Highly Accurate Chip-Based Resequencing of SARS-CoV-2 Clinical Samples
| Autor: | Ryota Shimada, Jiayi Sun, Noah Hull, Marijan Posavi, Darrell L. Dinwiddie, Priyanka Singh, Wei Zhou, John Duque, Ju Yu Lin, Jeremy S. Edwards, Glenn Mcgall, Xuechen Zhu, Lucas Carter, Filip Crnogorac, Ádám M. Halász, Xun Ding, Emily N. Alden, Radha Swaminathan, Kendall Hoff, Samantha Dung |
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| Rok vydání: | 2021 |
| Předmět: |
Coronavirus disease 2019 (COVID-19)
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) Genome Viral 02 engineering and technology Computational biology Biology 010402 general chemistry 01 natural sciences Genome Article Electrochemistry Humans General Materials Science Spectroscopy Oligonucleotide Array Sequence Analysis Rapid testing Tiling array SARS-CoV-2 COVID-19 Surfaces and Interfaces 021001 nanoscience & nanotechnology Condensed Matter Physics Chip Short read 0104 chemical sciences 0210 nano-technology Contact tracing |
| Zdroj: | Langmuir |
| ISSN: | 1520-5827 0743-7463 |
| DOI: | 10.1021/acs.langmuir.0c02927 |
| Popis: | SARS-CoV-2 has infected over 128 million people worldwide, and until a vaccine is developed and widely disseminated, vigilant testing and contact tracing are the most effective ways to slow the spread of COVID-19. Typical clinical testing only confirms the presence or absence of the virus, but rather, a simple and rapid testing procedure that sequences the entire genome would be impactful and allow for tracing the spread of the virus and variants, as well as the appearance of new variants. However, traditional short read sequencing methods are time consuming and expensive. Herein, we describe a tiled genome array that we developed for rapid and inexpensive full viral genome resequencing, and we have applied our SARS-CoV-2-specific genome tiling array to rapidly and accurately resequence the viral genome from eight clinical samples. We have resequenced eight samples acquired from patients in Wyoming that tested positive for SARS-CoV-2. We were ultimately able to sequence over 95% of the genome of each sample with greater than 99.9% average accuracy. |
| Databáze: | OpenAIRE |
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