4.3 Review

Biodegradation in contaminated aquifers: Incorporating microbial/molecular methods

Related references

Note: Only part of the references are listed.
Article Biotechnology & Applied Microbiology

Application of a high-density oligonucleotide microarray approach to study bacterial population dynamics during uranium reduction and reoxidation

Eoin L. Brodie et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2006)

Article Water Resources

Monte Carlo evaluation of microbial-mediated contaminant reactions in heterogeneous aquifers

Mohamed M. A. Mohamed et al.

ADVANCES IN WATER RESOURCES (2006)

Review Ecology

Microarray applications in microbial ecology research

T. J. Gentry et al.

MICROBIAL ECOLOGY (2006)

Article Biotechnology & Applied Microbiology

Suspension array analysis of 16S rRNA from fe- and SO42-reducing bacteria in uranium-contaminated sediments undergoing bioremediation

Darrell P. Chandler et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2006)

Article Biotechnology & Applied Microbiology

Assessment of microbial in situ activity in contaminated aquifers

M. Kaestner et al.

ENGINEERING IN LIFE SCIENCES (2006)

Article Biotechnology & Applied Microbiology

RNA-based stable isotope probing and isolation of anaerobic benzene-degrading bacteria from gasoline-contaminated groundwater

Yuki Kasai et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2006)

Article Biotechnology & Applied Microbiology

Environmental whole-genome amplification to access microbial populations in contaminated sediments

Carl B. Abulencia et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2006)

Article Water Resources

Monitoring subsurface microbial ecology in a sulfate-amended, gasoline-contaminated aquifer

Kerry Sublette et al.

GROUND WATER MONITORING AND REMEDIATION (2006)

Article Biotechnology & Applied Microbiology

Denitrifier community composition along a nitrate and salinity gradient in a coastal aquifer

AE Santoro et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2006)

Review Biochemical Research Methods

The use of stable isotope probing techniques in bioreactor and field studies on bioremediation

EL Madsen

CURRENT OPINION IN BIOTECHNOLOGY (2006)

Article Environmental Sciences

Indicators of petroleum hydrocarbon biodegradation in anaerobic granitic groundwater

S Eriksson et al.

GEOMICROBIOLOGY JOURNAL (2006)

Review Biochemical Research Methods

Genomics for environmental microbiology

Adam M. Deutschbauer et al.

CURRENT OPINION IN BIOTECHNOLOGY (2006)

Article Geochemistry & Geophysics

In situ microcosms to evaluate natural attenuation potentials in contaminated aquifers

Nicole Stelzer et al.

ORGANIC GEOCHEMISTRY (2006)

Review Geosciences, Multidisciplinary

Review: Microbial biocenoses in pristine aquifers and an assessment of investigative methods

Nico Goldscheider et al.

HYDROGEOLOGY JOURNAL (2006)

Article Biotechnology & Applied Microbiology

Outer membrane c-type cytochromes required for Fe(III) and Mn(IV) oxide reduction in Geobacter sulfurreducens

T Mehta et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2005)

Article Biotechnology & Applied Microbiology

Evidence for aceticlastic methanogenesis in the presence of sulfate in a gas condensate-contaminated aquifer

CG Struchtemeyer et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2005)

Review Microbiology

Whither or wither geomicrobiology in the era of 'community metagenomics'

RS Oremland et al.

NATURE REVIEWS MICROBIOLOGY (2005)

Article Engineering, Environmental

In situ assessment of biodegradation potential using biotraps amended with 13C-labeled benzene or toluene

R Geyer et al.

ENVIRONMENTAL SCIENCE & TECHNOLOGY (2005)

Review Biochemical Research Methods

Bioinformatics for whole-genome shotgun sequencing of microbial communities

K Chen et al.

PLOS COMPUTATIONAL BIOLOGY (2005)

Review Biochemical Research Methods

Natural attenuation and enhanced bioremediation of organic contaminants in groundwater

KM Scow et al.

