ArticlePloS one2015
Designing and Implementing an Assay for the Detection of Rare and Divergent NRPS and PKS Clones in European, Antarctic and Cuban 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 14 papers.
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Who cites it
14 citing papers in PubMed.
- Detection of non-ribosomal and polyketide biosynthetic genes in bacteria from green mud crabFish and shellfish immunology reports · 2023Article
- Mining metagenomes reveals diverse antibiotic biosynthetic genes in uncultured microbial communities.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2023Article
- A rapid and efficient strategy to identify and recover biosynthetic gene clusters from soil metagenomes.Applied microbiology and biotechnology · 2022Article
- The natural product biosynthesis potential of the microbiomes of Earth - Bioprospecting for novel anti-microbial agents in the meta-omics era.Computational and structural biotechnology journal · 2022Review
- Diversity and Distribution of Bacteria Producing Known Secondary Metabolites.Microbial ecology · 2019Article
- Diversity of tryptophan halogenases in sponges of the genus Aplysina.FEMS microbiology ecology · 2019Article
- Article
- Screening and Transcriptional Analysis of Polyketide Synthases and Non-ribosomal Peptide Synthetases in Bacterial Strains From Krubera-Voronja Cave.Frontiers in microbiology · 2019Article
- Recovering Genomics Clusters of Secondary Metabolites from Lakes Using Genome-Resolved Metagenomics.Frontiers in microbiology · 2018Article
- Intertidal marine sediment harbours Actinobacteria with promising bioactive and biosynthetic potential.Scientific reports · 2017Article
- Sampling Terrestrial Environments for Bacterial Polyketides.Molecules (Basel, Switzerland) · 2017Review
- Evaluation of Molecular Methods for the Detection and Quantification of Pathogen-Derived Nucleic Acids in Sediment.Frontiers in microbiology · 2017Article
- Diversity of Culturable Thermophilic Actinobacteria in Hot Springs in Tengchong, China and Studies of their Biosynthetic Gene Profiles.Microbial ecology · 2016Article
- Optimization of Degenerate PCR Conditions for Reducing Error Rates in Detection of PKS and NRPS Gene groups in Actinomycetes.Avicenna journal of medical biotechnologyArticle
Corrections and comments
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Authors and funding
10 authors.
Funding
Abstract
The ever increasing microbial resistome means there is an urgent need for new antibiotics. Metagenomics is an underexploited tool in the field of drug discovery. In this study we aimed to produce a new updated assay for the discovery of biosynthetic gene clusters encoding bioactive secondary metabolites. PCR assays targeting the polyketide synthases (PKS) and non-ribosomal peptide synthetases (NRPS) were developed. A range of European soils were tested for their biosynthetic potential using clone libraries developed from metagenomic DNA. Results revealed a surprising number of NRPS and PKS clones with similarity to rare Actinomycetes. Many of the clones tested were phylogenetically divergent suggesting they were fragments from novel NRPS and PKS gene clusters. Soils did not appear to cluster by location but did represent NRPS and PKS clones of diverse taxonomic origin. Fosmid libraries were constructed from Cuban and Antarctic soil samples; 17 fosmids were positive for NRPS domains suggesting a hit rate of less than 1 in 10 genomes. NRPS hits had low similarities to both rare Actinobacteria and Proteobacteria; they also clustered with known antibiotic producers suggesting they may encode for pathways producing novel bioactive compounds. In conclusion we designed an assay capable of detecting divergent NRPS and PKS gene clusters from the rare biosphere; when tested on soil samples results suggest the majority of NRPS and PKS pathways and hence bioactive metabolites are yet to be discovered.
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