ArticleBMC biology2020
Integrated omics unveil the secondary metabolic landscape of a basal dinoflagellate.
Article in BMC biology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed, 34 citations in OpenAlex.
- Transcriptomic insights into polyketides and toxin biosynthesis genes in freshwater dinoflagellates.Scientific reports · 2026Article
- RNA-Binding Proteins in Dinoflagellates.International journal of molecular sciences · 2026Review
- Progress, challenges and future directions in marine organic-walled dinoflagellate cyst research: New insights from an international workshop.Marine micropaleontology · 2025Article
- Collectors, not hoarders: Complex gene structures in Amphidinium carterae revealed through nanopore sequencing.BMC genomics · 2025Article
- Bioactive Polyketides fromMarine drugs · 2025Review
- Genomes of the Caribbean reef-building corals Colpophyllia natans, Dendrogyra cylindrus, and Siderastrea siderea.G3 (Bethesda, Md.) · 2025Article
- Untargeted Metabolomic Analysis and Cytotoxicity of Extracts of the Marine DinoflagellateToxins · 2025Article
- Chromosome-level genome assemblies and genetic maps reveal heterochiasmy and macrosynteny in endangered Atlantic Acropora.BMC genomics · 2024Article
- Review
- Genomes of the Caribbean reef-building coralsbioRxiv : the preprint server for biology · 2024Article
- Massive genome reduction predates the divergence of Symbiodiniaceae dinoflagellates.The ISME journal · 2024Article
- Multi-omics analysis reveals the molecular response to heat stress in a "red tide" dinoflagellate.Genome biology · 2023Article
- Review
- Dinoflagellate Phosphopantetheinyl Transferase (PPTase) and Thiolation Domain Interactions Characterized Using a Modified Indigoidine Synthesizing Reporter.Microorganisms · 2022Article
- Gene clusters for biosynthesis of mycosporine-like amino acids in dinoflagellate nuclear genomes: Possible recent horizontal gene transfer between species of Symbiodiniaceae (Dinophyceae).Journal of phycology · 2022Review
- Mining genomes to illuminate the specialized chemistry of life.Nature reviews. Genetics · 2021Review
- Insights intoBiology · 2021Article
- A New Dinoflagellate Genome Illuminates a Conserved Gene Cluster Involved in Sunscreen Biosynthesis.Genome biology and evolution · 2021Article
- A Global Approach to Estimating the Abundance and Duplication of Polyketide Synthase Domains in Dinoflagellates.Evolutionary bioinformatics online · 2021Article
- Integrated omics unveil the secondary metabolic landscape of a basal dinoflagellate.BMC biology · 2020Article
Corrections and comments
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Authors and funding
10 authors at 5 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundSome dinoflagellates cause harmful algal blooms, releasing toxic secondary metabolites, to the detriment of marine ecosystems and human health. Our understanding of dinoflagellate toxin biosynthesis has been hampered by their unusually large genomes. To overcome this challenge, for the first time, we sequenced the genome, microRNAs, and mRNA isoforms of a basal dinoflagellate, Amphidinium gibbosum, and employed an integrated omics approach to understand its secondary metabolite biosynthesis.
resultsWe assembled the ~ 6.4-Gb A. gibbosum genome, and by probing decoded dinoflagellate genomes and transcriptomes, we identified the non-ribosomal peptide synthetase adenylation domain as essential for generation of specialized metabolites. Upon starving the cells of phosphate and nitrogen, we observed pronounced shifts in metabolite biosynthesis, suggestive of post-transcriptional regulation by microRNAs. Using Iso-Seq and RNA-seq data, we found that alternative splicing and polycistronic expression generate different transcripts for secondary metabolism.
conclusionsOur genomic findings suggest intricate integration of various metabolic enzymes that function iteratively to synthesize metabolites, providing mechanistic insights into how dinoflagellates synthesize secondary metabolites, depending upon nutrient availability. This study provides insights into toxin production associated with dinoflagellate blooms. The genome of this basal dinoflagellate provides important clues about dinoflagellate evolution and overcomes the large genome size, which has been a challenge previously.
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