Microaerobic conditions caused the overwhelming dominance of Acinetobacter spp. and the marginalization of Rhodococcus spp. in diesel fuel/crude oil mixture-amended enrichment cultures

Acinetobacter sp. as the key player in diesel oil degrading community exposed to PAHs and heavy metals

(2019) J. Czarny et al.   JOURNAL OF HAZARDOUS MATERIALS

Flavobacterium naphthae sp. nov., isolated from oil-contaminated soil

(2018) Dhiraj Kumar Chaudhary et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Sphingobium aquiterrae sp. nov., a toluene, meta- and para-xylene-degrading bacterium isolated from petroleum hydrocarbon-contaminated groundwater

(2018) Fruzsina Révész et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Transitory microbial habitat in the hyperarid Atacama Desert

(2018) Dirk Schulze-Makuch et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Polyphasic characterization of four soil-derived phenanthrene-degrading Acidovorax strains and proposal of Acidovorax carolinensis sp. nov.

(2018) David R. Singleton et al.   SYSTEMATIC AND APPLIED MICROBIOLOGY

Metabolic capability and in situ activity of microorganisms in an oil reservoir

(2018) Yi-Fan Liu et al.   Microbiome

Differential depth distribution of microbial function and putative symbionts through sediment-hosted aquifers in the deep terrestrial subsurface

(2018) Alexander J. Probst et al.   Nature Microbiology

Aerobic and oxygen-limited enrichment of BTEX-degrading biofilm bacteria: dominance of Malikia versus Acidovorax species

(2018) Tibor Benedek et al.   ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH

Transcriptome-Stable Isotope Probing Provides Targeted Functional and Taxonomic Insights Into Microaerobic Pollutant-Degrading Aquifer Microbiota

(2018) Lauren M. Bradford et al.   Frontiers in Microbiology

metaSPAdes: a new versatile metagenomic assembler

(2017) Sergey Nurk et al.   GENOME RESEARCH

Sphingobium naphthae sp. nov., with the ability to degrade aliphatic hydrocarbons, isolated from oil-contaminated soil

(2017) Dhiraj Kumar Chaudhary et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Microaerophilic alkane degradation in Pseudomonas extremaustralis: a transcriptomic and physiological approach

(2017) Paula M. Tribelli et al.   JOURNAL OF INDUSTRIAL MICROBIOLOGY & BIOTECHNOLOGY

Anaerobic Benzene Mineralization by Nitrate-Reducing and Sulfate-Reducing Microbial Consortia Enriched From the Same Site: Comparison of Community Composition and Degradation Characteristics

(2017) Andreas H. Keller et al.   MICROBIAL ECOLOGY

Naphthalene biodegradation under oxygen-limiting conditions: community dynamics and the relevance of biofilm-forming capacity

(2017) Sophie-Marie Martirani-Von Abercron et al.   Microbial Biotechnology

Benzene Degradation by a Variovorax Species within a Coal Tar-Contaminated Groundwater Microbial Community

(2016) Kevin M. Posman et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Influence of soil contamination with PAH on microbial community dynamics and expression level of genes responsible for biodegradation of PAH and production of rhamnolipids

(2016) Zuzanna Szczepaniak et al.   ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH

Polyphasic analysis of an Azoarcus-Leptothrix-dominated bacterial biofilm developed on stainless steel surface in a gasoline-contaminated hypoxic groundwater

(2016) Tibor Benedek et al.   ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH

Enrichment of dissimilatory Fe(III)-reducing bacteria from groundwater of the Siklós BTEX-contaminated site (Hungary)

(2016) Milán Farkas et al.   FOLIA MICROBIOLOGICA

MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets

(2016) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

Evaluating robustness of a diesel-degrading bacterial consortium isolated from contaminated soil

(2016) Mateusz Sydow et al.   New Biotechnology

Influence of oligomeric herbicidal ionic liquids with MCPA and Dicamba anions on the community structure of autochthonic bacteria present in agricultural soil

(2016) Ł. Ławniczak et al.   SCIENCE OF THE TOTAL ENVIRONMENT

A new view of the tree of life

(2016) Laura A. Hug et al.   Nature Microbiology

The Genome of the Toluene-Degrading Pseudomonas veronii Strain 1YdBTEX2 and Its Differential Gene Expression in Contaminated Sand

(2016) Marian Morales et al.   PLoS One

Hydrocarbon degrading microbial communities in bench scale aerobic biobarriers for gasoline contaminated groundwater treatment

(2015) Matteo Daghio et al.   CHEMOSPHERE

Sphingobium barthaii sp. nov., a high molecular weight polycyclic aromatic hydrocarbon-degrading bacterium isolated from cattle pasture soil

(2015) Allyn H. Maeda et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Unusual biology across a group comprising more than 15% of domain Bacteria

(2015) Christopher T. Brown et al.   NATURE

The detection and phylogenetic analysis of the alkane 1-monooxygenase gene of members of the genus Rhodococcus

(2015) András Táncsics et al.   SYSTEMATIC AND APPLIED MICROBIOLOGY

Indigenous oil-degrading bacteria in crude oil-contaminated seawater of the Yellow sea, China

(2014) Wanpeng Wang et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Evaluating T-RFLP protocols to sensitively analyze the genetic diversity and community changes of soil alkane degrading bacteria

