ArticleBMC biology2023
Recent expansion of metabolic versatility in Diplonema papillatum, the model species of a highly speciose group of marine eukaryotes.
Article in BMC biology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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27 citing papers in PubMed, 39 citations in OpenAlex.
- Identification of feeding apparatus components in a heterotrophic marine flagellate.Journal of cell science · 2026Article
- Enzymology of the metazoan tRNA ligase complex: a lifetime in cycles.Cellular and molecular life sciences : CMLS · 2026Review
- Eukan: a fully automated nuclear genome annotation pipeline for less studied and divergent eukaryotes.NAR genomics and bioinformatics · 2026Article
- Genetic Manipulation of Paradiplonema papillatum.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Preparation of Diplonemid Samples for Microscopy.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Why Euglenozoans.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Assembly and Annotation of Kinetoplastid and Diplonemid Mitochondrial Genomes.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Biochemistry of Diplonemids.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Isolation and Cultivation of Diplonemids.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Nuclear Genome Assembly and Annotation of Kinetoplastids.Methods in molecular biology (Clifton, N.J.) · 2026Article
- The mitochondrial proteome of diplonemids: from conventional pathways to eccentric RNA editing and transcript processing.BMC genomics · 2025Article
- Subcellular proteomics of the protist Paradiplonema papillatum reveals the digestive capacity of the cell membrane and the plasticity of peroxisomes across euglenozoans.PLoS biology · 2025Article
- Splice site diversity and abundance of noncanonical introns in diplonemids (Diplonemea, Euglenozoa).RNA (New York, N.Y.) · 2025Article
- Discovery of unique mitotic mechanisms inOpen biology · 2025Article
- Eukaryote-Wide Distribution of a Family of Longin Domain-Containing GAP Complexes for Small GTPases.Traffic (Copenhagen, Denmark) · 2025Article
- Comparative analysis of the mobilome yields new insights into its diversity, dynamics and evolution in parasites of the Trypanosomatidae family.Parasitology · 2025Article
- The genome sequences of the diplonemid protistWellcome open research · 2025Article
- Probing mechanical selection in diverse eukaryotic genomes through accurate prediction of 3D DNA mechanics.bioRxiv : the preprint server for biology · 2024Article
- Article
- Comprehensive analysis of the Kinetoplastea intron landscape reveals a novel intron-containing gene and the first exclusively trans-splicing eukaryote.BMC biology · 2024Article
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Authors and funding
22 authors at 11 institutions in 8 countries.
Funding
Abstract
backgroundDiplonemid flagellates are among the most abundant and species-rich of known marine microeukaryotes, colonizing all habitats, depths, and geographic regions of the world ocean. However, little is known about their genomes, biology, and ecological role.
resultsWe present the first nuclear genome sequence from a diplonemid, the type species Diplonema papillatum. The ~ 280-Mb genome assembly contains about 32,000 protein-coding genes, likely co-transcribed in groups of up to 100. Gene clusters are separated by long repetitive regions that include numerous transposable elements, which also reside within introns. Analysis of gene-family evolution reveals that the last common diplonemid ancestor underwent considerable metabolic expansion. D. papillatum-specific gains of carbohydrate-degradation capability were apparently acquired via horizontal gene transfer. The predicted breakdown of polysaccharides including pectin and xylan is at odds with reports of peptides being the predominant carbon source of this organism. Secretome analysis together with feeding experiments suggest that D. papillatum is predatory, able to degrade cell walls of live microeukaryotes, macroalgae, and water plants, not only for protoplast feeding but also for metabolizing cell-wall carbohydrates as an energy source. The analysis of environmental barcode samples shows that D. papillatum is confined to temperate coastal waters, presumably acting in bioremediation of eutrophication.
conclusionsNuclear genome information will allow systematic functional and cell-biology studies in D. papillatum. It will also serve as a reference for the highly diverse diplonemids and provide a point of comparison for studying gene complement evolution in the sister group of Kinetoplastida, including human-pathogenic taxa.
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