RCPA - SPIA Microbiology Subset of Organisms Value Set

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  "meta": {
  "versionId": "1",
  "lastUpdated": "2025-09-25T15:01:57.337+10:00",
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  "text": {
  "status": "generated",
  "div": "<div xmlns=\"http://www.w3.org/1999/xhtml\"><h1>RCPA - SPIA Microbiology Subset of Organisms Value Set</h1><p>Standard set of organism codes for use in reporting pathology results in Australia. Content is derived from the RCPA Standardised Pathology Informatics in Australia (SPIA) Guidelines.</p></div>"
  },
  "extension": [ {
  "url": "http://hl7.org/fhir/tools/StructureDefinition/web-source",
  "valueUrl": "https://api.healthterminologies.gov.au/integration/R4/fhir/ValueSet/spia-microbiology-organisms-refset-3"
  } ],
  "url": "https://www.rcpa.edu.au/fhir/ValueSet/spia-microbiology-organisms-refset-3",
  "identifier": [ {
  "system": "urn:ietf:rfc:3986",
  "value": "urn:oid:1.2.36.1.2001.1004.300.100.1006"
  } ],
  "version": "3.20241207.0",
  "name": "spia-microbiology-organisms-refset",
  "title": "RCPA - SPIA Microbiology Subset of Organisms Value Set",
  "status": "draft",
  "experimental": true,
  "date": "2025-09-30",
  "publisher": "Australian Digital Health Agency",
  "contact": [ {
  "telecom": [ {
    "system": "email",
    "value": "help@digitalhealth.gov.au"
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  } ],
  "description": "Standard set of organism codes for use in reporting pathology results in Australia. Content is derived from the RCPA Standardised Pathology Informatics in Australia (SPIA) Guidelines (https://www.rcpa.edu.au/Library/Practising-Pathology/PTIS/SPIA-Terminology-Reference).",
  "jurisdiction": [ {
  "coding": [ {
    "system": "urn:iso:std:iso:3166",
    "code": "AU",
    "display": "Australia"
  } ]
  } ],
  "copyright": "Copyright © 2017 - 2025 RCPA. All rights reserved.\n\nThis material contains information which is protected by copyright. You may download, display, print and reproduce any material for your personal, non-commercial use or use within your organisation subject to the following terms and conditions:\n\n1. The material may not be copied, reproduced, communicated or displayed, in whole or in part, for profit or commercial gain.\n2. Any copy, reproduction or communication must include this RCPA copyright notice in full.\n3. No changes may be made to the wording of the Standards and Guidelines, terminology reference sets and information models including commentary, tables or diagrams. Excerpts from the Standards and Guidelines, terminology reference sets and information models may be used. References and acknowledgments must be maintained in any reproduction or copy in full or part of the material.\n\nApart from any use as permitted under the Copyright Act 1968 or as set out above, all other rights are reserved. Requests and inquiries concerning reproduction and rights should be addressed to RCPA, 207 Albion St, Surry Hills, NSW 2010, Australia.\n\nThis resource includes SNOMED Clinical Terms™ (SNOMED CT®) which is used by permission of the International Health Terminology Standards Development Organisation (IHTSDO). All rights reserved. SNOMED CT®, was originally created by The College of American Pathologists. “SNOMED” and “SNOMED CT” are registered trademarks of the IHTSDO. The rights to use and implement or implementation of SNOMED CT content are limited to the extent it is necessary to allow for the end use of this material. No further rights are granted in respect of the International Release and no further use of any SNOMED CT content by any other party is permitted.",
  "compose": {
  "include": [ {
    "system": "http://snomed.info/sct",
    "concept": [ {
    "code": "113714003",
    "display": "Abiotrophia defectiva"
    }, {
    "code": "115161005",
    "display": "Abiotrophia species"
    }, {
    "code": "79354006",
    "display": "Absidia corymbifera"
    }, {
    "code": "57145009",
    "display": "Absidia species"
    }, {
    "code": "50875003",
    "display": "Acanthamoeba species"
    }, {
    "code": "11950008",
    "display": "Phylum Acanthocephala"
    }, {
    "code": "396951004",
    "display": "Acetobacter liquefaciens"
    }, {
    "code": "396949003",
    "display": "Acetobacter species"
    }, {
    "code": "89082003",
    "display": "Acholeplasma laidlawii"
    }, {
    "code": "84858009",
    "display": "Acholeplasma species"
    }, {
    "code": "413414001",
    "display": "Achromobacter denitrificans"
    }, {
    "code": "413420000",
    "display": "Achromobacter piechaudii"
    }, {
    "code": "91620006",
    "display": "Achromobacter species"
