ArticleScientific reports2018
Core genes in diverse dinoflagellate lineages include a wealth of conserved dark genes with unknown functions.
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 28 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
28 citing papers in PubMed.
- Cosmopolitan Gene Families With Known Functions Are Hotspots for the Evolution of Novel Genes in Stony Corals.Genome biology and evolution · 2026Article
- RNA-Binding Proteins in Dinoflagellates.International journal of molecular sciences · 2026Review
- Collectors, not hoarders: Complex gene structures in Amphidinium carterae revealed through nanopore sequencing.BMC genomics · 2025Article
- Decoding the Functional Interactome of Non-Model Organisms with PHILHARMONIC.bioRxiv : the preprint server for biology · 2025Article
- Article
- Coral Restoration in the Omics Era: Development of Point-of-Care Tools for Monitoring Disease, Reproduction, and Thermal Stress.BioEssays : news and reviews in molecular, cellular and developmental biology · 2025Review
- Unveiling the functional nature of retrogenes in dinoflagellates.Open biology · 2025Article
- Insights into Nitrogen-Associated Protein 50 (NAP50) as a Tyrosyl-DNA Phosphodiesterase in Dinoflagellates.Microorganisms · 2024Article
- Review
- Photosystem I: A Paradigm for Understanding Biological Environmental Adaptation Mechanisms in Cyanobacteria and Algae.International journal of molecular sciences · 2024Review
- Seasonal Proteome Variations inProteomes · 2024Article
- Evidence of a putative COEnvironmental microbiology reports · 2024Article
- Multi-omics analysis reveals the molecular response to heat stress in a "red tide" dinoflagellate.Genome biology · 2023Article
- The coral microbiome: towards an understanding of the molecular mechanisms of coral-microbiota interactions.FEMS microbiology reviews · 2023Article
- Convergent evolution and horizontal gene transfer in Arctic Ocean microalgae.Life science alliance · 2023Article
- Building consensus around the assessment and interpretation of Symbiodiniaceae diversity.PeerJ · 2023Article
- ImprovedMicroorganisms · 2022Article
- Rhodopsin-bestrophin fusion proteins from unicellular algae form gigantic pentameric ion channels.Nature structural & molecular biology · 2022Article
- A Strategy for Gene Knockdown in Dinoflagellates.Microorganisms · 2022Article
- Alignment-Free Analysis of Whole-Genome Sequences From Symbiodiniaceae Reveals Different Phylogenetic Signals in Distinct Regions.Frontiers in plant science · 2022Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors.
Funding
Abstract
Dinoflagellates are a diverse group of unicellular primary producers and grazers that exhibit some of the most remarkable features known among eukaryotes. These include gigabase-sized nuclear genomes, permanently condensed chromosomes and highly reduced organelle DNA. However, the genetic inventory that allows dinoflagellates to thrive in diverse ecological niches is poorly characterised. Here we systematically assess the functional capacity of 3,368,684 predicted proteins from 47 transcriptome datasets spanning eight dinoflagellate orders. We find that 1,232,023 proteins do not share significant sequence similarity to known sequences, i.e. are "dark". Of these, we consider 441,006 (13.1% of overall proteins) that are found in multiple taxa, or occur as alternative splice variants, to comprise the high-confidence dark proteins. Even with unknown function, 43.3% of these dark proteins can be annotated with conserved structural features using an exhaustive search against available data, validating their existence and importance. Furthermore, these dark proteins and their putative homologs are largely lineage-specific and recovered in multiple taxa. We also identified conserved functions in all dinoflagellates, and those specific to toxin-producing, symbiotic, and cold-adapted lineages. Our results demonstrate the remarkable divergence of gene functions in dinoflagellates, and provide a platform for investigations into the diversification of these ecologically important organisms.
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.