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Abstract

When SARS-CoV-2 Omicron emerged in 2021, S gene target failure enabled differentiation between Omicron and the dominant Delta variant. In England, where S gene target surveillance (SGTS) was already established, this led to rapid identification (within ca 3 days of sample collection) of possible Omicron cases, alongside real-time surveillance and modelling of Omicron growth. SGTS was key to public health action (including case identification and incident management), and we share applied insights on how and when to use SGTS.

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/content/10.2807/1560-7917.ES.2022.27.11.2200143
2022-03-17
2024-12-22
/content/10.2807/1560-7917.ES.2022.27.11.2200143
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Enhancing epidemiological surveillance of the emergence of the SARS-CoV-2 Omicron variant using spike gene target failure data, England, 15 November to 31 December 2021
<p class="citation"> <span>Citation style for this article:</span> <span class="meta-value authors"> <a href="/search?value1=Paula+B+Blomquist&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Blomquist Paula B</a>, <a href="/search?value1=Jessica+Bridgen&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Bridgen Jessica</a>, <a href="/search?value1=Neil+Bray&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Bray Neil</a>, <a href="/search?value1=Anne+Marie+O%E2%80%99Connell&option1=author&noRedirect=true" class="nonDisambigAuthorLink">O’Connell Anne Marie</a>, <a href="/search?value1=Daniel+West&option1=author&noRedirect=true" class="nonDisambigAuthorLink">West Daniel</a>, <a href="/search?value1=Natalie+Groves&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Groves Natalie</a>, <a href="/search?value1=Eileen+Gallagher&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Gallagher Eileen</a>, <a href="/search?value1=Lara+Utsi&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Utsi Lara</a>, <a href="/search?value1=Christopher+I+Jarvis&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Jarvis Christopher I</a>, <a href="/search?value1=Jo+L+Hardstaff&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Hardstaff Jo L</a>, <a href="/search?value1=Chloe+Byers&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Byers Chloe</a>, <a href="/search?value1=Soeren+Metelmann&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Metelmann Soeren</a>, <a href="/search?value1=David+Simons&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Simons David</a>, <a href="/search?value1=Asad+Zaidi&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Zaidi Asad</a>, <a href="/search?value1=Katherine+A+Twohig&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Twohig Katherine A</a>, <a href="/search?value1=Bethan+Savagar&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Savagar Bethan</a>, <a href="/search?value1=Alessandra+L%C3%B8chen&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Løchen Alessandra</a>, <a href="/search?value1=Cian+Ryan&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Ryan Cian</a>, <a href="/search?value1=Katie+Wrenn&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Wrenn Katie</a>, <a href="/search?value1=Mar%C3%ADa+Saavedra-Campos&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Saavedra-Campos María</a>, <a href="/search?value1=Zahidul+Abedin&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Abedin Zahidul</a>, <a href="/search?value1=Isaac+Florence&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Florence Isaac</a>, <a href="/search?value1=Paul+Cleary&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Cleary Paul</a>, <a href="/search?value1=Richard+Elson&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Elson Richard</a>, <a href="/search?value1=Roberto+Vivancos&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Vivancos Roberto</a>, <a href="/search?value1=Iain+R+Lake&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Lake Iain R</a></span>. Enhancing epidemiological surveillance of the emergence of the SARS-CoV-2 Omicron variant using spike gene target failure data, England, 15 November to 31 December 2021. <a href="/content/ecdc">Euro Surveill.</a> 2022;27(11):pii=2200143. <a href="https://doi.org/10.2807/1560-7917.ES.2022.27.11.2200143" title="doi link" target="_blank">https://doi.org/10.2807/1560-7917.ES.2022.27.11.2200143</a> <span class="ES_Article_citation"> <span class="generated">Received</span>: 09 Feb 2022;&nbsp;&nbsp; <span class="generated">Accepted</span>: 17 Mar 2022 </span> </p>
/content/10.2807/1560-7917.ES.2022.27.11.2200143
/content/10.2807/1560-7917.ES.2022.27.11.2200143
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