    }, {
    "code": "413424009",
    "display": "Achromobacter xylosoxidans"
    }, {
    "code": "432361001",
    "display": "Family Veillonellaceae"
    }, {
    "code": "63005002",
    "display": "Acidaminococcus fermentans"
    }, {
    "code": "28207003",
    "display": "Acidaminococcus species"
    }, {
    "code": "243365003",
    "display": "Acid-fast bacillus"
    }, {
    "code": "113688001",
    "display": "Acidovorax konjaci"
    }, {
    "code": "115153000",
    "display": "Acidovorax species"
    }, {
    "code": "7757008",
    "display": "Acinetobacter species"
    }, {
    "code": "91288006",
    "display": "Acinetobacter baumannii"
    }, {
    "code": "113376007",
    "display": "Acinetobacter calcoaceticus-Acinetobacter baumannii complex"
    }, {
    "code": "82550008",
    "display": "Acinetobacter calcoaceticus"
    }, {
    "code": "77045006",
    "display": "Acinetobacter haemolyticus"
    }, {
    "code": "13879009",
    "display": "Acinetobacter junii"
    }, {
    "code": "83088009",
    "display": "Acinetobacter lwoffii"
    }, {
    "code": "423516002",
    "display": "Acinetobacter parvus"
    }, {
    "code": "113381003",
    "display": "Acinetobacter radioresistens"
    }, {
    "code": "424791004",
    "display": "Acinetobacter ursingii"
    }, {
    "code": "36128004",
    "display": "Acremonium potroni"
    }, {
    "code": "63996006",
    "display": "Acremonium species"
    }, {
    "code": "41028004",
    "display": "Haemophilus somnus"
    }, {
    "code": "6695002",
    "display": "Actinobacillus capsulatus"
    }, {
    "code": "27165004",
    "display": "Actinobacillus equuli"
    }, {
    "code": "43638004",
    "display": "Actinobacillus hominis"
    }, {
    "code": "78043002",
    "display": "Actinobacillus lignieresii"
    }, {
    "code": "85851009",
    "display": "Actinobacillus species"
    }, {
    "code": "112272003",
    "display": "Actinobacillus suis"
    }, {
    "code": "1839009",
    "display": "Actinobacillus ureae"
    }, {
    "code": "416353004",
    "display": "Actinobaculum massiliense"
    }, {
    "code": "114043007",
    "display": "Actinobaculum species"
    }, {
    "code": "427148009",
    "display": "Actinotignum urinale"
    }, {
    "code": "90285002",
    "display": "Actinomadura madurae"
    }, {
    "code": "65202006",
    "display": "Actinomadura pelletieri"
    }, {
    "code": "41571004",
    "display": "Actinomadura species"
    }, {
    "code": "59806008",
    "display": "Actinomyces bovis"
    }, {
    "code": "427237005",
    "display": "Actinomyces cardiffensis"
    }, {
    "code": "5844005",
    "display": "Actinomyces denticolens"
    }, {
    "code": "113414004",
    "display": "Gleimia europaea"
    }, {
    "code": "419012004",
    "display": "Actinomyces funkei"
    }, {
    "code": "113415003",
    "display": "Actinomyces georgiae"
    }, {
    "code": "113416002",
    "display": "Actinomyces gerencseriae"
    }, {
    "code": "427269001",
    "display": "Actinomyces hongkongensis"
    }, {
    "code": "46369004",
    "display": "Actinomyces israelii"
    }, {
    "code": "3174002",
    "display": "Actinomyces meyeri"
    }, {
    "code": "8940004",
    "display": "Actinomyces naeslundii"
    }, {
    "code": "425520001",
    "display": "Actinomyces nasicola"
    }, {
    "code": "113419009",
    "display": "Winkia neuii subsp. anitrata"
    }, {
    "code": "113420003",
    "display": "Winkia neuii subsp. neuii"
    }, {
    "code": "12069003",
    "display": "Actinomyces odontolyticus"
    }, {
    "code": "425488009",
    "display": "Actinomyces oricola"
    }, {
    "code": "427691003",
    "display": "Actinomyces radicidentis"
    }, {
    "code": "113421004",
    "display": "Actinomyces radingae"
    }, {
    "code": "46954006",
    "display": "Actinomyces slackii"
    }, {
    "code": "40560008",
    "display": "Actinomyces species"
    }, {
    "code": "114045000",
    "display": "Actinobaculum suis"
    }, {
    "code": "113422006",
    "display": "Actinomyces turicensis"
    }, {
    "code": "409827009",
    "display": "Actinomyces urogenitalis"
    }, {
    "code": "33529006",
    "display": "Actinomyces viscosus"
    }, {
    "code": "409824002",
    "display": "Actinomycetaceae"
    }, {
    "code": "114256005",
    "display": "Aerobic Actinomycetes"
    }, {
    "code": "716526006",
    "display": "Actinotignum schaalii"
    }, {
    "code": "424470006",
    "display": "Adenoviridae"
    }, {
    "code": "74871001",
    "display": "Human adenovirus"
    }, {
    "code": "68883008",
    "display": "Human adenovirus 40"
    }, {
    "code": "29576004",
    "display": "Human adenovirus 41"
    }, ...