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There is an exception to the above guidelines where the binomial format for an organism species includes capitalization of the first word, i.e., the genus name, but the species name begins with a lower-case letter.

For example,

• • Concept
    t 24224000 |Brucella abortus (organism)|

If the species name includes any other word, they are not capitalized unless they are proper nouns, or parts of proper nouns.

For example,

• • 31989009 |Murray Valley encephalitis virus (organism)|

Salmonella serotype nomenclature

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There are two serotype naming systems, one in the U.S. and one in Denmark. The Danish system is nearly universally accepted and preferred. For details, please refer to See Geno K A, Gilbert G L, Song J Y, Skovsted I C, Klugman K P, Jones C, Konradsen H B, Nahm M H. Pneumococcal capsules and their types: past, present, and future. Clinical Microbiology Reviews 2015; 28(3):871-899. [PMID: 26085553]).

Streptococcus pneumoniae concepts

A review of Streptococcus pneumoniae serotypes in SNOMED CT showed lack of specificity, as well as inconsistency, in the naming of Streptococcus pneumoniae serotypes. Guidelines for creating concepts containing Streptococcus pneumoniae serotypes were formulated. They are as follows:

FSN and preferred term (PT) FSN and preferred term (PT) descriptions should follow the Danish naming system. When an American synonym exists, it should be added. A synonym (SYN) that matches the FSN, but does not contain the naming system can also be added. 

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• • • FSN: Streptococcus pneumoniae Danish serotype 48 (organism)
    • PT: Streptococcus pneumoniae Danish serotype 48
    • SYN: Streptococcus pneumoniae American serotype 82
    • SYN: Streptococcus pneumoniae serotype 48

The guidelines for creating new concepts containing Streptococcus pneumoniae serotypes also apply to concepts in other SNOMED CT hierarchies, such as substances and procedures.

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• • • FSN: Antibody to Streptococcus pneumoniae Danish serotype 7F (substance)
    • PT: Streptococcus pneumoniae Danish serotype 7F Ab
    • SYN: Antibody to Streptococcus pneumoniae Danish serotype 7F
    • SYN: Anti-Streptococcus pneumoniae Danish serotype 7F antibody
    • SYN: Streptococcus pneumoniae Danish serotype 7F antibody
    • SYN: Antibody to Streptococcus pneumoniae American serotype 51

Legacy Streptococcus pneumoniae concepts

FSNs that adhered to one of the naming systems were kept, but changes were made to the descriptions, based on the above guidelines. Any resulting duplicates were deprecated.

FSNs that did not adhere to one of the naming system were inactivated as ambiguous. They were replaced with newly created concepts, based on the above guidelines.

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• • • serotype 7F antibody
    • SYN: Antibody to Streptococcus pneumoniae American serotype 51

Influenza virus nomenclature

Follow the latest names for genus and species according to the taxonomy authority.  Although the genus and species names for influenza viruses are similar, they each follow a distinct pattern, which should be used in SNOMED CT. Also, the taxonomic name of the virus should always be capitalized.

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The disorder influenza need not be capitalized. 

• For example,

  • Concept
    t 16311000119108 |Pneumonia caused by influenza 408687004 |Healthcare associated influenza disease (disorder)|

    
    

  • Concept
    t 309789002 |Encephalitis caused by influenza 230188005 |Post-influenza encephalitis (disorder)|

US/GB spelling variants for taxonomic concepts 

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