ArticlePloS one2011
Comparative genomic and transcriptomic characterization of the toxigenic marine dinoflagellate Alexandrium ostenfeldii.
Article in PloS one, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 52 papers.
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Who cites it
52 citing papers in PubMed, 113 citations in OpenAlex.
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- Evolution of SL-RNA Genes and Their Splicing Targets in Parasitic Flatworms.Molecular biology and evolution · 2025Article
- Bioactive Polyketides fromMarine drugs · 2025Review
- Unveiling the functional nature of retrogenes in dinoflagellates.Open biology · 2025Article
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- Exchange or Eliminate: The Secrets of Algal-Bacterial Relationships.Plants (Basel, Switzerland) · 2024Review
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- Bioluminescent Dinoflagellates as a Bioassay for Toxicity Assessment.International journal of molecular sciences · 2022Review
- Metagenomic Analysis of the Species Composition and Seasonal Distribution of Marine Dinoflagellate Communities in Four Korean Coastal Regions.Microorganisms · 2022Article
- Hypothesis: Trans-splicing Generates Evolutionary Novelty in the Photosynthetic Amoeba Paulinella.Journal of phycology · 2022Article
- Seasonal genotype dynamics of a marine dinoflagellate: Pelagic populations are homogeneous and as diverse as benthic seed banks.Molecular ecology · 2022Article
- Transcriptome and metabolome analyses of cold and darkness-induced pellicle cysts of Scrippsiella trochoidea.BMC genomics · 2021Article
- Comparison of 15 dinoflagellate genomes reveals extensive sequence and structural divergence in family Symbiodiniaceae and genus Symbiodinium.BMC biology · 2021Article
- From theFrontiers in microbiology · 2021Article
- Genomes of the dinoflagellate Polarella glacialis encode tandemly repeated single-exon genes with adaptive functions.BMC biology · 2020Article
- New Perspectives Related to the Bioluminescent System in Dinoflagellates:International journal of molecular sciences · 2020Review
- Identification of Prostaglandin Pathway in Dinoflagellates by Transcriptome Data Mining.Marine drugs · 2020Article
- Biosynthesis of Saxitoxin in Marine Dinoflagellates: An Omics Perspective.Marine drugs · 2020Review
- Nuclear Gene Transformation in the DinoflagellateMicroorganisms · 2020Article
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Authors and funding
8 authors at 5 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Many dinoflagellate species are notorious for the toxins they produce and ecological and human health consequences associated with harmful algal blooms (HABs). Dinoflagellates are particularly refractory to genomic analysis due to the enormous genome size, lack of knowledge about their DNA composition and structure, and peculiarities of gene regulation, such as spliced leader (SL) trans-splicing and mRNA transposition mechanisms. Alexandrium ostenfeldii is known to produce macrocyclic imine toxins, described as spirolides. We characterized the genome of A. ostenfeldii using a combination of transcriptomic data and random genomic clones for comparison with other dinoflagellates, particularly Alexandrium species. Examination of SL sequences revealed similar features as in other dinoflagellates, including Alexandrium species. SL sequences in decay indicate frequent retro-transposition of mRNA species. This probably contributes to overall genome complexity by generating additional gene copies. Sequencing of several thousand fosmid and bacterial artificial chromosome (BAC) ends yielded a wealth of simple repeats and tandemly repeated longer sequence stretches which we estimated to comprise more than half of the whole genome. Surprisingly, the repeats comprise a very limited set of 79-97 bp sequences; in part the genome is thus a relatively uniform sequence space interrupted by coding sequences. Our genomic sequence survey (GSS) represents the largest genomic data set of a dinoflagellate to date. Alexandrium ostenfeldii is a typical dinoflagellate with respect to its transcriptome and mRNA transposition but demonstrates Alexandrium-like stop codon usage. The large portion of repetitive sequences and the organization within the genome is in agreement with several other studies on dinoflagellates using different approaches. It remains to be determined whether this unusual composition is directly correlated to the exceptionally genome organization of dinoflagellates with a low amount of histones and histone-like proteins.
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