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GBIF

Global biodiversity data — species taxonomy and occurrence records from GBIF.org.

Manual setup 8 tools

Overview

Query global biodiversity data from the Global Biodiversity Information Facility (GBIF) — species taxonomy, occurrence records, and scientific name parsing. No personal GBIF account required for search and lookup tools.

Prerequisites

  • A stackgate.ai account

Getting credentials

  1. Open Integrations → GBIF.
  2. Click Activate — no GBIF username or API key is needed.

stackgate.ai identifies itself to GBIF with a hub User-Agent. For heavy research use, you may optionally store a contact email in your integration credentials so requests use your own identifier (see GBIF API usage guidance).

Using with AI clients

  • Dedicated endpoint: POST /mcp/gbif
  • Private gateway: gbif__* tools

Typical workflow: match a scientific name → count occurrences → search records → fetch details by gbifID.

Troubleshooting

  • Hub quota exceeded (429) — daily fair-use limits apply on the shared hub identity. Wait until tomorrow or add an optional contact email to your integration credentials.
  • GBIF rate limit (429) — narrow your search filters or reduce paging frequency. For bulk exports beyond 100,000 records, use GBIF Downloads instead of repeated search paging.
  • Search window limit — occurrence search supports at most 100,000 records via paging (offset + limit). Use GBIF Downloads for larger datasets.
  • Citing data — follow GBIF citation guidelines when publishing analyses that use GBIF-mediated data.

Available tools

  • match_species

    Fuzzy match a scientific name against the GBIF taxonomic backbone and return the best usage match.

  • suggest_species

    Autocomplete scientific names from the GBIF backbone and registered checklists.

  • search_species

    Full-text search over GBIF name usages in the taxonomic backbone and registered checklists.

  • get_species

    Get a GBIF name usage record by its usage key from the taxonomic backbone or a registered checklist.

  • parse_scientific_name

    Parse a scientific name string using the GBIF name parser and return structured name parts.

  • count_occurrences

    Count GBIF occurrence records matching filters without returning individual records.

  • search_occurrences

    Search GBIF occurrence records with filters for taxon, geography, year, and coordinates. Pages up to 300 records; total window limited to 100,000.

  • get_occurrence

    Get a single GBIF occurrence record by its gbifID.

MCP endpoint: https://stackgate.ai/mcp/gbif (HTTP) or via the private gateway.

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