ArticleThe ISME journal2010
Gene-targeted-metagenomics reveals extensive diversity of aromatic dioxygenase genes in the environment.
Article in The ISME journal, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 45 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
45 citing papers in PubMed.
- Review
- Molecular basis for adaptive evolution of aromatic degradation enzymes in bacteria revealed by metagenomics.Frontiers in microbiology · 2026Review
- Inoculation of apple plantlets with Rhodococcus pseudokoreensis R79BMC plant biology · 2025Article
- Differential effect of monoterpenes and flavonoids on the transcription of aromatic ring-hydroxylating dioxygenase genes inMicrobial genomics · 2025Article
- Elucidation of critical chemical moieties of metallo-β-lactamase inhibitors and prioritisation of target metallo-β-lactamases.Journal of enzyme inhibition and medicinal chemistry · 2024Review
- Meta-omics assisted microbial gene and strain resources mining in contaminant environment.Engineering in life sciences · 2024Review
- Evaluation of the lignocellulose degradation potential of Mediterranean forests soil microbial communities through diversity and targeted functional metagenomics.Frontiers in microbiology · 2023Article
- Biodegradation of plastics: mining of plastic-degrading microorganisms and enzymes using metagenomics approaches.Journal of microbiology (Seoul, Korea) · 2022Review
- 'Cry-for-help' in contaminated soil: a dialogue among plants and soil microbiome to survive in hostile conditions.Environmental microbiology · 2021Review
- Whole genome strategies and bioremediation insight into dehalogenase-producing bacteria.Molecular biology reports · 2021Review
- Predominant Biphenyl Dioxygenase From Legacy Polychlorinated Biphenyl (PCB)-Contaminated Soil Is a Part of Unusual Gene Cluster and Transforms Flavone and Flavanone.Frontiers in microbiology · 2021Article
- Comparative Genomics of theMicroorganisms · 2020Article
- Recombinant production and characterization of a novel esterase from a hypersaline lake, Acıgöl, by metagenomic approach.Extremophiles : life under extreme conditions · 2019Article
- Article
- Novel PCB-degrading Rhodococcus strains able to promote plant growth for assisted rhizoremediation of historically polluted soils.PloS one · 2019Article
- Polymorphism of antibiotic-inactivating enzyme driven by ecology expands the environmental resistome.The ISME journal · 2018Article
- Revisiting Polymorphic Diversity of AminoglycosideFrontiers in microbiology · 2018Article
- Thermophilic bacteria are potential sources of novel Rieske non-heme iron oxygenases.AMB Express · 2017Article
- Bacteria Associated to Plants Naturally Selected in a Historical PCB Polluted Soil Show Potential to Sustain Natural Attenuation.Frontiers in microbiology · 2017Article
- Molecular perspectives and recent advances in microbial remediation of persistent organic pollutants.Environmental science and pollution research international · 2016Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors.
Funding
Abstract
Understanding the relationship between gene diversity and function for important environmental processes is a major ecological research goal. We applied gene-targeted metagenomics and pyrosequencing to aromatic dioxygenase genes to obtain greater sequence depth than possible by other methods. A polymerase chain reaction (PCR) primer set designed to target a 524-bp region that confers substrate specificity of biphenyl dioxygenases yielded 2000 and 604 sequences from the 5' and 3' ends of PCR products, respectively, which passed our validity criteria. Sequence alignment showed three known conserved residues, as well as another seven conserved residues not reported earlier. Of the valid sequences, 95% and 41% were assigned to 22 and 3 novel clusters in that they did not include any earlier reported sequences at 0.6 distance by complete linkage clustering for sequenced regions. The greater diversity revealed by this gene-targeted approach provides deeper insights into genes potentially important in environmental processes to better understand their ecology, functional differences and evolutionary origins. We also provide criteria for primer design for this approach, as well as guidance for data processing of diverse functional genes, as gene databases for most genes of environmental relevance are limited.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.