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Abstract

Background

During the 2016/17 influenza season, influenza B/VIC lineage variant viruses emerged with two (KN) or three (KND) amino acid (aa) deletions in the haemagglutinin (HA) protein. There are currently five antigenically distinct HA proteins expressed by co-circulating influenza B viruses: B/YAM, B/VIC V1A (no deletion), B/VIC V1A-2DEL (2 aa deletion) and two antigenically distinguishable groups of B/VIC V1A-3DEL (3 aa deletion). The prevalence of these viruses differs across geographical regions, making it critical to have a sensitive, rapid diagnostic assay that detects and distinguishes these influenza B variant viruses during surveillance.

Aim

Our objective was to develop a real-time RT-PCR (rRT-PCR) assay for detection and discrimination of influenza B/VIC lineage variant viruses.

Methods

We designed a diagnostic assay with one pair of conserved primers and three probes specific to each genetic group. We used propagated influenza B/VIC variant viruses and clinical specimens to assess assay performance.

Results

This rRT-PCR assay detects and distinguishes the influenza B/VIC V1A, B/VIC V1A-2DEL, and B/VIC V1A-3DEL variant viruses, with no cross-reactivity. This assay can be run as a multiplex reaction, allowing for increased testing efficiency and reduced cost.

Conclusion

Coupling this assay with the Centers for Disease Control and Prevention’s Human Influenza Virus Real-Time RT-PCR Diagnostic Panel Influenza B Lineage Genotyping Kit results in rapid detection and characterisation of circulating influenza B viruses. Detailed surveillance information on these distinct influenza B variant viruses will provide insight into their prevalence and geographical distribution and could aid in vaccine recommendations.

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A corrected article has been published for this content:
Erratum for Euro Surveill. 2020;25(41)
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2020-10-15
2024-11-21
http://instance.metastore.ingenta.com/content/10.2807/1560-7917.ES.2020.25.41.1900652
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References

