SARS-CoV-2 molecular testing and whole genome sequencing following RNA recovery from used BinaxNOW COVID-19 Antigen Self Tests

Nguyen, Phuong-Vi; Carmola, Ludy Registre; Wang, Yuanxun Ethan; Bassit, Leda; Rao, Anuradha; Greenleaf, Morgan; Sullivan, Julie; Martin, Greg S.; Lam, Wilbur A.; Waggoner, Jesse J.; Piantadosi, Anne

doi:10.1101/2023.01.09.23284337

Cited by 1 publication

(2 citation statements)

References 22 publications

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“…The data analysis unveiled a dynamic panorama, showing the prevalence of Omicron BA.5, a sub-variant that emerged as a dominant force in the evolving viral landscape [22].…”

Section: Discussionmentioning

confidence: 96%

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The Suitability of RNA from Positive SARS-CoV-2 Rapid Antigen Tests for Whole Virus Genome Sequencing and Variant Identification to Maintain Genomic Surveillance

Cucina,

Contino,

Brunacci

et al. 2023

Diagnostics

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The COVID-19 pandemic has transformed laboratory management, with a surge in demand for diagnostic tests prompting the adoption of new diagnostic assays and the spread of variant surveillance tools. Rapid antigen tests (RATs) were initially used only for screening and later as suitable infection assessment tools. This study explores the feasibility of sequencing the SARS-CoV-2 genome from the residue of the nasopharyngeal swab extraction buffers of rapid antigen tests (RATs) to identify different COVID-19 lineages and sub-lineages. Methods: Viral RNA was extracted from the residue of the nasopharyngeal swab extraction buffers of RATs and, after a confirmation of positivity through a reaction of RT-PCR, viral genome sequencing was performed. Results: Overall, the quality of the sequences obtained from the RNA extracted from the residue of the nasopharyngeal swab extraction buffers of RATs was adequate and allowed us to identify the SARS-CoV-2 variants’ circulation and distribution in a period when the use of molecular swabs had been drastically reduced. Conclusions: This study demonstrates the potential for genomic surveillance by sequencing SARS-CoV-2 from the residue of the nasopharyngeal swab extraction buffers of RATs, highlighting alternative possibilities for tracking variants.

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“…The data analysis unveiled a dynamic panorama, showing the prevalence of Omicron BA.5, a sub-variant that emerged as a dominant force in the evolving viral landscape [22].…”

Section: Discussionmentioning

confidence: 96%

“…Previous works tested the possibility of recovering and sequencing viral RNA extracted from swabs or cassettes previously used for RATs by using a second buffer of extraction [22,23]. The same possibility was investigated by extracting the viral RNA directly from an excised part of the RAT strip [24].…”

Section: Introductionmentioning

confidence: 99%