| Literature DB >> 35019184 |
Ha Nui Kim1, Soo-Young Yoon1, Chae Seung Lim1, Jung Yoon1.
Abstract
BACKGROUND: Currently, SARS-CoV-2 RNA detection using real-time reverse-transcription PCR (rRT-PCR) is the standard diagnostic test for COVID-19 infection. Various rRT-PCR assays are currently used worldwide, targeting different genes of the SARS-CoV-2. Here, we compared the analytical sensitivity and clinical performance (sensitivity and specificity) of Allplex SARS-CoV-2/FluA/FluB/RSV assay (Seegene), Standard M nCoV real-time detection kit (SD Biosensor), and U-TOP COVID-19 detection kit (Seasun Biomaterials) for SARS-CoV-2 detection.Entities:
Keywords: COVID-19; PCR; SARS-CoV-2; performance evaluation
Mesh:
Substances:
Year: 2022 PMID: 35019184 PMCID: PMC8842162 DOI: 10.1002/jcla.24242
Source DB: PubMed Journal: J Clin Lab Anal ISSN: 0887-8013 Impact factor: 2.352
FIGURE 1Mean C values of the target genes for each rRT‐PCR assay were tested using serially diluted SARS‐CoV‐2 wild‐type RNA control (A) and SARS‐CoV‐2 B.1351 lineage RNA control (B)
FIGURE 2PCR efficiencies of nine target genes of three rRT‐PCR assays tested using SARS‐CoV‐2 wild‐type RNA control (A) and SARS‐CoV‐2 B.1351 lineage RNA control (B)
Detailed results of clinical samples analyzed using three rRT‐PCR assays
| Allplex SARS‐CoV‐2/FluA/FluB/RSV kit | Standard M nCoV real‐time detection kit | U‐TOP COVID‐19 detection kit | |
|---|---|---|---|
| Target genes |
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| Positive results | |||
| Any target genes | 90 | 89 | 88 |
| All target genes | 85 | 87 | 84 |
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| Negative results | 159 | 160 | 161 |
The positive results were defined the result of at least two of the three SARS‐CoV‐2 real‐time PCR assays.
C value and clinical performance comparison of each of the target genes for real‐time reverse‐transcription PCR assays
| Genes | Allplex SARS‐CoV‐2/FluA/FluB/RSV kit | Standard M nCoV real‐time detection kit | U‐TOP COVID‐19 detection kit | ||||||
|---|---|---|---|---|---|---|---|---|---|
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| C | 26.44 ± 6.94 | 26.52 ± 7.29 | 25.28 ± 6.72 | 25.76 ± 6.89 | 25.65 ± 6.71 | 27.62 ± 6.66 | 28.20 ± 6.49 | 28.34 ± 6.69 | 27.72 ± 6.53 |
| Sensitivity (95% CI) | 98.88 (93.90–99.97) | 97.75 (92.12–99.73) | 95.51 (88.89–98.76) | 100 (95.94–100) | 97.75 (92.12–99.73) | 97.75 (92.12–99.73) | 96.63 (90.46–99.30) | 94.38 (87.38–98.15) | 97.75 (92.12–99.73) |
| Specificity (95% CI) | 99.38 (96.57–99.98) | 100 (97.72–100) | 100 (97.72–100) | 100 (97.72–100) | 100 (97.72–100) | 100 (97.72–100) | 100 (97.72–100) | 100 (97.72–100) | 100 (97.72–100) |
The clinical performance was evaluated based on the reference standard results, which was defined by the consensus criterion.
Abbreviations: CI, confidence interval; C , cycle threshold; SD, standard deviation
FIGURE 3C value of the distribution of target genes of three real‐time reverse‐transcription PCRs when analyzing the clinical samples
Details of discordant clinical sample results
| Sample No. | Reference standard | Allplex SARS‐CoV‐2/FluA/FluB/RSV kit | Standard M nCoV real‐time detection kit | U‐TOP COVID‐19 detection kit | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Result |
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| 1 | Positive | Target detected | ND | 37.3 | ND | Target detected | 35.6 | ND | Target not detected | ≥38.0 | ≥38.0 | ND | ND |
| 2 | Positive | Target detected | 36.0 | 37.5 | 35.7 | Target detected | 35.7 | 34.1 | Target detected | 37.0 | ≥38.0 | ≥38.0 | 37.7 |
| 3 | Positive | Target detected | 35.8 | 36.6 | ND | Target detected | 34.0 | 34.4 | Target detected | 36.8 | 37.7 | ≥38.0 | ≥38.0 |
| 4 | Positive | Target detected | 35.5 | 36.7 | 34.5 | Target detected | 35.6 | 34.0 | Target detected | 35.9 | 36.6 | ND | 35.4 |
| 5 | Positive | Target detected | 36.5 | ND | ND | Target detected | 35.1 | 33.8 | Target detected | 36.0 | 37.0 | 37.6 | 36.1 |
| 6 | Negative | Target detected | 37.4 | ND | ND | Target not detected | ND | ND | Target not detected | ≥38.0 | ≥38.0 | ND | ≥38.0 |
Abbreviations: C , cycle threshold; ND, not detected.
Clinical performance comparison of the three rRT‐PCRs for detection of SARS‐CoV‐2
| SARS‐CoV‐2 PCR assays | Results according to reference standards | Sensitivity (95% CI) | Specificity (95% CI) | |||
|---|---|---|---|---|---|---|
| TP | FP | FN | TN | |||
| Allplex SARS‐CoV‐2/FluA/FluB/RSV kit | 89 | 1 | 0 | 159 | 100 (95.94–100) | 99.38 (96.57–99.98) |
| Standard M nCoV real‐time detection kit | 89 | 0 | 0 | 160 | 100 (95.94–100) | 100 (97.72–100) |
| U‐TOP COVID‐19 detection kit | 88 | 0 | 1 | 160 | 98.88 (93.90–99.97) | 100 (97.72–100) |
Abbreviations: CI, confidence interval; FN, false negative; FP, false positive; TN, true negative; TP, true positive.