dQM CMS Content Implementation Guide
2026.1.0 - CI Build

dQM CMS Content Implementation Guide, published by cqframework. This guide is not an authorized publication; it is the continuous build for version 2026.1.0 built by the FHIR (HL7® FHIR® Standard) CI Build. This version is based on the current content of https://github.com/cqframework/dqm-content-cms-2026/ and changes regularly. See the Directory of published versions

CodeSystem: HOB Organism Taxonomy - SNOMED CT Supplement (Experimental)

Official URL: https://example.org/fhir/CodeSystem/hob-organism-taxonomy Version: 0.1.0
Draft as of 2026-07-30 Responsible: CQF (local starter) Computable Name: HOBOrganismTaxonomy

SNOMED CT code system supplement carrying the NHSN HOB organism-taxonomy rollup and classification properties. Generated from the OrganismTaxonomy expression in the HOBOrganismTaxonomy CQL library (the source is a work-in-progress alphabetical fragment, so this supplement is incomplete). The source columns roll_up_genus_level / roll_up_species_level are omitted because they are fully implied by the presence of the roll-up-genus / roll-up-species properties, and the always-null ā€˜L’ column is omitted. Genus/species preferred terms are carried as the display of each Coding-valued property.

This Code system is referenced in the content logical definition of the following value sets:

  • This CodeSystem Supplement is not used here; it may be used elsewhere (e.g. specifications and/or implementations that use this content)

Properties

This code system defines the following properties for its concepts

NameCodeTypeDescription
roll-up-genus roll-up-genus Coding Genus-level SNOMED CT concept this organism rolls up to (roll_up_genus_conceptid / roll_up_genus_name).
roll-up-species roll-up-species Coding Species-level SNOMED CT concept this organism rolls up to (roll_up_species_conceptid / roll_up_species_name). Absent for genus-level or higher concepts.
nhsn-community-associated nhsn-community-associated boolean NHSN classification: organism is community-associated (source nhsn_community_associated, 1=true).
nhsn-skin-commensal nhsn-skin-commensal boolean NHSN classification: organism is a common skin commensal (source nhsn_skin_commensal, 1=true).
snomed-status snomed-status code SNOMED status flag as recorded in the source taxonomy ('0'/'1'). Exact semantics to be confirmed (likely active=1).

Concepts

This code system supplement https://example.org/fhir/CodeSystem/hob-organism-taxonomy defines properties on the following codes:

