Evaluation of next generation sequencing approaches for SARS-CoV-2

Within public health control strategies for SARS-CoV-2, whole genome sequencing (WGS) is essential for tracking viral spread and monitoring the emergence of variants which may impair the effectiveness of vaccines, diagnostic methods, and therapeutics. In this manuscript different strategies for SARS...

Descripción completa

Detalles Bibliográficos
Autores principales: Curini, Valentina, Ancora, Massimo, Jurisic, Lucija, Di Lollo, Valeria, Secondini, Barbara, Mincarelli, Luana Fiorella, Caporale, Marialuigia, Puglia, Ilaria, Di Gialleonardo, Luigina, Mangone, Iolanda, Di Domenico, Marco, Di Pasquale, Adriano, Lorusso, Alessio, Marcacci, Maurilia, Cammà, Cesare
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier 2023
Materias:
Research Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10643093/
https://www.ncbi.nlm.nih.gov/pubmed/38027571
http://dx.doi.org/10.1016/j.heliyon.2023.e21101
_version_ 1785134279315947520
author Curini, Valentina
Ancora, Massimo
Jurisic, Lucija
Di Lollo, Valeria
Secondini, Barbara
Mincarelli, Luana Fiorella
Caporale, Marialuigia
Puglia, Ilaria
Di Gialleonardo, Luigina
Mangone, Iolanda
Di Domenico, Marco
Di Pasquale, Adriano
Lorusso, Alessio
Marcacci, Maurilia
Cammà, Cesare
author_facet Curini, Valentina
Ancora, Massimo
Jurisic, Lucija
Di Lollo, Valeria
Secondini, Barbara
Mincarelli, Luana Fiorella
Caporale, Marialuigia
Puglia, Ilaria
Di Gialleonardo, Luigina
Mangone, Iolanda
Di Domenico, Marco
Di Pasquale, Adriano
Lorusso, Alessio
Marcacci, Maurilia
Cammà, Cesare
author_sort Curini, Valentina
collection PubMed
description Within public health control strategies for SARS-CoV-2, whole genome sequencing (WGS) is essential for tracking viral spread and monitoring the emergence of variants which may impair the effectiveness of vaccines, diagnostic methods, and therapeutics. In this manuscript different strategies for SARS-CoV-2 WGS including metagenomic shotgun (SG), library enrichment by myBaits® Expert Virus-SARS-CoV-2 (Arbor Biosciences), nCoV-2019 sequencing protocol, ampliseq approach by Swift Amplicon® SARS-CoV-2 Panel kit (Swift Biosciences), and Illumina COVIDSeq Test (Illumina Inc.), were evaluated in order to identify the best approach in terms of results, labour, and costs. The analysis revealed that Illumina COVIDSeq Test (Illumina Inc.) is the best choice for a cost-effective, time-consuming production of consensus sequences.
format Online
Article
Text
id pubmed-10643093
institution National Center for Biotechnology Information
language English
publishDate 2023
publisher Elsevier
record_format MEDLINE/PubMed
spelling pubmed-106430932023-10-19 Evaluation of next generation sequencing approaches for SARS-CoV-2 Curini, Valentina Ancora, Massimo Jurisic, Lucija Di Lollo, Valeria Secondini, Barbara Mincarelli, Luana Fiorella Caporale, Marialuigia Puglia, Ilaria Di Gialleonardo, Luigina Mangone, Iolanda Di Domenico, Marco Di Pasquale, Adriano Lorusso, Alessio Marcacci, Maurilia Cammà, Cesare Heliyon Research Article Within public health control strategies for SARS-CoV-2, whole genome sequencing (WGS) is essential for tracking viral spread and monitoring the emergence of variants which may impair the effectiveness of vaccines, diagnostic methods, and therapeutics. In this manuscript different strategies for SARS-CoV-2 WGS including metagenomic shotgun (SG), library enrichment by myBaits® Expert Virus-SARS-CoV-2 (Arbor Biosciences), nCoV-2019 sequencing protocol, ampliseq approach by Swift Amplicon® SARS-CoV-2 Panel kit (Swift Biosciences), and Illumina COVIDSeq Test (Illumina Inc.), were evaluated in order to identify the best approach in terms of results, labour, and costs. The analysis revealed that Illumina COVIDSeq Test (Illumina Inc.) is the best choice for a cost-effective, time-consuming production of consensus sequences. Elsevier 2023-10-19 /pmc/articles/PMC10643093/ /pubmed/38027571 http://dx.doi.org/10.1016/j.heliyon.2023.e21101 Text en © 2023 The Authors https://creativecommons.org/licenses/by/4.0/This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Research Article
Curini, Valentina
Ancora, Massimo
Jurisic, Lucija
Di Lollo, Valeria
Secondini, Barbara
Mincarelli, Luana Fiorella
Caporale, Marialuigia
Puglia, Ilaria
Di Gialleonardo, Luigina
Mangone, Iolanda
Di Domenico, Marco
Di Pasquale, Adriano
Lorusso, Alessio
Marcacci, Maurilia
Cammà, Cesare
Evaluation of next generation sequencing approaches for SARS-CoV-2
title Evaluation of next generation sequencing approaches for SARS-CoV-2
title_full Evaluation of next generation sequencing approaches for SARS-CoV-2
title_fullStr Evaluation of next generation sequencing approaches for SARS-CoV-2
title_full_unstemmed Evaluation of next generation sequencing approaches for SARS-CoV-2
title_short Evaluation of next generation sequencing approaches for SARS-CoV-2
title_sort evaluation of next generation sequencing approaches for sars-cov-2
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10643093/
https://www.ncbi.nlm.nih.gov/pubmed/38027571
http://dx.doi.org/10.1016/j.heliyon.2023.e21101
work_keys_str_mv AT curinivalentina evaluationofnextgenerationsequencingapproachesforsarscov2
AT ancoramassimo evaluationofnextgenerationsequencingapproachesforsarscov2
AT jurisiclucija evaluationofnextgenerationsequencingapproachesforsarscov2
AT dilollovaleria evaluationofnextgenerationsequencingapproachesforsarscov2
AT secondinibarbara evaluationofnextgenerationsequencingapproachesforsarscov2
AT mincarelliluanafiorella evaluationofnextgenerationsequencingapproachesforsarscov2
AT caporalemarialuigia evaluationofnextgenerationsequencingapproachesforsarscov2
AT pugliailaria evaluationofnextgenerationsequencingapproachesforsarscov2
AT digialleonardoluigina evaluationofnextgenerationsequencingapproachesforsarscov2
AT mangoneiolanda evaluationofnextgenerationsequencingapproachesforsarscov2
AT didomenicomarco evaluationofnextgenerationsequencingapproachesforsarscov2
AT dipasqualeadriano evaluationofnextgenerationsequencingapproachesforsarscov2
AT lorussoalessio evaluationofnextgenerationsequencingapproachesforsarscov2
AT marcaccimaurilia evaluationofnextgenerationsequencingapproachesforsarscov2
AT cammacesare evaluationofnextgenerationsequencingapproachesforsarscov2

Ejemplares similares