Performance of Targeted Library Preparation Solutions for SARS-CoV-2 Whole Genome Analysis
Abstract
:1. Introduction
2. Materials and Methods
2.1. Samples
2.2. Controls Generation
2.3. Calculation of Ct for Samples and Controls
2.4. NGS Library Preparation
2.4.1. Library Preparation—1st Attempt NEB+TWIST (NEB+TWIST1)
2.4.2. Library Preparation—2nd Attempt NEB+TWIST (NEB+TWIST2)
2.4.3. Library Preparation—Illumina
2.4.4. Library Preparation—Paragon
2.5. Sequencing
2.6. Reference Mapping and Bioinformatic Analysis
3. Results and Discussion
3.1. NEB+Twist Workflow
3.2. Illumina Workflow
3.3. Paragon Workflow
3.4. Data Analysis
4. Conclusions
Supplementary Materials
Author Contributions
Funding
Acknowledgments
Conflicts of Interest
References
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Position | Twist1 | Coverage | Twist2 | Coverage | Illumina | Coverage | Paragon | Coverage |
---|---|---|---|---|---|---|---|---|
19065 | yes | 390 | yes | 36 | yes | 117 | yes | 66 |
22303 | yes | 381 | yes | 62 | yes | 166 | no | 3 |
26144 | yes | 217 | yes | 40 | yes | 197 | yes | 45 |
29749 | yes | 573 | yes | 22 | yes | 58 | no | 14 |
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Klempt, P.; Brož, P.; Kašný, M.; Novotný, A.; Kvapilová, K.; Kvapil, P. Performance of Targeted Library Preparation Solutions for SARS-CoV-2 Whole Genome Analysis. Diagnostics 2020, 10, 769. https://doi.org/10.3390/diagnostics10100769
Klempt P, Brož P, Kašný M, Novotný A, Kvapilová K, Kvapil P. Performance of Targeted Library Preparation Solutions for SARS-CoV-2 Whole Genome Analysis. Diagnostics. 2020; 10(10):769. https://doi.org/10.3390/diagnostics10100769
Chicago/Turabian StyleKlempt, Petr, Petr Brož, Martin Kašný, Adam Novotný, Kateřina Kvapilová, and Petr Kvapil. 2020. "Performance of Targeted Library Preparation Solutions for SARS-CoV-2 Whole Genome Analysis" Diagnostics 10, no. 10: 769. https://doi.org/10.3390/diagnostics10100769