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Microbiology Editorial Guidelines 

The current page will no longer provide the SNOMED CT Content Development Canadian Editorial Guidelines for Microbiology.

All implementers are requested to

align to the current SNOMED CT Editorial Guide

and follow the guidelines listed in the Observable Entity and Microbiology Test Results

English Generic Editorial Guidelines

Canada Health Infoway (Infoway) publishes English Generic Editorial Guidelines. These guidelines should be consulted, along with the SNOMED International Guidelines prior to creating and submitting any new content for submission to Infoway.

. These pages describe the National Standards Release Centre (NSRC) approach to applying the Editorial Guidelines from SNOMED International to create SNOMED CT concepts for Microbiology. This includes:

• H antigen
• Organism Naming conventions
• Serotypes

Microbiology References

Authoritative references recognized by SNOMED International

References are required when submitting requests for new concepts so that these concepts can be promoted internationally.

See section 8. References for a non-exhaustive list of references suggested by SNOMED International.

Here is the list of a few resources that SNOMED International considers when reviewing the changes applicable to the Organism hierarchy:

Bacteria:

• List of Prokaryotic names with Standing in Nomenclature (LPSN) (http://www.bacterio.net/) – List of Prokaryotic names with Standing in Nomenclature Site is in alignment and follows International Committee on Systematic of Prokaryotes.
• International Committee on Systematics of Prokaryotes (ICSP) (http://www.the-icsp.org/) recommendation as published by the International Journal of Systematic and Evolutionary Microbiology.
• International Journal of Systematic and Evolutionary Microbiology (http://ijs.sgmjournals.org/)
• DSMZ-Prokaryotic Nomenclature Up-to-date (https://www.dsmz.de/bacterial-diversity/prokaryotic-nomenclature-up-to-date.html)

Fungus:

• MycoBank Database (http://www.mycobank.org/)
• Index Fungorum  (http://www.indexfungorum.org/names/names.asp)

Viruses:

• International Committee on Taxonomy of viruses (ICTV) (https://talk.ictvonline.org/taxonomy/)--requires review of additional scientific papers for concepts that are more specific than species

Parasites: 

SNOMED Canadian Edition

If you cannot provide any reference from these recognized and authoritative sources, here is a list of some resources that may be considered when submitting requests for new concepts or for modifications applicable to the Organism hierarchy for publication only in the Canadian Edition of SNOMED CT. 

General: 

• https://www.uniprot.org/taxonomy/ 
• httpsNational Center for Biotechnology Information (NCBI) Taxonomy  (http://www.ncbi.nlm.nih.gov/Taxonomy/taxonomyhome.html/) -- Although not an authoritative source, it will provide useful links to other sources. It is also used in UMLS as a QA source

General

• Integrated Taxonomic Information System (ITIS) (ITIS) -- ITIS is broad source of information , but limited in coverage, but it is validated for those organisms it contains. 

• Browser/wwwtax.cgi
• Public Health Agency of Canada reported diseases published in "The Canada Communicable Disease Report"
• Organisms reported by provincial public health authorities
• National Microbiology Laboratory (NML Winnipeg) "National Microbiology Laboratory publications"