Functional soil metagenomics: elucidation of polycyclic aromatic hydrocarbon degradation potential following 12 years of in situ bioremediation

Description of Immundisolibacter cernigliae gen. nov., sp. nov., a high-molecular-weight polycyclic aromatic hydrocarbon-degrading bacterium within the class Gammaproteobacteria, and proposal of Immundisolibacterales ord. nov. and Immundisolibacteraceae fam. nov.

(2017) Elizabeth M. Corteselli et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Rugosibacter aromaticivorans gen. nov., sp. nov., a bacterium within the family Rhodocyclaceae, isolated from contaminated soil, capable of degrading aromatic compounds

(2017)   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Functional Metagenomics of a Biostimulated Petroleum-Contaminated Soil Reveals an Extraordinary Diversity of Extradiol Dioxygenases

(2016) Laura Terrón-González et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Key high molecular weight PAH-degrading bacteria in a soil consortium enriched using a sand-in-liquid microcosm system

(2015) Margalida Tauler et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Evaluation of DNA extraction kits and phylogenetic diversity of the porcine gastrointestinal tract based on Illumina sequencing of two hypervariable regions

(2015) Katharina Burbach et al.   MicrobiologyOpen

Alternative hosts for functional (meta)genome analysis

(2014) Wolfgang Liebl et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

AromaDeg, a novel database for phylogenomics of aerobic bacterial degradation of aromatics

(2014) Márcia Duarte et al.   Database-The Journal of Biological Databases and Curation

Identification of soil bacteria able to degrade phenanthrene bound to a hydrophobic sorbent in situ

(2013) Raïssa Kom Regonne et al.   ENVIRONMENTAL POLLUTION

The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST)

(2013) Ross Overbeek et al.   NUCLEIC ACIDS RESEARCH

Metagenomics and novel gene discovery

(2013) Eamonn P Culligan et al.   Virulence

Polycyclovorans algicola gen. nov., sp. nov., an Aromatic-Hydrocarbon-Degrading Marine Bacterium Found Associated with Laboratory Cultures of Marine Phytoplankton

(2012) Tony Gutierrez et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Heterologous Expression of Polycyclic Aromatic Hydrocarbon Ring-Hydroxylating Dioxygenase Genes from a Novel Pyrene-Degrading Betaproteobacterium

(2012) David R. Singleton et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Analysis of the microbial gene landscape and transcriptome for aromatic pollutants and alkane degradation using a novel internally calibrated microarray system

(2012) Ramiro Vilchez-Vargas et al.   ENVIRONMENTAL MICROBIOLOGY

Metaproteogenomic insights beyond bacterial response to naphthalene exposure and bio-stimulation

(2012) María-Eugenia Guazzaroni et al.   ISME Journal

Stable Isotope Probing of an Algal Bloom To Identify Uncultivated Members of the Rhodobacteraceae Associated with Low-Molecular-Weight Polycyclic Aromatic Hydrocarbon Degradation

(2011) Tony Gutierrez et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Stable-isotope probing of the polycyclic aromatic hydrocarbon-degrading bacterial guild in a contaminated soil

(2011) Maiysha D. Jones et al.   ENVIRONMENTAL MICROBIOLOGY

Betaproteobacteria dominance and diversity shifts in the bacterial community of a PAH-contaminated soil exposed to phenanthrene

(2011) Florence Martin et al.   ENVIRONMENTAL POLLUTION

MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods

(2011) K. Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

Soil Type-Dependent Responses to Phenanthrene as Revealed by Determining the Diversity and Abundance of Polycyclic Aromatic Hydrocarbon Ring-Hydroxylating Dioxygenase Genes by Using a Novel PCR Detection System

(2010) G.-C. Ding et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Isolation and characterization of the gene encoding the chloroplast-type ferredoxin component of carbazole 1,9a-dioxygenase from a putative Kordiimonas sp.

(2010) Rintaro Maeda et al.   BIOTECHNOLOGY LETTERS

Metabolic networks, microbial ecology and ‘omics’ technologies: towards understanding in situ biodegradation processes

(2010) Ramiro Vilchez-Vargas et al.   ENVIRONMENTAL MICROBIOLOGY

Characterization of a Polycyclic Aromatic Hydrocarbon Degradation Gene Cluster in a Phenanthrene-Degrading Acidovorax Strain

(2009) D. R. Singleton et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

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

Metagenomics reveals diversity and abundance ofmeta-cleavage pathways in microbial communities from soil highly contaminated with jet fuel under air-sparging bioremediation

(2009) Maria V. Brennerova et al.   ENVIRONMENTAL MICROBIOLOGY

The RAST Server: Rapid Annotations using Subsystems Technology

(2008) Ramy K Aziz et al.   BMC GENOMICS

Velvet: Algorithms for de novo short read assembly using de Bruijn graphs

(2008) D. R. Zerbino et al.   GENOME RESEARCH

Advances in Recovery of Novel Biocatalysts from Metagenomes

(2008) Helen L. Steele et al.   JOURNAL OF MOLECULAR MICROBIOLOGY AND BIOTECHNOLOGY