From Delta to Omicron SARS-CoV-2 variant: Switch to saliva sampling for higher detection rate

Cornette, M; Decaesteker, Bieke; Martens, Guy; Vandecandelaere, Patricia; Jonckheere, Stijn

doi:10.1016/j.jcvp.2022.100090

Cited by 15 publications

(12 citation statements)

References 11 publications

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“…Our results, while corroborating NP swab as the gold-standard sample for SARS-CoV-2 Omicron screening ( 14 – 16 ), are in contrast with recent data showing a benefit of salivary samples for Omicron variant ( 12 , 17 , 18 ). Importantly, in those other studies, either the number of patients with the Omicron variant was not disclosed ( 12 ) or the sample size was too small to allow any statistical interpretation ( 17 ).…”

Section: Discussionsupporting

confidence: 63%

“…The optimal diagnostic strategy to detect Omicron variant remains yet unknown, and recent publications report conflicting results ( 11 , 12 ). While nasopharyngeal (NP) swabs have so far been considered the gold standard for severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) diagnosis ( 14 – 16 ), there is evidence in the literature suggesting that saliva sampling might outweigh NP swab for the diagnosis of the Omicron variant ( 12 , 17 , 18 ).…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Comparison of Nasopharyngeal and Saliva Swab Nucleic Acid Amplification and Rapid Antigen Testing To Detect Omicron SARS-CoV-2 Variant of Concern: a Prospective Clinical Trial (OMICRON)

et al. 2022

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Section: Discussionsupporting

confidence: 63%

Section: Introductionmentioning

confidence: 99%

Comparison of Nasopharyngeal and Saliva Swab Nucleic Acid Amplification and Rapid Antigen Testing To Detect Omicron SARS-CoV-2 Variant of Concern: a Prospective Clinical Trial (OMICRON)

et al. 2022

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“…Second, inadequate self-collection by ANS could result in a false negative, an issue that is far less encountered with saliva sampling. Third, variant-specific differences related to tissue tropism, as exemplified by the more recent Omicron variants which colonize upper airways and saliva more than lower respiratory and nasal cavities 47 , 48 .…”

Section: Discussionmentioning

confidence: 99%

A multiplexed, paired-pooled droplet digital PCR assay for detection of SARS-CoV-2 in saliva

Wagner

Fox

Gordon

et al. 2023

Sci Rep

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In response to the SARS-CoV-2 pandemic, we developed a multiplexed, paired-pool droplet digital PCR (MP4) screening assay. Key features of our assay are the use of minimally processed saliva, 8-sample paired pools, and reverse-transcription droplet digital PCR (RT-ddPCR) targeting the SARS-CoV-2 nucleocapsid gene. The limit of detection was determined to be 2 and 12 copies per µl for individual and pooled samples, respectively. Using the MP4 assay, we routinely processed over 1,000 samples a day with a 24-h turnaround time and over the course of 17 months, screened over 250,000 saliva samples. Modeling studies showed that the efficiency of 8-sample pools was reduced with increased viral prevalence and that this could be mitigated by using 4-sample pools. We also present a strategy for, and modeling data supporting, the creation of a third paired pool as an additional strategy to employ under high viral prevalence.

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“…Second, inadequate selfcollection by ANS could result in a false negative, an issue that is far less encountered with saliva sampling. Third, variant-speci c differences related to tissue tropism, as exempli ed by the more recent Omicron variants which colonize upper airways and saliva more than lower respiratory and nasal cavities 47,48 .…”

Section: Discussionmentioning

confidence: 99%

A multiplexed, paired-pooled droplet digital PCR assay for detection of SARS-CoV-2 in saliva

Wagner

Fox

Gordon

et al. 2023

Preprint

View full text Add to dashboard Cite

In response to the SARS-CoV-2 pandemic, we developed a multiplexed, paired-pool droplet digital PCR (MP4) screening assay. Key features of our assay are the use of minimally processed saliva, 8-sample paired pools, and reverse-transcription droplet digital PCR (RT-ddPCR) targeting the SARS-CoV-2 nucleocapsid gene. The limit of detection was determined to be 2 and 12 copies per µl for individual and pooled samples, respectively. Using the MP4 assay, we routinely processed over 1,000 samples a day with a 24-hour turnaround time and over the course of 17 months, screened over 250,000 saliva samples. Modeling studies showed that the efficiency of 8-sample pools was reduced with increased viral prevalence and that this could be mitigated by using 4-sample pools. We also present a strategy for, and modeling data supporting, the creation of a third paired pool as an additional strategy to employ under high viral prevalence.

show abstract

From Delta to Omicron SARS-CoV-2 variant: Switch to saliva sampling for higher detection rate

Cited by 15 publications

References 11 publications

Comparison of Nasopharyngeal and Saliva Swab Nucleic Acid Amplification and Rapid Antigen Testing To Detect Omicron SARS-CoV-2 Variant of Concern: a Prospective Clinical Trial (OMICRON)

Comparison of Nasopharyngeal and Saliva Swab Nucleic Acid Amplification and Rapid Antigen Testing To Detect Omicron SARS-CoV-2 Variant of Concern: a Prospective Clinical Trial (OMICRON)

A multiplexed, paired-pooled droplet digital PCR assay for detection of SARS-CoV-2 in saliva

A multiplexed, paired-pooled droplet digital PCR assay for detection of SARS-CoV-2 in saliva

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