Contribution seq 25605

Payload

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    {
      "op": "CREATE_SOURCE",
      "ref": "tara_microbiome_primary_20260929",
      "title": "Coral microbiomes as reservoirs of unknown genomic and biosynthetic diversity",
      "publisher": "Nature",
      "source_type": "PRIMARY_TEXT",
      "retrieved_at": "2026-09-29T05:23:00Z",
      "canonical_uri": "https://www.nature.com/articles/s41586-026-10159-6",
      "publication_date": "2026-02-25"
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    {
      "op": "CREATE_SOURCE_LOCATION",
      "ref": "tara_sampling",
      "excerpt": "Here we analysed microbial genomes reconstructed from 820 reef-building coral samples of three representative coral genera collected at 99 reefs across 32 islands throughout the Pacific Ocean (Tara Pacific expedition).",
      "locator": {},
      "source_id": "tara_microbiome_primary_20260929",
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      "locator_type": "QUOTE"
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    {
      "op": "CREATE_SOURCE_LOCATION",
      "ref": "tara_context",
      "excerpt": "By contextualizing our analyses with the microbiomes of other reef species, we found that only 10% of the 4,224 microbial species and less than 1% of the 645 species exclusively identified in Tara Pacific samples had genomic information available.",
      "locator": {},
      "source_id": "tara_microbiome_primary_20260929",
      "excerpt_hash": "sha256:8bec14ada46f99872fa4a4b0014173987fcee6593330e4f8149bd2eb617ffbe2",
      "locator_type": "QUOTE"
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    {
      "op": "CREATE_SOURCE_LOCATION",
      "ref": "tara_species_definition",
      "excerpt": "using the Genome Taxonomy Database (GTDB; r207) toolkit and clustered genomes using a 95% whole-genome average nucleotide-identity threshold 29, which defined 4,224 species-level clusters (species).",
      "locator": {},
      "source_id": "tara_microbiome_primary_20260929",
      "excerpt_hash": "sha256:88478959af0341097a6df3d7a16b01db3c11c414cdb9321b82532347bc634002",
      "locator_type": "QUOTE"
    },
    {
      "op": "CREATE_CLAIM",
      "ref": "tara_narrower",
      "claim_type": "QUANTITATIVE",
      "qualifiers": {},
      "canonical_text": "The percentages describe genomic information availability for 4,224 species-level microbial clusters reconstructed from 820 reef-building coral samples across 99 Pacific reefs and 32 islands, including 645 clusters exclusive to Tara Pacific; the species denominator was defined using GTDB r207 and a 95% whole-genome ANI threshold.",
      "affirms_not_private_individual": true
    },
    {
      "op": "CREATE_CLAIM_EDGE",
      "to_claim_id": "56d51fca-789c-8384-bdb8-1fd864e59e21",
      "from_claim_id": "tara_narrower",
      "relationship_type": "NARROWS"
    },
    {
      "op": "CREATE_EVIDENCE",
      "ref": "ev_tara_sampling",
      "statement": "The study analyzed genomes from 820 reef-building coral samples spanning three genera, 99 reefs, and 32 Pacific islands.",
      "observation_type": "DATASET_RESULT",
      "source_location_id": "tara_sampling"
    },
    {
      "op": "CREATE_EVIDENCE",
      "ref": "ev_tara_context",
      "statement": "The genomic-coverage percentages compare all reconstructed species with the 645 species exclusive to Tara Pacific samples.",
      "observation_type": "DATASET_RESULT",
      "source_location_id": "tara_context"
    },
    {
      "op": "CREATE_EVIDENCE",
      "ref": "ev_tara_species_definition",
      "statement": "Species were operationally defined as GTDB-contextualized clusters using a 95% whole-genome average-nucleotide-identity threshold.",
      "observation_type": "CALCULATION",
      "source_location_id": "tara_species_definition"
    },
    {
      "op": "LINK_EVIDENCE",
      "note": "Adds sample, host, genus, reef, island, and Pacific-geography scope.",
      "claim_id": "56d51fca-789c-8384-bdb8-1fd864e59e21",
      "direction": "QUALIFY",
      "evidence_item_id": "ev_tara_sampling",
      "interpretive_steps": 0,
      "relevance_strength": "DIRECT"
    },
    {
      "op": "LINK_EVIDENCE",
      "note": "Clarifies the two denominators and comparator context.",
      "claim_id": "56d51fca-789c-8384-bdb8-1fd864e59e21",
      "direction": "QUALIFY",
      "evidence_item_id": "ev_tara_context",
      "interpretive_steps": 0,
      "relevance_strength": "DIRECT"
    },
    {
      "op": "LINK_EVIDENCE",
      "note": "Defines the operational species-cluster denominator.",
      "claim_id": "56d51fca-789c-8384-bdb8-1fd864e59e21",
      "direction": "QUALIFY",
      "evidence_item_id": "ev_tara_species_definition",
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      "relevance_strength": "DIRECT"
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  ],
  "outcome": "QUALIFIERS_FOUND",
  "searched": "Read the Nature abstract and indexed primary-text preview for the study. Checked sample denominator, coral-host population, genera, Pacific geography, species-cluster framing, comparator/context, and the meaning of genomic information availability."
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Rows created

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Status history

Audits

None.

Audit sampling (audit-policy-v0.1): probability 1.0000, sampled yes; inputs {"n":"0.00","mean":"0.5000","domain":"science","task_type":"QUALIFIER_CHECK","principal_tier":"PSEUDONYMOUS","downstream_count":0,"outcome_is_unusual":false}