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Diagnostic performance of RT-PCR-based sample pooling strategy for the detection of SARS-CoV-2.
Hueda-Zavaleta, Miguel; Copaja-Corzo, Cesar; Benites-Zapata, Vicente A; Cardenas-Rueda, Pedro; Maguiña, Jorge L; Rodríguez-Morales, Alfonso J.
  • Hueda-Zavaleta M; Faculty of Health Sciences, Universidad Privada de Tacna, Tacna, 23003, Peru. mighueda@virtual.upt.pe.
  • Copaja-Corzo C; Hospital III Daniel Alcides Carrión EsSalud, Tacna, 23000, Peru. mighueda@virtual.upt.pe.
  • Benites-Zapata VA; Faculty of Health Sciences, Universidad Privada de Tacna, Tacna, 23003, Peru.
  • Cardenas-Rueda P; Unidad de Investigación para la Generación y Síntesis de Evidencias en Salud, Universidad San Ignacio de Loyola, Lima, 15024, Peru.
  • Maguiña JL; Faculty of Health Sciences, Universidad Privada de Tacna, Tacna, 23003, Peru.
  • Rodríguez-Morales AJ; Facultad de Ciencias de la Salud, Universidad Científica del Sur, Lima, 15024, Peru.
Ann Clin Microbiol Antimicrob ; 21(1): 11, 2022 Mar 14.
Article in English | MEDLINE | ID: covidwho-1741944
ABSTRACT

BACKGROUND:

The rapid spread of SARS-CoV-2 has created a shortage of supplies of reagents for its detection throughout the world, especially in Latin America. The pooling of samples consists of combining individual patient samples in a block and analyzing the group as a particular sample. This strategy has been shown to reduce the burden of laboratory material and logistical resources by up to 80%. Therefore, we aimed to evaluate the diagnostic performance of the pool of samples analyzed by RT-PCR to detect SARS-CoV-2.

METHODS:

A cross-sectional study of diagnostic tests was carried out. We individually evaluated 420 samples, and 42 clusters were formed, each one with ten samples. These clusters could contain 0, 1 or 2 positive samples to simulate a positivity of 0, 10 and 20%, respectively. RT-PCR analyzed the groups for the detection of SARS-CoV-2. The area under the ROC curve (AUC), the Youden index, the global and subgroup sensitivity and specificity were calculated according to their Ct values that were classified as high (H ≤ 25), moderate (M 26-30) and low (L 31-35) concentration of viral RNA.

RESULTS:

From a total of 42 pools, 41 (97.6%) obtained the same result as the samples they contained (positive or negative). The AUC for pooling, Youden index, sensitivity, and specificity were 0.98 (95% CI, 0.95-1); 0.97 (95% CI, 0.90-1.03); 96.67% (95% CI; 88.58-100%) and 100% (95% CI; 95.83-100%) respectively. In the stratified analysis of the pools containing samples with Ct ≤ 25, the sensitivity was 100% (95% CI; 90-100%), while with the pools containing samples with Ct ≥ 31, the sensitivity was 80% (95% CI, 34.94-100%). Finally, a higher median was observed in the Ct of the clusters, with respect to the individual samples (p < 0.001).

CONCLUSIONS:

The strategy of pooling nasopharyngeal swab samples for analysis by SARS-CoV-2 RT-PCR showed high diagnostic performance.
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Full text: Available Collection: International databases Database: MEDLINE Main subject: SARS-CoV-2 / COVID-19 Type of study: Diagnostic study / Prevalence study / Prognostic study / Randomized controlled trials / Risk factors Limits: Humans Language: English Journal: Ann Clin Microbiol Antimicrob Journal subject: Microbiology / Drug Therapy Year: 2022 Document Type: Article Affiliation country: S12941-022-00501-x

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Full text: Available Collection: International databases Database: MEDLINE Main subject: SARS-CoV-2 / COVID-19 Type of study: Diagnostic study / Prevalence study / Prognostic study / Randomized controlled trials / Risk factors Limits: Humans Language: English Journal: Ann Clin Microbiol Antimicrob Journal subject: Microbiology / Drug Therapy Year: 2022 Document Type: Article Affiliation country: S12941-022-00501-x