Development of a One-Step Real-Time TaqMan Reverse Transcription Polymerase Chain Reaction (RT-PCR) Assay for the Detection of the Novel Variant Infectious Bursal Disease Virus (nVarIBDV) Circulating in China
Abstract
:1. Introduction
2. Materials and Methods
2.1. Virus Strains
2.2. Primer and Probe Designs
2.3. Viral RNA Extraction and Reverse Transcription
2.4. Construction of a Positive Plasmid Standard
2.5. Establishment of the One-Step Real-Time TaqMan RT-PCR Method
2.6. Determination of Specificity of Primers and Probe Sets
2.7. Assay Detection Limit
2.8. Clinical Sample Testing
3. Results
3.1. Feasibility of the One-Step Real-Time TaqMan RT-PCR Method
3.2. Specificity of the One-Step Real-Time TaqMan RT-PCR Method
3.3. Sensitivity of the One-Step Real-Time TaqMan RT-PCR Method
3.4. Analysis of the Clinical Samples Using the One-Step Real-Time TaqMan RT-PCR Method
4. Discussion
5. Conclusions
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Conflicts of Interest
References
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Ratios of nVarIBDV to Non-nVarIBDV Templates (Copies/Reaction) | Cq FAM | Cq VIC |
---|---|---|
105:107 | 14.07 | 18.94 |
105:106 | 18.53 | 21.04 |
105:105 | 20.56 | 21.01 |
105:104 | 23.33 | 20.87 |
105:103 | Negative | 20.50 |
105:102 | Negative | 21.07 |
0:107 | 14.06 | Negative |
0:106 | 16.49 | Negative |
0:105 | 20.44 | Negative |
0:104 | 23.41 | Negative |
0:103 | 27.60 | Negative |
0:102 | 31.04 | Negative |
107:105 | 26.77 | 14.08 |
106:105 | 21.65 | 18.07 |
105:105 | 21.13 | 21.47 |
104:105 | 20.98 | 24.33 |
103:105 | 21.57 | Negative |
102:105 | 20.81 | Negative |
107:0 | Negative | 14.58 |
106:0 | Negative | 16.78 |
105:0 | Negative | 20.32 |
104:0 | Negative | 23.53 |
103:0 | Negative | 27.66 |
102:0 | Negative | 31.95 |
Sample No. | One-Step Real-Time TaqMan RT-PCR | RT-PCR for vp5 Gene | HVRs of vp2 Gene | |
---|---|---|---|---|
FAM Cq | VIC Cq | |||
S1 | negative | 20.23 | positive | nVarIBDV |
S2 | 28.39 | negative | positive | non-nVarIBDV |
S3 | 29.95 | negative | positive | N.D. |
S4 | 32.25 | negative | positive | N.D. |
S5 | 27.83 | negative | positive | non-nVarIBDV |
S6 | 25.44 | negative | positive | non-nVarIBDV |
S7 | 29.95 | negative | positive | N.D. |
S8 | 24.01 | negative | positive | non-nVarIBDV |
S9 | 26.63 | negative | positive | non-nVarIBDV |
S10 | 27.22 | negative | positive | non-nVarIBDV |
S11 | 25.54 | negative | positive | non-nVarIBDV |
S12 | 28.67 | negative | positive | N.D. |
S13 | negative | 22.28 | positive | nVarIBDV |
S14 | 26.62 | negative | positive | non-nVarIBDV |
S15 | 29.11 | negative | positive | N.D. |
S16 | 27.55 | negative | positive | non-nVarIBDV |
S17 | 26.71 | negative | positive | non-nVarIBDV |
S18 | 28.95 | negative | positive | N.D. |
S19 | 30.13 | negative | positive | N.D. |
S20 | 25.46 | negative | positive | non-nVarIBDV |
S21 | 27.02 | negative | positive | non-nVarIBDV |
S22 | 25.18 | negative | positive | non-nVarIBDV |
S23 | 22.93 | negative | positive | non-nVarIBDV |
S24 | 27.36 | negative | positive | non-nVarIBDV |
S25 | negative | 23.39 | positive | nVarIBDV |
S26 | 26.49 | negative | positive | non-nVarIBDV |
S27 | 28.16 | negative | positive | non-nVarIBDV |
S28 | 25.77 | negative | positive | non-nVarIBDV |
S29 | 26.32 | negative | positive | non-nVarIBDV |
S30 | 29.15 | negative | positive | N.D. |
S31 | 27.03 | 29.80 | positive | non-nVarIBDV |
S32 | 21.43 | negative | positive | non-nVarIBDV |
S33 | 25.75 | negative | positive | non-nVarIBDV |
S34 | 23.13 | negative | positive | non-nVarIBDV |
S35 | negative | 22.59 | positive | nVarIBDV |
S36 | 29.10 | negative | positive | N.D. |
