ArticlePloS one2015
Culture-Dependent and -Independent Methods Capture Different Microbial Community Fractions in Hydrocarbon-Contaminated Soils.
Article in PloS one, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 66 papers.
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Who cites it
66 citing papers in PubMed.
- One Health Surveillance of Antimicrobial Resistance in the Eastern Mediterranean: The Blackchin Guitarfish as a Case Study.GeoHealth · 2026Article
- The hydrocarbon-degrading bacteria and fungi in oil contaminated soils of Kazakhstan: microbiome composition, enrichment, isolation and bioremediation potential.Environmental microbiome · 2026Article
- Valorization of agricultural residues for bioplastic production by bacteria isolated from plastic dumpsites: Integrating waste streams into the circular bioeconomy.Biotechnology reports (Amsterdam, Netherlands) · 2026Article
- Towards Functional Fertilisers: Feed Composition Shapes Microbial Community Structure and Viability in Black Soldier Fly (Hermetia illucens) Frass.Environmental microbiology · 2026Article
- Artificial intelligence in soil microbiome-driven agriculture: from practical limits to a translational roadmap.Frontiers in microbiomes · 2026Review
- Short-term dynamics of fecal microbiome and antibiotic resistance in juvenile rainbow trout (Oncorhynchus mykiss) following antibiotic treatment and withdrawal.Animal microbiome · 2024Article
- Article
- A Second Fungal Outbreak in Castañar Cave, Spain, Discloses the Fragility of Subsurface Ecosystems.Microbial ecology · 2024Article
- Cultural techniques capture diverse phosphate-solubilizing bacteria in rock phosphate-enriched habitats.Frontiers in microbiology · 2024Article
- Expanding success in the isolation of abundant marine bacteria after reduction in grazing and viral pressure and increase in nutrient availability.Microbiology spectrum · 2023Article
- Article
- Correlating the succession of microbial communities from Nigerian soils to petroleum biodegradation.World journal of microbiology & biotechnology · 2023Article
- BADASS: BActeriocin-Diversity ASsessment Software.BMC bioinformatics · 2023Article
- MALDI mass spectrometry-based identification of antifungal molecules from endophyticCurrent research in microbial sciences · 2023Article
- Recovery of the soil fungal microbiome after steam disinfection to manage the plant pathogenFrontiers in plant science · 2023Article
- Polyhydroxyalkanoate (PHA) Biopolymer Synthesis by Marine Bacteria of the Malaysian Coral Triangle Region and Mining for PHA Synthase Genes.Microorganisms · 2022Article
- Fungal communities in feces of the frugivorous bat Ectophylla alba and its highly specialized Ficus colubrinae diet.Animal microbiome · 2022Article
- Factors affecting the isolation and diversity of marine sponge-associated bacteria.Applied microbiology and biotechnology · 2022Article
- Article
- Rhizospheric bacteria as potential biocontrol agents againstSaudi journal of biological sciences · 2021Article
6 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Bioremediation is a cost-effective and sustainable approach for treating polluted soils, but our ability to improve on current bioremediation strategies depends on our ability to isolate microorganisms from these soils. Although culturing is widely used in bioremediation research and applications, it is unknown whether the composition of cultured isolates closely mirrors the indigenous microbial community from contaminated soils. To assess this, we paired culture-independent (454-pyrosequencing of total soil DNA) with culture-dependent (isolation using seven different growth media) techniques to analyse the bacterial and fungal communities from hydrocarbon-contaminated soils. Although bacterial and fungal rarefaction curves were saturated for both methods, only 2.4% and 8.2% of the bacterial and fungal OTUs, respectively, were shared between datasets. Isolated taxa increased the total recovered species richness by only 2% for bacteria and 5% for fungi. Interestingly, none of the bacteria that we isolated were representative of the major bacterial OTUs recovered by 454-pyrosequencing. Isolation of fungi was moderately more effective at capturing the dominant OTUs observed by culture-independent analysis, as 3 of 31 cultured fungal strains ranked among the 20 most abundant fungal OTUs in the 454-pyrosequencing dataset. This study is one of the most comprehensive comparisons of microbial communities from hydrocarbon-contaminated soils using both isolation and high-throughput sequencing methods.
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