling growth in corn (Zea mays L.) and soybean (Glycine max L.)

(2008) Fabricio Cassán et al.   EUROPEAN JOURNAL OF SOIL BIOLOGY

Anaerobic Degradation of p-Ethylphenol by "Aromatoleum aromaticum" Strain EbN1: Pathway, Regulation, and Involved Proteins

(2008) L. Wohlbrand et al.   JOURNAL OF BACTERIOLOGY

Anaerobic biotransformation of fluorene and phenanthrene by sulfate-reducing bacteria and identification of biotransformation pathway

(2008) Jen-Chieh Tsai et al.   JOURNAL OF HAZARDOUS MATERIALS