Endemic SARS-CoV-2 Polymorphisms Can Cause a Higher Diagnostic Target Failure Rate than Estimated by Aggregate Global Sequencing Data

doi:10.1128/JCM.00913-21

. 2021 Jul 19;59(8):e0091321.

doi: 10.1128/JCM.00913-21. Epub 2021 Jul 19.

Endemic SARS-CoV-2 Polymorphisms Can Cause a Higher Diagnostic Target Failure Rate than Estimated by Aggregate Global Sequencing Data

Affiliations

PMID: 33972454
PMCID: PMC8288267
DOI: 10.1128/JCM.00913-21

Endemic SARS-CoV-2 Polymorphisms Can Cause a Higher Diagnostic Target Failure Rate than Estimated by Aggregate Global Sequencing Data

Daniel D Rhoads et al. J Clin Microbiol. 2021.

. 2021 Jul 19;59(8):e0091321.

doi: 10.1128/JCM.00913-21. Epub 2021 Jul 19.

Affiliations

¹ Pathology and Laboratory Medicine Institute, Cleveland Clinic, Cleveland, Ohio, USA.
² Cepheid, Sunnyvale, California, USA.

PMID: 33972454
PMCID: PMC8288267
DOI: 10.1128/JCM.00913-21

No abstract available

Keywords: PCR; SARS-CoV-2; mutation; nucleocapsid gene; variant.

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References

1. Artesi M, Bontems S, Göbbels P, Franckh M, Maes P, Boreux R, Meex C, Melin P, Hayette MP, Bours V, Durkin K. 2020. A recurrent mutation at position 26340 of SARS-CoV-2 is associated with failure of the E gene quantitative reverse transcription-PCR utilized in a commercial dual-target diagnostic assay. J Clin Microbiol 58:e01598-20. doi:10.1128/JCM.01598-20. - DOI - PMC - PubMed
1. Bal A, Destras G, Gaymard A, Stefic K, Marlet J, Eymieux S, Regue H, Semanas Q, d’Aubarede C, Billaud G, Laurent F, Gonzalez C, Mekki Y, Valette M, Bouscambert M, Gaudy-Graffin C, Lina B, Morfin F, Josset L, COVID-Diagnosis HCL Study Group. 2021. Two-step strategy for the identification of SARS-CoV-2 variant of concern 202012/01 and other variants with spike deletion H69-V70, France, August to December 2020. Euro Surveill 26:2100008. doi:10.2807/1560-7917.ES.2021.26.3.2100008. - DOI - PMC - PubMed
1. Brown KA, Gubbay J, Hopkins J, Patel S, Buchan SA, Daneman N, Goneau LW. 2021. S-gene target failure as a marker of variant B.1.1.7 among SARS-CoV-2 isolates in the Greater Toronto Area, December 2020 to March 2021. JAMA doi:10.1001/jama.2021.5607. - DOI - PMC - PubMed
1. Hasan MR, Sundararaju S, Manickam C, Mirza F, Al-Hail H, Lorenz S, Tang P. 2021. A novel point mutation in the N gene of SARS-CoV-2 may affect the detection of the virus by reverse transcription-quantitative PCR. J Clin Microbiol 59:e03278-20. doi:10.1128/JCM.03278-20. - DOI - PMC - PubMed
1. Ziegler K, Steininger P, Ziegler R, Steinmann J, Korn K, Ensser A. 2020. SARS-CoV-2 samples may escape detection because of a single point mutation in the N gene. Euro Surveill 25:2001650. doi:10.2807/1560-7917.ES.2020.25.39.2001650. - DOI - PMC - PubMed

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[1] Artesi M, Bontems S, Göbbels P, Franckh M, Maes P, Boreux R, Meex C, Melin P, Hayette MP, Bours V, Durkin K. 2020. A recurrent mutation at position 26340 of SARS-CoV-2 is associated with failure of the E gene quantitative reverse transcription-PCR utilized in a commercial dual-target diagnostic assay. J Clin Microbiol 58:e01598-20. doi:10.1128/JCM.01598-20. - DOI - PMC - PubMed

