ArticleScientific reports2018
Uncovering secondary metabolite evolution and biosynthesis using gene cluster networks and genetic dereplication.
Article in Scientific reports, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 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
24 citing papers in PubMed, 42 citations in OpenAlex.
- Global survey of secondary metabolism inPNAS nexus · 2025Article
- Genome mining reveals the distribution of biosynthetic gene clusters in Alternaria and related fungal taxa within the family Pleosporaceae.BMC genomics · 2025Article
- Section-level genome sequencing and comparative genomics ofStudies in mycology · 2025Article
- Genomic Localization Bias of Secondary Metabolite Gene Clusters and Association with Histone Modifications in Aspergillus.Genome biology and evolution · 2024Article
- Global Analysis of Natural Products Biosynthetic Diversity Encoded in Fungal Genomes.Journal of fungi (Basel, Switzerland) · 2024Article
- Genomic Analysis ofJournal of fungi (Basel, Switzerland) · 2024Article
- Biosynthetic gene cluster synteny: Orthologous polyketide synthases in Hypogymnia physodes, Hypogymnia tubulosa, and Parmelia sulcata.MicrobiologyOpen · 2023Article
- The Cytotoxic Properties of Extreme Fungi's Bioactive Components-An Updated Metabolic and Omics Overview.Life (Basel, Switzerland) · 2023Review
- Interactions of Fungi and Algae from the Greenland Ice Sheet.Microbial ecology · 2023Article
- Review
- Polyketides as Secondary Metabolites from the GenusJournal of fungi (Basel, Switzerland) · 2023Review
- Metagenomics Shines Light on the Evolution of "Sunscreen" Pigment Metabolism in the Teloschistales (Lichen-Forming Ascomycota).Genome biology and evolution · 2023Article
- Complete Genome Sequence Analysis ofInternational journal of molecular sciences · 2022Article
- Fungal quinones: diversity, producers, and applications of quinones from Aspergillus, Penicillium, Talaromyces, Fusarium, and Arthrinium.Applied microbiology and biotechnology · 2021Review
- An interpreted atlas of biosynthetic gene clusters from 1,000 fungal genomes.Proceedings of the National Academy of Sciences of the United States of America · 2021Article
- Ancient Antibiotics, Ancient Resistance.EcoSal Plus · 2021Review
- Deep learning approaches for natural product discovery from plant endophytic microbiomes.Environmental microbiome · 2021Review
- The Architecture of Metabolism Maximizes Biosynthetic Diversity in the Largest Class of Fungi.Molecular biology and evolution · 2020Article
- Novel approach in whole genome mining and transcriptome analysis reveal conserved RiPPs in Trichoderma spp.BMC genomics · 2020Article
- A comparative genomics study of 23 Aspergillus species from section Flavi.Nature communications · 2020Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
11 authors at 5 institutions in 3 countries.
Funding
Abstract
The increased interest in secondary metabolites (SMs) has driven a number of genome sequencing projects to elucidate their biosynthetic pathways. As a result, studies revealed that the number of secondary metabolite gene clusters (SMGCs) greatly outnumbers detected compounds, challenging current methods to dereplicate and categorize this amount of gene clusters on a larger scale. Here, we present an automated workflow for the genetic dereplication and analysis of secondary metabolism genes in fungi. Focusing on the secondary metabolite rich genus Aspergillus, we categorize SMGCs across genomes into SMGC families using network analysis. Our method elucidates the diversity and dynamics of secondary metabolism in section Nigri, showing that SMGC diversity within the section has the same magnitude as within the genus. Using our genome analysis we were able to predict the gene cluster responsible for biosynthesis of malformin, a potentiator of anti-cancer drugs, in 18 strains. To proof the general validity of our predictions, we developed genetic engineering tools in Aspergillus brasiliensis and subsequently verified the genes for biosynthesis of malformin.
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.