ArticleDatabase : the journal of biological databases and curation2024
EUKARYOME: the rRNA gene reference database for identification of all eukaryotes.
Article in Database : the journal of biological databases and curation, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
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Who cites it
35 citing papers in PubMed.
- Environmental variables associated with Arbuscular Mycorrhizal Fungi diversity in Ohio soybean agricultural systems.Mycorrhiza · 2026Article
- Soil redox potential and plant species identity likely affect root-associated fungi in salt marshes.Mycorrhiza · 2026Article
- The FunAqua dataset of global fungal biodiversity in aquatic ecosystems.Scientific data · 2026Article
- Benchmarking Full-Length ITS Metabarcoding Across Illumina 2 × 500, PacBio, and Oxford Nanopore Sequencing Using Mock and Soil Communities.Molecular ecology resources · 2026Article
- Article
- Differential Effects of Long-Term Fertilization and Plant Species Richness on Soil Fungi and Protists.Global change biology · 2026Article
- Global dataset of soil eukaryotic communities created with a uniform protocol and long read sequencing.Scientific data · 2026Article
- Exploring the diversity and community structure of the Testudines fecal mycobiome.bioRxiv : the preprint server for biology · 2026Article
- Sampling Design and Sample Processing Affect Soil Biodiversity Assessments.Molecular ecology resources · 2026Article
- Diversity and Dispersal of Fungi Along a Subtropical Land-to-Sea Continuum.Environmental microbiology reports · 2026Article
- Cryogenic electron tomography by the numbers: Charting underexplored lineages in structural cell biology.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Temporal Turnover of Aquatic Fungal Communities Driven by Water Quality Changes in FLOCponics Japanese Eel Aquaculture System.Journal of fungi (Basel, Switzerland) · 2026Article
- Microbial communities and biomineralization potential within mountain permafrost of the Devaux ice cave in the Central Pyrenees.Scientific reports · 2026Article
- Microbiota and horizontal microbial transmission dynamics associated with bramble (Rubus spp.) flowers.Environmental microbiome · 2026Article
- Splitting and filling the gaps: a reorganization of Corymbiglomeraceae and new taxa from trans-Pacific tropical regions.Frontiers in microbiology · 2026Article
- Tadpole Doctor: a UK-based citizen science project that identifies novel Perkinsea clades closely related to candidate amphibian pathogens.ISME communications · 2026Article
- Metabarcoding and targeted barcoding can enhance Norwegian Continental Shelf macrofauna species inventories.PeerJ · 2026Article
- Impact of plant species, mycorrhizal type, and leaf traits on foliar fungal communities (in a common garden experiment).IMA fungus · 2026Article
- Article
- Interpreting fungal ecological contributions through taxonomic and functional profiling of metatranscriptomics.IMA fungus · 2026Review
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21 authors.
Funding
Abstract
Molecular identification of micro- and macroorganisms based on nuclear markers has revolutionized our understanding of their taxonomy, phylogeny and ecology. Today, research on the diversity of eukaryotes in global ecosystems heavily relies on nuclear ribosomal RNA (rRNA) markers. Here, we present the research community-curated reference database EUKARYOME for nuclear ribosomal 18S rRNA, internal transcribed spacer (ITS) and 28S rRNA markers for all eukaryotes, including metazoans (animals), protists, fungi and plants. It is particularly useful for the identification of arbuscular mycorrhizal fungi as it bridges the four commonly used molecular markers-ITS1, ITS2, 18S V4-V5 and 28S D1-D2 subregions. The key benefits of this database over other annotated reference sequence databases are that it is not restricted to certain taxonomic groups and it includes all rRNA markers. EUKARYOME also offers a number of reference long-read sequences that are derived from (meta)genomic and (meta)barcoding-a unique feature that can be used for taxonomic identification and chimera control of third-generation, long-read, high-throughput sequencing data. Taxonomic assignments of rRNA genes in the database are verified based on phylogenetic approaches. The reference datasets are available in multiple formats from the project homepage, http://www.eukaryome.org.
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