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Emerg Infect Dis
. 2020 Nov 12;27(1).
doi: 10.3201/eid2701.203379. Online ahead of print.
Performance of Nucleic Acid Amplification Tests for Detection of Severe Acute Respiratory Syndrome Coronavirus 2 in Prospectively Pooled Specimens
Hannah Wang, Catherine A Hogan, Jacob A Miller, Malaya K Sahoo, ChunHong Huang, Kenji O Mfuh, Mamdouh Sibai, James Zehnder, Brendan Hickey, Nasa Sinnott-Armstrong, Benjamin A Pinsky
- PMID: 33183494
- DOI: 10.3201/eid2701.203379
Abstract
Pooled nucleic acid amplification tests for severe acute respiratory syndrome coronavirus 2 could increase availability of testing at decreased cost. However, the effect of dilution on analytical sensitivity through sample pooling has not been well characterized. We tested 1,648 prospectively pooled specimens by using 3 nucleic acid amplification tests for severe acute respiratory syndrome coronavirus 2: a laboratory-developed real-time reverse transcription PCR targeting the envelope gene, and 2 commercially available Panther System assays targeting open reading frame 1ab. Positive percent agreement (PPA) of pooled versus individual testing ranged from 71.7% to 82.6% for pools of 8 and from 82.9% to 100.0% for pools of 4. We developed and validated an independent stochastic simulation model to estimate effects of dilution on PPA and efficiency of a 2-stage pooled real-time reverse transcription PCR testing algorithm. PPA was dependent on the proportion of tests with positive results, cycle threshold distribution, and assay limit of detection.
Keywords: COVID-19; SARS-CoV-2; coronavirus disease; coronaviruses; diagnostic screening programs; nucleic acid amplification tests; performance; prospectively pooled specimens; respiratory infections; severe acute respiratory syndrome coronavirus 2; testing; virus; zoonoses.