  1. Yamashita M, Krystal M, Fitch WM, Palese P. Influenza B virus evolution: co-circulating lineages and comparison of evolutionary pattern with those of influenza A and C viruses. Virology. 1988;163(1):112-22.  https://doi.org/10.1016/0042-6822(88)90238-3  PMID: 3267218 
  2. McCullers JA, Saito T, Iverson AR. Multiple genotypes of influenza B virus circulated between 1979 and 2003. J Virol. 2004;78(23):12817-28.  https://doi.org/10.1128/JVI.78.23.12817-12828.2004  PMID: 15542634 
  3. Houser K, Subbarao K. Influenza vaccines: challenges and solutions. Cell Host Microbe. 2015;17(3):295-300.  https://doi.org/10.1016/j.chom.2015.02.012  PMID: 25766291 
  4. Bennett J, Dolin R, Blaser MJ. Mandell, Douglas, and Bennett’s principles and practices of infectious diseases. 8th edition. Philadelphia: Elsevier; 2016.
  5. Rota PA, Wallis TR, Harmon MW, Rota JS, Kendal AP, Nerome K. Cocirculation of two distinct evolutionary lineages of influenza type B virus since 1983. Virology. 1990;175(1):59-68.  https://doi.org/10.1016/0042-6822(90)90186-U  PMID: 2309452 
  6. Blanton L, Alabi N, Mustaquim D, Taylor C, Kniss K, Kramer N, et al. Update: influenza activity in the United States during the 2016-17 season and composition of the 2017-18 influenza vaccine. MMWR Morb Mortal Wkly Rep. 2017;66(25):668-76.  https://doi.org/10.15585/mmwr.mm6625a3  PMID: 28662019 
  7. World Health Organization (WHO). Recommended composition of influenza virus vaccines for use in the 2018-2019 northern hemisphere influenza season. Geneva: WHO; 2018. Available from: http://www.who.int/influenza/vaccines/virus/recommendations/201802_recommendation.pdf
  8. World Health Organization (WHO). Recommended composition of influenza virus vaccines for use in the 2019-2020 northern hemisphere influenza season. Geneva: WHO; 2019. Available from: https://www.who.int/influenza/vaccines/virus/recommendations/2019_20_north/en/
  9. Shaw ML. PPO, In: Knipe DM H, PM, eds. Fields virology, 6th edition. Philadelphia: Lippincott Williams and Wilkins; 2013:1151-84.
  10. Ambrose CS, Levin MJ. The rationale for quadrivalent influenza vaccines. Hum Vaccin Immunother. 2012;8(1):81-8.  https://doi.org/10.4161/hv.8.1.17623  PMID: 22252006 
  11. Lau H, Deng YM, Xu X, Sessions W, Barr IG. Rapid detection of new B/Victoria-lineage haemagglutinin variants of influenza B viruses by pyrosequencing. Diagn Microbiol Infect Dis. 2019;93(4):311-7.  https://doi.org/10.1016/j.diagmicrobio.2018.11.003  PMID: 30528425 
  12. Chan WM, Wong LH, So CF, Chen LL, Wu WL, Ip JD, et al. Development and evaluation of a conventional RT-PCR for differentiating emerging influenza B/Victoria lineage viruses with hemagglutinin amino acid deletion from B/Yamagata lineage viruses. J Med Virol. 2020;92(3):382-5.  https://doi.org/10.1002/jmv.25607  PMID: 31608480 
  13. Szretter KJ, Balish AL, Katz JM. Influenza: propagation, quantification, and storage. Curr Protoc Microbiol. 2006;Chapter 15:Unit 15G 1.
  14. Reed LJ, Muench H. A simple method of estimating fifty percent endpoints. Am J Hyg. 1938;27:493-7.
  15. Kendal AP, Cate TR. Increased sensitivity and reduced specificity of hemagglutination inhibition tests with ether-treated influenza B/Singapore/222/79. J Clin Microbiol. 1983;18(4):930-4.  https://doi.org/10.1128/JCM.18.4.930-934.1983  PMID: 6630472 
  16. Shu B, Wu KH, Emery S, Villanueva J, Johnson R, Guthrie E, et al. Design and performance of the CDC real-time reverse transcriptase PCR swine flu panel for detection of 2009 A (H1N1) pandemic influenza virus. J Clin Microbiol. 2011;49(7):2614-9.  https://doi.org/10.1128/JCM.02636-10  PMID: 21593260 
  17. Ballantyne KN, van Oorschot RA, Mitchell RJ. Locked nucleic acids in PCR primers increase sensitivity and performance. Genomics. 2008;91(3):301-5.  https://doi.org/10.1016/j.ygeno.2007.10.016  PMID: 18164179 
  18. You Y, Moreira BG, Behlke MA, Owczarzy R. Design of LNA probes that improve mismatch discrimination. Nucleic Acids Res. 2006;34(8):e60.  https://doi.org/10.1093/nar/gkl175  PMID: 16670427 
  19. US Food and Drug Administration. CDC Human Influenza Virus Real-time RT-PCR Diagnostic Panel: Influenza A/B Typing Kit, Influenza A Subtyping Kit (VER 2), Influenza B Lineage Genotyping Kit (VER 1.1 and VER 2), Influenza A/H5 Subtyping Kit (VER 3). Atlanta: Centers for Disease Control and Prevention; 2019. Available from: https://www.accessdata.fda.gov/cdrh_docs/pdf19/K190302.pdf
  20. Centers for Disease Control and Prevention (CDC). Centers for Disease Control and Prevention human influenza virus real-time RT-PCR detection and characterization pane. Atlanta: CDC; 2008. Available from: https://www.accessdata.fda.gov/cdrh_docs/pdf8/k080570.pdf
  21. Sowers BA, Messenger VE, Cook RM. Genotyping with BHQplusTM fortified probes achieve powerful discrimination. Palo Alto, CA: qPCR Symposium. 2007. Available from: https://biosearchassets.blob.core.windows.net/assets/bti_BHQplus_Genotyping.pdf
  22. Chow EJ, Davis CT, Abd Elal AI, Alabi N, Azziz-Baumgartner E, Barnes J, et al. Update: influenza activity - United States and worldwide, May 20-October 13, 2018. MMWR Morb Mortal Wkly Rep. 2018;67(42):1178-85.  https://doi.org/10.15585/mmwr.mm6742a3  PMID: 30359347 
  23. Xiang Z, Wan R, Zou B, Qi X, Huang Q, Kumar S, et al. Highly sensitive and specific real-time PCR by employing serial invasive reaction as a sequence identifier for quantifying EGFR mutation abundance in cfDNA. Anal Bioanal Chem. 2018;410(26):6751-9.  https://doi.org/10.1007/s00216-018-1316-z  PMID: 30128808 
  24. Khot PD, Fredricks DN. PCR-based diagnosis of human fungal infections. Expert Rev Anti Infect Ther. 2009;7(10):1201-21.  https://doi.org/10.1586/eri.09.104  PMID: 19968513 
Detection and discrimination of influenza B Victoria lineage deletion variant viruses by real-time RT-PCR
<p class="citation"> <span>Citation style for this article:</span> <span class="meta-value authors"> <a href="/search?value1=Bo+Shu&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Shu Bo</a>, <a href="/search?value1=Marie+K+Kirby&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Kirby Marie K</a>, <a href="/search?value1=Christine+Warnes&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Warnes Christine</a>, <a href="/search?value1=Wendy+M+Sessions&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Sessions Wendy M</a>, <a href="/search?value1=William+G+Davis&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Davis William G</a>, <a href="/search?value1=Ji+Liu&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Liu Ji</a>, <a href="/search?value1=Malania+M+Wilson&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Wilson Malania M</a>, <a href="/search?value1=Stephen+Lindstrom&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Lindstrom Stephen</a>, <a href="/search?value1=David+E+Wentworth&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Wentworth David E</a>, <a href="/search?value1=John+R+Barnes&option1=author&noRedirect=true" class="nonDisambigAuthorLink">Barnes John R</a></span>. Detection and discrimination of influenza B Victoria lineage deletion variant viruses by real-time RT-PCR. <a href="/content/ecdc">Euro Surveill.</a> 2020;25(41):pii=1900652. <a href="https://doi.org/10.2807/1560-7917.ES.2020.25.41.1900652" title="doi link" target="_blank">https://doi.org/10.2807/1560-7917.ES.2020.25.41.1900652</a> <span class="ES_Article_citation"> <span class="generated">Received</span>: 24 Oct 2019;&nbsp;&nbsp; <span class="generated">Accepted</span>: 15 Apr 2020 </span> </p>
/content/10.2807/1560-7917.ES.2020.25.41.1900652
/content/10.2807/1560-7917.ES.2020.25.41.1900652
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