[2] Artesi M, Bontems S, Göbbels P, Franckh M, Maes P, Boreux R, Meex C, Melin P, Hayette MP, Bours V, Durkin K. 2020. A recurrent mutation at position 26340 of SARS-CoV-2 is associated with failure of the E gene quantitative reverse transcription-PCR utilized in a commercial dual-target diagnostic assay. J Clin Microbiol 58:e01598-20. doi:10.1128/JCM.01598-20. - DOI - PMC - PubMed

[3] Bal A, Destras G, Gaymard A, Stefic K, Marlet J, Eymieux S, Regue H, Semanas Q, d’Aubarede C, Billaud G, Laurent F, Gonzalez C, Mekki Y, Valette M, Bouscambert M, Gaudy-Graffin C, Lina B, Morfin F, Josset L, COVID-Diagnosis HCL Study Group. 2021. Two-step strategy for the identification of SARS-CoV-2 variant of concern 202012/01 and other variants with spike deletion H69-V70, France, August to December 2020. Euro Surveill 26:2100008. doi:10.2807/1560-7917.ES.2021.26.3.2100008. - DOI - PMC - PubMed

[4] Bal A, Destras G, Gaymard A, Stefic K, Marlet J, Eymieux S, Regue H, Semanas Q, d’Aubarede C, Billaud G, Laurent F, Gonzalez C, Mekki Y, Valette M, Bouscambert M, Gaudy-Graffin C, Lina B, Morfin F, Josset L, COVID-Diagnosis HCL Study Group. 2021. Two-step strategy for the identification of SARS-CoV-2 variant of concern 202012/01 and other variants with spike deletion H69-V70, France, August to December 2020. Euro Surveill 26:2100008. doi:10.2807/1560-7917.ES.2021.26.3.2100008. - DOI - PMC - PubMed

[5] Brown KA, Gubbay J, Hopkins J, Patel S, Buchan SA, Daneman N, Goneau LW. 2021. S-gene target failure as a marker of variant B.1.1.7 among SARS-CoV-2 isolates in the Greater Toronto Area, December 2020 to March 2021. JAMA doi:10.1001/jama.2021.5607. - DOI - PMC - PubMed

[6] Brown KA, Gubbay J, Hopkins J, Patel S, Buchan SA, Daneman N, Goneau LW. 2021. S-gene target failure as a marker of variant B.1.1.7 among SARS-CoV-2 isolates in the Greater Toronto Area, December 2020 to March 2021. JAMA doi:10.1001/jama.2021.5607. - DOI - PMC - PubMed

[7] Hasan MR, Sundararaju S, Manickam C, Mirza F, Al-Hail H, Lorenz S, Tang P. 2021. A novel point mutation in the N gene of SARS-CoV-2 may affect the detection of the virus by reverse transcription-quantitative PCR. J Clin Microbiol 59:e03278-20. doi:10.1128/JCM.03278-20. - DOI - PMC - PubMed

[8] Hasan MR, Sundararaju S, Manickam C, Mirza F, Al-Hail H, Lorenz S, Tang P. 2021. A novel point mutation in the N gene of SARS-CoV-2 may affect the detection of the virus by reverse transcription-quantitative PCR. J Clin Microbiol 59:e03278-20. doi:10.1128/JCM.03278-20. - DOI - PMC - PubMed

[9] Ziegler K, Steininger P, Ziegler R, Steinmann J, Korn K, Ensser A. 2020. SARS-CoV-2 samples may escape detection because of a single point mutation in the N gene. Euro Surveill 25:2001650. doi:10.2807/1560-7917.ES.2020.25.39.2001650. - DOI - PMC - PubMed

[10] Ziegler K, Steininger P, Ziegler R, Steinmann J, Korn K, Ensser A. 2020. SARS-CoV-2 samples may escape detection because of a single point mutation in the N gene. Euro Surveill 25:2001650. doi:10.2807/1560-7917.ES.2020.25.39.2001650. - DOI - PMC - PubMed

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Endemic SARS-CoV-2 Polymorphisms Can Cause a Higher Diagnostic Target Failure Rate than Estimated by Aggregate Global Sequencing Data

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Endemic SARS-CoV-2 Polymorphisms Can Cause a Higher Diagnostic Target Failure Rate than Estimated by Aggregate Global Sequencing Data

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