S37 | 26.70 | negative | positive | non-nVarIBDV |
S38 | 30.75 | negative | positive | N.D. |
S39 | 26.60 | negative | positive | non-nVarIBDV |
S40 | 29.02 | negative | positive | N.D. |
S41 | 23.34 | negative | positive | non-nVarIBDV |
S42 | 29.06 | negative | positive | N.D. |
S43 | 22.77 | negative | positive | non-nVarIBDV |
S44 | 26.68 | negative | positive | non-nVarIBDV |
S45 | negative | 26.02 | positive | nVarIBDV |
S46 | 26.33 | negative | positive | non-nVarIBDV |
S47 | 27.21 | negative | positive | non-nVarIBDV |
S48 | 25.83 | negative | positive | non-nVarIBDV |
S49 | 25.96 | negative | positive | non-nVarIBDV |
S50 | negative | 15.19 | positive | nVarIBDV |
S51 | negative | 14.33 | positive | nVarIBDV |
S52 | 22.24 | negative | positive | non-nVarIBDV |
S53 | negative | 11.37 | positive | nVarIBDV |
S54 | negative | 21.53 | positive | nVarIBDV |
S55 | negative | 18.45 | positive | nVarIBDV |
S56 | 27.71 | negative | positive | non-nVarIBDV |
S57 | 32.14 | 29.23 | positive | N.D. |
S58 | negative | 16.56 | positive | nVarIBDV |
S59 | 24.82 | negative | positive | non-nVarIBDV |
S60 | negative | 21.17 | positive | nVarIBDV |
S61 | 23.13 | negative | positive | non-nVarIBDV |
S62 | 25.93 | negative | positive | non-nVarIBDV |
S63 | 26.15 | negative | positive | non-nVarIBDV |
S64 | 28.01 | negative | positive | non-nVarIBDV |
S65 | negative | 25.05 | positive | nVarIBDV |
S66 | 27.97 | negative | positive | non-nVarIBDV |
S67 | 27.44 | negative | positive | non-nVarIBDV |
S68 | 31.07 | negative | positive | N.D. |
S69 | 24.90 | negative | positive | non-nVarIBDV |
S70 | negative | 23.50 | positive | nVarIBDV |
S71 | 26.68 | negative | positive | non-nVarIBDV |
S72 | 26.96 | negative | positive | non-nVarIBDV |
S73 | 25.34 | negative | positive | non-nVarIBDV |
S74 | 26.65 | negative | positive | non-nVarIBDV |
S75 | 26.49 | negative | positive | non-nVarIBDV |
S76 | 29.37 | negative | positive | N.D. |
S77 | 25.38 | negative | positive | non-nVarIBDV |
S78 | 28.48 | negative | positive | N.D. |
S79 | negative | 18.21 | positive | nVarIBDV |
S80 | negative | 18.58 | positive | nVarIBDV |
S81 | 27.61 | negative | positive | non-nVarIBDV |
S82 | 25.41 | negative | positive | non-nVarIBDV |
S83 | 26.81 | negative | positive | non-nVarIBDV |
S84 | negative | 21.48 | positive | nVarIBDV |
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Wang, C.; Hou, B.; Shao, G.; Wan, C. Development of a One-Step Real-Time TaqMan Reverse Transcription Polymerase Chain Reaction (RT-PCR) Assay for the Detection of the Novel Variant Infectious Bursal Disease Virus (nVarIBDV) Circulating in China. Viruses 2023, 15, 1453. https://doi.org/10.3390/v15071453
Wang C, Hou B, Shao G, Wan C. Development of a One-Step Real-Time TaqMan Reverse Transcription Polymerase Chain Reaction (RT-PCR) Assay for the Detection of the Novel Variant Infectious Bursal Disease Virus (nVarIBDV) Circulating in China. Viruses. 2023; 15(7):1453. https://doi.org/10.3390/v15071453
Chicago/Turabian StyleWang, Chenyan, Bo Hou, Guoqing Shao, and Chunhe Wan. 2023. "Development of a One-Step Real-Time TaqMan Reverse Transcription Polymerase Chain Reaction (RT-PCR) Assay for the Detection of the Novel Variant Infectious Bursal Disease Virus (nVarIBDV) Circulating in China" Viruses 15, no. 7: 1453. https://doi.org/10.3390/v15071453
APA StyleWang, C., Hou, B., Shao, G., & Wan, C. (2023). Development of a One-Step Real-Time TaqMan Reverse Transcription Polymerase Chain Reaction (RT-PCR) Assay for the Detection of the Novel Variant Infectious Bursal Disease Virus (nVarIBDV) Circulating in China. Viruses, 15(7), 1453. https://doi.org/10.3390/v15071453