Culture-Dependent and -Independent Methods Capture Different Microbial Community Fractions in Hydrocarbon-Contaminated Soils (Q35656827)

9 August 2017

Culture-Dependent and -Independent Methods Capture Different Microbial Community Fractions in Hydrocarbon-Contaminated Soils (English)

1 reference

9 August 2017

1 reference

1 reference

7

1 reference

9 August 2017

Marc St-Arnaud

6

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author name string

Franck O P Stefani

1

1 reference

9 August 2017

Terrence H Bell

2

1 reference

9 August 2017

Charlotte Marchand

3

1 reference

9 August 2017

Ivan E de la Providencia

4

1 reference

9 August 2017

Abdel El Yassimi

5

1 reference

9 August 2017

language of work or name

English

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publication date

8 June 2015

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9 August 2017

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9 August 2017

10

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9 August 2017

6

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9 August 2017

e0128272

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Creative Commons Attribution 4.0 International

9 August 2017

start time

8 June 2015

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

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cites work

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Linkage between bacterial and fungal rhizosphere communities in hydrocarbon-contaminated soils is related to plant phylogeny

12 July 2018

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

12 July 2018

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Robust estimation of microbial diversity in theory and in practice.

12 July 2018

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Predictable bacterial composition and hydrocarbon degradation in Arctic soils following diesel and nutrient disturbance

12 July 2018

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Exploring micromycetes biodiversity for screening benzo[a]pyrene degrading potential

12 July 2018

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Microbial culturomics: paradigm shift in the human gut microbiome study

12 July 2018

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Fungal diversity is not determined by mineral and chemical differences in serpentine substrates

12 July 2018

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Culturing captures members of the soil rare biosphere

12 July 2018

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Cultivation of unculturable soil bacteria

12 July 2018

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Metagenome, metatranscriptome and single-cell sequencing reveal microbial response to Deepwater Horizon oil spill

12 July 2018

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Growing unculturable bacteria

12 July 2018

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Unveiling the fungal mycobiota present throughout the cork stopper manufacturing process

12 July 2018

1 reference

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Next-generation sequencing technologies for environmental DNA research

12 July 2018

1 reference

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

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Reducing the effects of PCR amplification and sequencing artifacts on 16S rRNA-based studies

12 July 2018

1 reference

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Recovering greater fungal diversity from pristine and diesel fuel contaminated sub-antarctic soil through cultivation using both a high and a low nutrient media approach.

12 July 2018

1 reference

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Interactive metagenomic visualization in a Web browser

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Systematic search for cultivatable fungi that best deconstruct cell walls of Miscanthus and sugarcane in the field

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Mangrove bacterial diversity and the impact of oil contamination revealed by pyrosequencing: bacterial proxies for oil pollution

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Untapped potential: exploiting fungi in bioremediation of hazardous chemicals.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

VennDiagram: a package for the generation of highly-customizable Venn and Euler diagrams in R

12 July 2018

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Comparison of culture-dependent and -independent methods for bacterial community monitoring during Montasio cheese manufacturing.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Influence of xenobiotic contaminants on landfill soil microbial activity and diversity

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Bioaugmentation and biostimulation strategies to improve the effectiveness of bioremediation processes

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Strategies for culture of 'unculturable' bacteria

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Bacterial competition: surviving and thriving in the microbial jungle

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

454 Pyrosequencing analyses of forest soils reveal an unexpectedly high fungal diversity

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Bioremediation of oily sludge-contaminated soil by stimulating indigenous microbes

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

A renaissance for the pioneering 16S rRNA gene

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Nonadditive effects of PAHs on Early Vertebrate Development: mechanisms and implications for risk assessment

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Analysis of fungal flora in indoor dust by ribosomal DNA sequence analysis, quantitative PCR, and culture

12 July 2018

1 reference

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SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB

12 July 2018

1 reference

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Obligate oil-degrading marine bacteria

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

High-throughput culturing of fungi from plant litter by a dilution-to-extinction technique.

12 July 2018

1 reference

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Bioremediation of hydrocarbon-contaminated polar soils

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Microbial diversity in coastal subsurface sediments: a cultivation approach using various electron acceptors and substrate gradients

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Hydrocarbon contamination changes the bacterial diversity of soil from around Scott Base, Antarctica

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Fungal community analysis by large-scale sequencing of environmental samples

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Bioaugmentation for bioremediation: the challenge of strain selection

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Bioremediation of coastal areas 5 years after the Nakhodka oil spill in the Sea of Japan: isolation and characterization of hydrocarbon-degrading bacteria

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Estimating prokaryotic diversity and its limits

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Polycyclic aromatic hydrocarbons: environmental pollution and bioremediation

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Improved culturability of soil bacteria and isolation in pure culture of novel members of the divisions Acidobacteria, Actinobacteria, Proteobacteria, and Verrucomicrobia.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Microorganisms relevant to bioremediation

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Evaluation of inoculum addition to stimulate in situ bioremediation of oily-sludge-contaminated soil

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Biodegradation of high-molecular-weight polycyclic aromatic hydrocarbons by bacteria

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Investigating deep phylogenetic relationships among cyanobacteria and plastids by small subunit rRNA sequence analysis

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

ITS primers with enhanced specificity for basidiomycetes--application to the identification of mycorrhizae and rusts

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Fifty years of benzo(a)pyrene

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Bioremediation of petroleum-contaminated soil by a combined system of biostimulation-bioaugmentation with yeast

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Necrophytoremediation of phenanthrene and pyrene in contaminated soil.

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Competition sensing: the social side of bacterial stress responses

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Impact of long-term diesel contamination on soil microbial community structure

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Risk of large oil spills: a statistical analysis in the aftermath of Deepwater Horizon

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Decrease in the abundance and viability of oceanic phytoplankton due to trace levels of complex mixtures of organic pollutants

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Soil bacterial and fungal communities across a pH gradient in an arable soil.

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

The UNITE database for molecular identification of fungi--recent updates and future perspectives.

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Bioremediation of pulp and paper mill effluent by a novel fungal consortium isolated from polluted soil

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Selection and identification of bacteria isolated from waste crude oil with polycyclic aromatic hydrocarbons removal capacities.

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Oxidation of polycyclic aromatic hydrocarbons by fungal isolates from an oil contaminated refinery soil

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Bioremediation of oil sludge-contaminated soil.

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460130

Establishment techniques to using willow for phytoremediation on a former oil refinery in southern Quebec: achievements and constraints

25 September 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0128272

The magnitude of fungal diversity: the 1.5 million species estimate revisited

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0128272

Competition, Not Cooperation, Dominates Interactions among Culturable Microbial Species

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0128272

Culture-dependent and culture-independent diversity surveys target different bacteria: a case study in a freshwater sample

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0128272

Crude petroleum-oil biodegradation efficiency of Bacillus subtilis and Pseudomonas aeruginosa strains isolated from a petroleum-oil contaminated soil from North-East India

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/26053848

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1371/JOURNAL.PONE.0128272

1 reference

9 August 2017

0 references

1 reference

9 August 2017

1 reference