LOINC
Version 2.72

86509-7Varicella zoster virus clade [Type] in Specimen by Molecular genetics methodActive

Term Description

This term is created for a test that involves amplification and sequencing of 3 open reading frames of VZV (ORF21, ORF22 and ORF50) to categorize strains into one of the 7 known clades of VZV.
Source: Regenstrief LOINC

Part Description

LP260859-6   Varicella zoster virus clade
Varicella zoster virus (VZV) is a double-stranded alphaherpesvirus that causes seasonal outbreaks of chickenpox and shingles in non-immunized populations. VZV is highly infectious and is transmitted by contact with the ruptured fluid filled blisters and respiratory secretions of infected individuals. Immunity post infection is usually lifelong though the latent virus inhabits the sensory nerve ganglia where it can reactivate causing shingles when immunity declines with aging.[http://jvi.asm.org/content/88/24/13936.full] In the over fifty strains of VZV that have been sequenced it has been found that a single nucleotide polymorphism occurs about every 100 bases. The patterns of polymorphisms in VZV correlate with different geographical regions of infection and is the basis for the classification of viral clades.[https://grose.lab.uiowa.edu/vzv-genomes-and-evolution] Breuer proposed the nomenclature for the VZV clades as 1-5 with the suspected clades VI and VII to be confirmed later. The geographical regions associated with the seven clades are as follows:
Clades 1 and 3-represent the dominant clades of the circulating VZV in Europe and the Americas
Clades 4 and 5-found in Africa
Clade VI found in France, Italy
Clade VII exclusively isolated in the US
Clade 2-Asia from Korea, Japan, China not found in India, Nepal and Bangladesh where clades 4 and 5 were dominant
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5054591/ Source: Regenstrief LOINC

Fully-Specified Name

Component
Varicella zoster virus clade
Property
Type
Time
Pt
System
XXX
Scale
Nom
Method
Molgen

Additional Names

Short Name
VZV clade Spec
Display Name
VZV clade Molgen Nom (Specimen)
Consumer Name Alpha
Varicella zoster virus clade, Specimen

Example Answer List LL4417-3

Source: Regenstrief LOINC

Answer Code Score Answer ID
Varicella-zoster virus clade 1 LA27282-5
Varicella-zoster virus clade 2 LA27283-3
Varicella-zoster virus clade 3 LA27285-8
Varicella-zoster virus clade 4 LA27286-6
Varicella-zoster virus clade 5 LA27287-4
Varicella-zoster virus clade VI LA27288-2
Varicella-zoster virus clade VII LA27289-0
Unable to type LA27090-2
Inconclusive Copyright http://snomed.info/sct ID:419984006 Inconclusive (qualifier value) LA9663-1
Test not done Copyright http://snomed.info/sct ID:373121007 Test not done (qualifier value) LA18373-3
Variable LA18409-5

Basic Attributes

Class
MICRO
Type
Laboratory
First Released
Version 2.61
Last Updated
Version 2.69
Order vs. Observation
Both

Member of these Groups

LG32750-8 Varicella zoster virus

Language Variants Get Info

zh-CNChinese (China)
水痘带状疱疹病毒进化枝:类型:时间点:XXX:名义型:分子遗传学类实验室方法
nl-NLDutch (Netherlands)
varicella-zostervirus clade:type:moment:XXX:nominaal:moleculair genetisch onderzoek
fr-FRFrench (France)
Varicelle zona virus clade:Type:Ponctuel:Milieux divers:Résultat nominal:Biologie moléculaire
it-ITItalian (Italy)
Varicella zoster virus clade:Tipo:Pt:XXX:Nom:Molgen
es-MXSpanish (Mexico)
Clado del virus de la varicela zóster:Tipo:Punto temporal:XXX:Nominal:Genética molecular
es-ESSpanish (Spain)
Clados del virus de Varicela Zoster:Tipo:Punto temporal:XXX:Nom:Genética molecular

LOINC FHIR® API Example - CodeSystem Request Get Info

https://fhir.loinc.org/CodeSystem/$lookup?system=http://loinc.org&code=86509-7