CURRENT OPINION IN BIOTECHNOLOGY (2005)

Review Microbiology

Stable isotope probing - linking microbial identity to function

MG Dumont et al.

NATURE REVIEWS MICROBIOLOGY (2005)

Review Microbiology

Community genomics in microbial ecology and evolution

EE Allen et al.

NATURE REVIEWS MICROBIOLOGY (2005)

Review Biochemistry & Molecular Biology

A survey of the methods for the characterization of microbial consortia and communities

D Spiegelman et al.

CANADIAN JOURNAL OF MICROBIOLOGY (2005)

Article Biotechnology & Applied Microbiology

DNA microarray analysis of nitrogen fixation and Fe(III) reduction in Geobacter sulfurreducens

BA Methé et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2005)

Article Biotechnology & Applied Microbiology

Diversity of oxyenase genes from methane- and ammonia-oxidizing bacteria in the Eastern Snake River Plain aquifer

DP Erwin et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2005)

Article Multidisciplinary Sciences

Prokaryotic cells of the deep sub-seafloor biosphere identified as living bacteria

A Schippers et al.

NATURE (2005)

Article Biotechnology & Applied Microbiology

Activity and diversity of methanogens in a petroleum hydrocarbon-contaminated aquifer

J Kleikemper et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2005)

Article Multidisciplinary Sciences

Environmental genome shotgun sequencing of the Sargasso Sea

JC Venter et al.

SCIENCE (2004)

Article Biotechnology & Applied Microbiology

Simultaneous fluorescence in situ hybridization of mRNA and rRNA in environmental bacteria

A Pernthaler et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2004)

Article Biotechnology & Applied Microbiology

Direct correlation between rates of anaerobic respiration and levels of mRNA for key respiratory genes in Geobacter sulfurreducens

KJ Chin et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2004)

Article Biotechnology & Applied Microbiology

Change in bacterial community structure during in situ Biostimulation of subsurface sediment cocontaminated with uranium and nitrate

NN North et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2004)

Article Biotechnology & Applied Microbiology

Challenges in monitoring the natural attenuation of spatially variable plumes

RD Wilson et al.

BIODEGRADATION (2004)

Article Biotechnology & Applied Microbiology

In situ expression of nifD in Geobacteraceae in subsurface sediments

DE Holmes et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2004)

Review Microbiology

Metagenomics: Application of genomics to uncultured microorganisms

J Handelsman

MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS (2004)

Article Biotechnology & Applied Microbiology

Coupling of functional gene diversity and geochemical data from environmental samples

AV Palumbo et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2004)

Article Biotechnology & Applied Microbiology

Composition and diversity of microbial communities recovered from surrogate minerals incubated in an acidic uranium-contaminated aquifer

CL Reardon et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2004)

Article Geosciences, Multidisciplinary

Spatial variability of in situ microbial activity: Biotracer tests

SK Sandrin et al.

GROUND WATER (2004)

Article Multidisciplinary Sciences

Discovery of a bacterium, with distinctive dioxygenase, that is responsible for in situ biodegradation in contaminated sediment

CO Jeon et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2003)

Review Microbiology

Cleaning up with genomics: Applying molecular biology to bioremediation

DR Lovley

NATURE REVIEWS MICROBIOLOGY (2003)

Article Biotechnology & Applied Microbiology

Metagenomic profiling: Microarray analysis of an environmental genomic library

JL Sebat et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2003)

Review Biochemical Research Methods

Elucidating the microbial component of natural attenuation

BF Smets et al.

CURRENT OPINION IN BIOTECHNOLOGY (2003)

Article Biotechnology & Applied Microbiology

Expression of chlorocatechol 1,2-dioxygenase and chlorocatechol 2,3-dioxygenase genes in chlorobenzene-contaminated subsurface samples

A Alfreider et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2003)

Article Multidisciplinary Sciences

Geobacter metallireducens accesses insoluble Fe(III) oxide by chemotaxis

SE Childers et al.

