{
  "abstract": "Annelids inhabit marine, freshwater, and terrestrial ecosystems and are important models for studying animal evolution, regeneration, and host–microbe interactions, yet their rapidly growing omics resources remain dispersed across repositories and publications. We developed AnnelidaDB (www.annelidadb.com), a species-centred database built on an updated phylogenetic framework that integrates genomes, mitochondrial genomes, transcriptomes, proteomes, epigenomes, single-cell datasets, host-associated symbiont genomes, and comparative synteny for Annelida. The current release covers 1121 species, including 152 species with nuclear genomes, 177 with mitochondrial genomes, 591 with transcriptome data, 5 with single-cell datasets comprising 209 802 cells, and 30 bacterial symbiont genomes. AnnelidaDB organizes these resources through 10 navigation directories and connects species, genome, gene, functional annotation, and gene-family records. Users can browse genomic assemblies, explore interactive single-cell atlases and 12 200 precomputed Oxford plots, run BLAST queries and search genes against the annelid-specific database, and submit chromosome-level data for syntenic analysis against 20 Annelida linkage groups. Sequences, annotations, and private results are available for download. As a comprehensive multi-omics resource dedicated to annelids, AnnelidaDB provides an accessible platform for comparative investigations of annelid genome evolution, adaptation, regeneration, and symbiosis.",
  "abstract_shown": true,
  "affiliations": [
    "Department of Biology, Hong Kong Baptist University , Hong Kong SAR ,",
    "Data Darkness Lab, School of Biomedical Engineering, Suzhou Institute for Advanced Research, University of Science and Technology of China , Suzhou, Jiangsu 215000 ,",
    "Laboratory of Marine Organism Taxonomy and Phylogeny, Institute of Oceanology, Chinese Academy of Sciences , Qingdao 266071 ,",
    "School of Biological and Behavioural Sciences, Queen Mary University of London , London E1 4NS ,",
    "Scripps Institution of Oceanography, University of California , San Diego 92093-0202 ,",
    "Southern Marine Science and Engineering Guangdong Laboratory (Guangzhou) , Guangzhou, Guangdong 511458 ,",
    "Department of Ocean Science, The Hong Kong University of Science and Technology , Hong Kong SAR ,",
    "Department of Computer Science, Hong Kong Baptist University , Hong Kong SAR ,"
  ],
  "article_type": null,
  "arxiv": null,
  "author_total": 13,
  "authors": [
    {
      "affs": [
        0
      ],
      "name": "Yunlong Li"
    },
    {
      "affs": [
        1
      ],
      "name": "Haokun Liu"
    },
    {
      "affs": [
        0
      ],
      "name": "Maeva Perez",
      "orcid": "0000-0003-4532-8299"
    },
    {
      "affs": [
        0
      ],
      "name": "Yi-Xuan Li"
    },
    {
      "affs": [
        0
      ],
      "name": "Fan Hui",
      "orcid": "0009-0004-8609-4075"
    },
    {
      "affs": [
        0
      ],
      "name": "Zihui Shen"
    },
    {
      "affs": [
        2
      ],
      "name": "Yanan Sun",
      "orcid": "0000-0003-3215-3434"
    },
    {
      "affs": [
        3
      ],
      "name": "José M Martín-Durán"
    },
    {
      "affs": [
        4
      ],
      "name": "Greg W Rouse"
    },
    {
      "affs": [
        5,
        6
      ],
      "name": "Pei-Yuan Qian"
    },
    {
      "affs": [
        7
      ],
      "name": "Jianliang Xu"
    },
    {
      "affs": [
        1
      ],
      "name": "Xike Xie"
    },
    {
      "affs": [
        0
      ],
      "name": "Jian-Wen Qiu",
      "orcid": "0000-0002-1541-9627"
    }
  ],
  "bibtex": "https://research.draconitic.com/paper/4ecv3hk16akhg.bib",
  "cited_by": 0,
  "doi": "10.1093/nar/gkag1087",
  "fulltext_url": null,
  "id": "4ecv3hk16akhg",
  "issns": [
    "0305-1048",
    "1362-4962"
  ],
  "landing_url": "https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkag1087/9005756",
  "language": null,
  "licence": "CC-BY-NC-4.0",
  "licence_label": "CC BY-NC 4.0",
  "licence_source": "article",
  "licence_url": "https://creativecommons.org/licenses/by-nc/4.0/",
  "metadata_licence": null,
  "native_subjects": [],
  "openalex": null,
  "pdf_url": "https://academic.oup.com/nar/advance-article-pdf/doi/10.1093/nar/gkag1087/72639821/gkag1087.pdf",
  "pmcid": null,
  "pmid": null,
  "published": "2026-10-31",
  "publisher": "Oxford University Press (OUP)",
  "ris": "https://research.draconitic.com/paper/4ecv3hk16akhg.ris",
  "sources": [
    {
      "first_seen": "2026-10-31T12:21:18Z",
      "native_id": "10.1093/nar/gkag1087",
      "source": "crossref",
      "url": "https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkag1087/9005756"
    }
  ],
  "subjects": [
    {
      "field": "biochemistry",
      "origin": "issn:0305-1048",
      "subfield": "molecular-biology"
    }
  ],
  "title": "AnnelidaDB: a comprehensive platform of taxonomic and multi-omic resources across annelids",
  "title_text": "AnnelidaDB: a comprehensive platform of taxonomic and multi-omic resources across annelids",
  "type": "peer-reviewed",
  "updated_at": "2026-11-02T00:21:29Z",
  "url": "https://research.draconitic.com/paper/4ecv3hk16akhg",
  "venue": "Nucleic Acids Research",
  "versions": []
}