Next-Generation Sequencing (NGS) in COVID-19: A Tool for SARS-CoV-2 Diagnosis, Monitoring New Strains and Phylodynamic Modeling in Molecular Epidemiology

Goldin John; Nikhil Shri Sahajpal; Ashis K. Mondal; Sudha Ananth; Colin Williams; Alka Chaubey; Amyn M. Rojiani; Ravindra Kolhe

doi:10.3390/cimb43020061

Current Issues in Molecular Biology (Jul 2021)

Next-Generation Sequencing (NGS) in COVID-19: A Tool for SARS-CoV-2 Diagnosis, Monitoring New Strains and Phylodynamic Modeling in Molecular Epidemiology

Goldin John,
Nikhil Shri Sahajpal,
Ashis K. Mondal,
Sudha Ananth,
Colin Williams,
Alka Chaubey,
Amyn M. Rojiani,
Ravindra Kolhe

Affiliations

Goldin John: Department of Pathology, Medical College of Georgia, Augusta University, BAE 2576, 1120 15th Street, Augusta, GA 30912, USA
Nikhil Shri Sahajpal: Department of Pathology, Medical College of Georgia, Augusta University, BAE 2576, 1120 15th Street, Augusta, GA 30912, USA
Ashis K. Mondal: Department of Pathology, Medical College of Georgia, Augusta University, BAE 2576, 1120 15th Street, Augusta, GA 30912, USA
Sudha Ananth: Department of Pathology, Medical College of Georgia, Augusta University, BAE 2576, 1120 15th Street, Augusta, GA 30912, USA
Colin Williams: Department of Pathology, Medical College of Georgia, Augusta University, BAE 2576, 1120 15th Street, Augusta, GA 30912, USA
Alka Chaubey: Department of Pathology, Medical College of Georgia, Augusta University, BAE 2576, 1120 15th Street, Augusta, GA 30912, USA
Amyn M. Rojiani: Department of Pathology, Penn State University College of Medicine, Hershey, PA 16802, USA
Ravindra Kolhe: Department of Pathology, Medical College of Georgia, Augusta University, BAE 2576, 1120 15th Street, Augusta, GA 30912, USA

DOI: https://doi.org/10.3390/cimb43020061
Journal volume & issue: Vol. 43, no. 2
pp. 845 – 867

Abstract

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This review discusses the current testing methodologies for COVID-19 diagnosis and explores next-generation sequencing (NGS) technology for the detection of SARS-CoV-2 and monitoring phylogenetic evolution in the current COVID-19 pandemic. The review addresses the development, fundamentals, assay quality control and bioinformatics processing of the NGS data. This article provides a comprehensive review of the obstacles and opportunities facing the application of NGS technologies for the diagnosis, surveillance, and study of SARS-CoV-2 and other infectious diseases. Further, we have contemplated the opportunities and challenges inherent in the adoption of NGS technology as a diagnostic test with real-world examples of its utility in the fight against COVID-19.

Published in Current Issues in Molecular Biology

ISSN: 1467-3037 (Print); 1467-3045 (Online)
Publisher: MDPI AG
Country of publisher: Switzerland
LCC subjects: Science: Biology (General)
Website: https://www.mdpi.com/journal/cimb

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