(2014) Julia Giebler et al.   EUROPEAN JOURNAL OF SOIL BIOLOGY

Towards a taxonomic coherence between average nucleotide identity and 16S rRNA gene sequence similarity for species demarcation of prokaryotes

(2014) M. Kim et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Fast and sensitive protein alignment using DIAMOND

(2014) Benjamin Buchfink et al.   NATURE METHODS

Cultivation of a human-associated TM7 phylotype reveals a reduced genome and epibiotic parasitic lifestyle

(2014) Xuesong He et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The ecological controls on the prevalence of candidate division TM7 in polar regions

(2014) Tristrom J. Winsley et al.   Frontiers in Microbiology

Alkane-degrading bacteria at the soil-litter interface: comparing isolates with T-RFLP-based community profiles

(2013) Julia Giebler et al.   FEMS MICROBIOLOGY ECOLOGY

Effects of petroleum mixture types on soil bacterial population dynamics associated with the biodegradation of hydrocarbons in soil environments

(2013) Natsuko Hamamura et al.   FEMS MICROBIOLOGY ECOLOGY

The Use of a Combination of alkB Primers to Better Characterize the Distribution of Alkane-Degrading Bacteria

(2013) Diogo Jurelevicius et al.   PLoS One

One-year monitoring of meta-cleavage dioxygenase gene expression and microbial community dynamics reveals the relevance of subfamily I.2.C extradiol dioxygenases in hypoxic, BTEX-contaminated groundwater

(2013) András Táncsics et al.   SYSTEMATIC AND APPLIED MICROBIOLOGY

Used lubricating oil degradation and biosurfactant production by SC-9 consortia obtained from oil-contaminated soil

(2012) Atipan Saimmai et al.   ANNALS OF MICROBIOLOGY

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

(2012) J Gregory Caporaso et al.   ISME Journal

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies

(2012) Anna Klindworth et al.   NUCLEIC ACIDS RESEARCH

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

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

Characterization of microbial diversity and community in water flooding oil reservoirs in China

(2012) Lingxia Zhao et al.   WORLD JOURNAL OF MICROBIOLOGY & BIOTECHNOLOGY

Quantification of Subfamily I.2.C Catechol 2,3-Dioxygenase mRNA Transcripts in Groundwater Samples of an Oxygen-Limited BTEX-Contaminated Site

(2011) András Táncsics et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Abundance and Diversity of n-Alkane-Degrading Bacteria in a Forest Soil Co-Contaminated with Hydrocarbons and Metals: A Molecular Study on alkB Homologous Genes

(2011) Alfredo Pérez-de-Mora et al.   MICROBIAL ECOLOGY

Regioselective ω-hydroxylation of medium-chain n-alkanes and primary alcohols by CYP153 enzymes from Mycobacterium marinum and Polaromonas sp. strain JS666

(2011) Daniel Scheps et al.   ORGANIC & BIOMOLECULAR CHEMISTRY

Could petroleum biodegradation be a joint achievement of aerobic and anaerobic microrganisms in deep sea reservoirs?

(2011) Georgiana F da Cruz et al.   AMB Express

Degradation of a benzene–toluene mixture by hydrocarbon-adapted bacterial communities

(2010) Arturo Aburto et al.   ANNALS OF MICROBIOLOGY

Novel aerobic benzene degrading microorganisms identified in three soils by stable isotope probing

(2010) Shuguang Xie et al.   BIODEGRADATION

Polyphasic bacterial community analysis of an aerobic activated sludge removing phenols and thiocyanate from coke plant effluent

(2010) Tamás Felföldi et al.   BIORESOURCE TECHNOLOGY

Relative quantitative PCR to assess bacterial community dynamics during biodegradation of diesel and biodiesel fuels under various aeration conditions

(2010) Paweł Cyplik et al.   BIORESOURCE TECHNOLOGY

Prodigal: prokaryotic gene recognition and translation initiation site identification

(2010) Doug Hyatt et al.   BMC BIOINFORMATICS

Microbial communities involved in anaerobic degradation of alkanes

(2010) Serge Maurice Mbadinga et al.   INTERNATIONAL BIODETERIORATION & BIODEGRADATION

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

(2010) Morgan N. Price et al.   PLoS One

The importance of soil characteristics to the structure of alkane-degrading bacterial communities on sub-Antarctic Macquarie Island

(2010) S.M. Powell et al.   SOIL BIOLOGY & BIOCHEMISTRY

Identification of a Novel Toluene-Degrading Bacterium from the Candidate Phylum TM7, as Determined by DNA Stable Isotope Probing

(2009) C. Luo et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Direct Link between Toluene Degradation in Contaminated-Site Microcosms and a Polaromonas Strain

(2009) W. Sun et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Enhancement of the microbial community biomass and diversity during air sparging bioremediation of a soil highly contaminated with kerosene and BTEX

(2009) Nadja Kabelitz et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Degradation of alkanes by bacteria

(2009) Fernando Rojo   ENVIRONMENTAL MICROBIOLOGY

Community-wide analysis of microbial genome sequence signatures

(2009) Gregory J Dick et al.   GENOME BIOLOGY

Chryseobacterium hungaricum sp. nov., isolated from hydrocarbon-contaminated soil

(2008) S. Szoboszlay et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Mixed aerobic and anaerobic microbial communities in benzene-contaminated groundwater

(2008) A. Aburto et al.   JOURNAL OF APPLIED MICROBIOLOGY