CodeDisplayroll-up-genusroll-up-speciesnhsn-community-associatednhsn-skin-commensalsnomed-status
186087007 (Cholera) or (Vibrio cholerae) Vibrio Vibrio cholerae false false 0
266186009 (Legionella) or (Legionnaire's disease) Legionella false false 0
154315008 (Legionella) or (Legionnaire's disease) Legionella false false 0
186103005 (Shigella dysenteriae - group A) or (bacillary dysentery) Shigella Shigella dysenteriae false false 0
186350009 (Whooping cough) or (Bordetella) Bordetella false false 0
115161005 Abiotrophia Abiotrophia false false 1
113714003 Abiotrophia defectiva Abiotrophia Abiotrophia defectiva false false 1
409815006 Abiotrophia para-adiacens Abiotrophia Abiotrophia para-adiacens false false 0
372391001 Abiotrophia species Abiotrophia false false 0
736080001 Abortiporus Abortiporus false false 1
736079004 Abortiporus biennis Abortiporus Abortiporus biennis false false 1
57145009 Absidia Absidia false false 1
2591000146102 Absidia caerulea Absidia Absidia caerulea false false 1
243420008 Absidia corymbifera Absidia Absidia corymbifera false false 0
49931000087108 Absidia cylindrospora Absidia Absidia cylindrospora false false 1
785768009 Absidia glauca Absidia Absidia glauca false false 1
8296004 Absidia halospora Absidia Absidia halospora false false 1
359802007 Absidia lichtheimii Absidia Absidia lichtheimii false false 0
36013002 Absidia ramosa Absidia Absidia ramosa false false 0
404226006 Absidia species Absidia false false 0
541341000124105 Abyssicoccus Abyssicoccus false false 1
541351000124107 Abyssicoccus albus Abyssicoccus Abyssicoccus albus false false 1
28861000087102 Acaromyces Acaromyces false false 1
28871000087106 Acaromyces ingoldii Acaromyces Acaromyces ingoldii false false 1
785735002 Acaulium Acaulium false false 1
59520005 Acaulium acremonium Acaulium Acaulium acremonium false false 1
423947001 Acetanaerobacterium Acetanaerobacterium false false 1
423867006 Acetanaerobacterium elongatum Acetanaerobacterium Acetanaerobacterium elongatum false false 1
424162006 Acetitomaculum Acetitomaculum false false 1
425276005 Acetitomaculum ruminis Acetitomaculum Acetitomaculum ruminis false false 1
72806006 Acetivibrio Acetivibrio false false 1
432614007 Acetivibrio aldrichii Acetivibrio Acetivibrio aldrichii false false 1
86860008 Acetivibrio cellulolyticus Acetivibrio Acetivibrio cellulolyticus false false 1
64755006 Acetivibrio ethanolgignens Acetivibrio Acetivibrio ethanolgignens false false 1
131199002 Acetivibrio species Acetivibrio false false 0
432622000 Acetivibrio straminisolvens Acetivibrio Acetivibrio straminisolvens false false 1
68100006 Acetivibrio thermocellus Acetivibrio Acetivibrio thermocellus false false 1
423611000 Acetoanaerobium Acetoanaerobium false false 1
422656003 Acetoanaerobium noterae Acetoanaerobium Acetoanaerobium noterae false false 1
78437006 Acetoanaerobium sticklandii Acetoanaerobium Acetoanaerobium sticklandii false false 1
396949003 Acetobacter Acetobacter false false 1
396950003 Acetobacter aceti Acetobacter Acetobacter aceti false false 1
413398000 Acetobacter calcoaceticus Acetobacter Acetobacter calcoaceticus false false 1
413399008 Acetobacter cerevisiae Acetobacter Acetobacter cerevisiae false false 1
413400001 Acetobacter cibinongensis Acetobacter Acetobacter cibinongensis false false 1
413401002 Acetobacter estunensis Acetobacter Acetobacter estunensis false false 1
116881000181108 Acetobacter fabarum Acetobacter Acetobacter fabarum false false 1
23731000181109 Acetobacter ghanensis Acetobacter Acetobacter ghanensis false false 1
396953001 Acetobacter hansenii Acetobacter Acetobacter hansenii false false 1
413402009 Acetobacter indonesiensis Acetobacter Acetobacter indonesiensis false false 1
23741000181102 Acetobacter lambici Acetobacter Acetobacter lambici false false 1
396951004 Acetobacter liquefaciens Acetobacter Acetobacter liquefaciens false false 0
413403004 Acetobacter lovaniensis Acetobacter Acetobacter lovaniensis false false 1
413404005 Acetobacter malorum Acetobacter Acetobacter malorum false false 1
23751000181104 Acetobacter musti Acetobacter Acetobacter musti false false 1
23761000181101 Acetobacter nitrogenifigens Acetobacter Acetobacter nitrogenifigens false false 1
23771000181106 Acetobacter oeni Acetobacter Acetobacter oeni false false 1
413405006 Acetobacter orientalis Acetobacter Acetobacter orientalis false false 1
413406007 Acetobacter orleanensis Acetobacter Acetobacter orleanensis false false 1
396952006 Acetobacter pasteurianus Acetobacter Acetobacter pasteurianus false false 1
413407003 Acetobacter peroxydans Acetobacter Acetobacter peroxydans false false 0
708522006 Acetobacter persici Acetobacter Acetobacter persici false false 1
413408008 Acetobacter polyoxogenes Acetobacter Acetobacter polyoxogenes false false 1
413409000 Acetobacter pomorum Acetobacter Acetobacter pomorum false false 1
413410005 Acetobacter species Acetobacter false false 0