NATURE (2002)

Article Biotechnology & Applied Microbiology

Activity and diversity of sulfate-reducing bacteria in a petroleum hydrocarbon-contaminated aquifer

J Kleikemper et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2002)

Article Biotechnology & Applied Microbiology

Identification of the functionally active methanotroph population in a peat soil microcosm by stable-isotope probing

SA Morris et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2002)

Article Environmental Sciences

Biogeochemical characterisation of a coal tar distillate plume

GM Williams et al.

JOURNAL OF CONTAMINANT HYDROLOGY (2001)

Article Environmental Sciences

Microbiological analysis of multi-level borehole samples from a contaminated groundwater system

RW Pickup et al.

JOURNAL OF CONTAMINANT HYDROLOGY (2001)

Article Environmental Sciences

Progression of natural attenuation processes at a crude-oil spill site: 1. Geochemical evolution of the plume

IM Cozzarelli et al.

JOURNAL OF CONTAMINANT HYDROLOGY (2001)

Article Biotechnology & Applied Microbiology

Development and evaluation of functional gene arrays for detection of selected genes in the environment

LY Wu et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2001)

Article Biotechnology & Applied Microbiology

Aerobic biodegradation of methyl tert-butyl ether by aquifer bacteria from leaking underground storage tank sites

SR Kane et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2001)

Article Biotechnology & Applied Microbiology

Detection and quantification of methyl tert-butyl ether-degrading strain PM1 by real-time TaqMan PCR

KR Hristova et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2001)

Article Biotechnology & Applied Microbiology

Direct detection of 16S rRNA in soil extracts by using oligonucleotide microarrays

J Small et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2001)

Article Biotechnology & Applied Microbiology

Relationships between microbial community structure and hydrochemistry in a landfill leachate-polluted aquifer

WFM Röling et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2001)

Article Biotechnology & Applied Microbiology

Application of the 5′ fluorogenic exonuclease assay (TaqMan) for quantitative ribosomal DNA and rRNA analysis in sediments

JR Stults et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2001)

Article Biotechnology & Applied Microbiology

Attached and unattached microbial communities in a simulated basalt aquifer under fracture- and porous-flow conditions

RM Lehman et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2001)

Article Water Resources

Natural attenuation: A feasible approach to remediation of ground water pollution at landfills?

TH Christensen et al.

GROUND WATER MONITORING AND REMEDIATION (2000)

Review Environmental Sciences

Characterization of redox conditions in groundwater contaminant plumes

TH Christensen et al.

JOURNAL OF CONTAMINANT HYDROLOGY (2000)

Article Geosciences, Multidisciplinary

The significance of microbial processes in hydrogeology and geochemistry

FH Chapelle

HYDROGEOLOGY JOURNAL (2000)

Article Geosciences, Multidisciplinary

Microbial control of mineral-groundwater equilibria: Macroscale to microscale

PC Bennett et al.

HYDROGEOLOGY JOURNAL (2000)

Article Biotechnology & Applied Microbiology

Application of neural computing methods for interpreting phospholipid fatty acid profiles of natural microbial communities

PA Noble et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2000)

Article Geosciences, Multidisciplinary

Nucleic-acid characterization of the identity and activity of subsurface microorganisms

EL Madsen

HYDROGEOLOGY JOURNAL (2000)

Review Geosciences, Multidisciplinary

Microbial populations in contaminant plumes

SK Haack et al.

HYDROGEOLOGY JOURNAL (2000)

Review Geosciences, Multidisciplinary

Analysis of phospholipid fatty acids (PLFA) to characterize microbial communities in aquifers

CT Green et al.

HYDROGEOLOGY JOURNAL (2000)

Review Biotechnology & Applied Microbiology

Metabolism of alkylbenzenes, alkanes, and other hydrocarbons in anaerobic bacteria

AM Spormann et al.

BIODEGRADATION (2000)

Article Biotechnology & Applied Microbiology

Metabolic indicators for detecting in situ anaerobic alkylbenzene degradation

HR Beller

BIODEGRADATION (2000)