80d30e77dc49d12150d5fc8fae5c3c80 pmc_8950049.pdf 8ebf191dbb7b471c6a2eba27bfa9cb74124e124d pmc_8950049.pdf e1735108955c1c3f1b67e74e105a218c21563b91916d1f949fbce5e5100ba427 pmc_8950049.pdf Title: Next-Generation Sequencing for Confronting Virus Pandemics Subject: Virus pandemics have happened, are happening and will happen again. In recent decades, the rate of zoonotic viral spillover into humans has accelerated, mirroring the expansion of our global footprint and travel network, including the expansion of viral vectors and the destruction of natural spaces, bringing humans closer to wild animals. Once viral cross-species transmission to humans occurs, transmission cannot be stopped by cement walls but by developing barriers based on knowledge that can prevent or reduce the effects of any pandemic. Controlling a local transmission affecting few individuals is more efficient that confronting a community outbreak in which infections cannot be traced. Genetic detection, identification, and characterization of infectious agents using next-generation sequencing (NGS) has been proven to be a powerful tool allowing for the development of fast PCR-based molecular assays, the rapid development of vaccines based on mRNA and DNA, the identification of outbreaks, transmission dynamics and spill-over events, the detection of new variants and treatment of vaccine resistance mutations, the development of direct-acting antiviral drugs, the discovery of relevant minority variants to improve knowledge of the viral life cycle, strengths and weaknesses, the potential for becoming dominant to take appropriate preventive measures, and the discovery of new routes of viral transmission. Keywords: NGS; deep-sequencing; viruses; SARS-CoV-2; COVID-19; variability; zoonosis; pandemics; diagnostic tools Author: Josep Quer, Sergi Colomer-Castell, Carolina Campos, Cristina Andrés, Maria Piñana, Maria Francesca Cortese, Alejandra González-Sánchez, Damir Garcia-Cehic, Marta Ibáñez, Tomàs Pumarola, Francisco Rodríguez-Frías, Andrés Antón and David Tabernero Creator: LaTeX with hyperref Producer: pdfTeX-1.40.21 CreationDate: Thu Mar 17 08:54:31 2022 CET ModDate: Thu Mar 17 09:00:13 2022 CET Tagged: no UserProperties: no Suspects: no Form: none JavaScript: no Pages: 23 Encrypted: no Page size: 595.276 x 841.89 pts (A4) Page rot: 0 File size: 2238465 bytes Optimized: no PDF version: 1.7 name type encoding emb sub uni object ID ------------------------------------ ----------------- ---------------- --- --- --- --------- IYDCBB+VnURWPalladioL Type 1 Custom yes yes no 10 0 VQWJUB+URWPalladioL-Bold Type 1 Custom yes yes no 15 0 QHNKWI+URWPalladioL-Roma Type 1 Custom yes yes no 20 0 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edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@4923ab24 Item: Title: NGS for Confronting the Devastating Effects of a Pandemic Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@44c8afef Item: Title: Zoonosis and NGS Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@7b69c6ba Item: Title: NGS for Studying Genomic Viral Variability Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@46daef40 Item: Title: NGS as a Diagnostic Tool Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@12f41634 Item: Title: NGS for Studying the Origin of a Virus and Fighting against Fake Theories Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@13c27452 Item: Title: NGS Methodologies for Emerging, Re-Emerging, and New Viruses Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@262b2c86 Children: Item: Title: NGS Using Random Primers (Metagenomics Sequencing) Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@371a67ec Item: Title: Sequence Capture, Fragment Recovery and NGS Sequencing (Target Enrichment Sequencing) Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@5ed828d Item: Title: Use of Amplicons (PCR Amplicon Sequencing) Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@50d0686 Item: Title: Next-Next Generation Sequencing (NNGS) or Third Generation Long-Read Sequencing (TGS) Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@7a3d45bd Item: Title: Summary Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@1e7c7811 Item: Title: References Destination: edu.harvard.hul.ois.jhove.module.pdf.PdfSimpleObject@77ec78b9 Info: Title: Next-Generation Sequencing for Confronting Virus Pandemics Author: Josep Quer, Sergi Colomer-Castell, Carolina Campos, Cristina Andrés, Maria Piñana, Maria Francesca Cortese, Alejandra González-Sánchez, Damir Garcia-Cehic, Marta Ibáñez, Tomàs Pumarola, Francisco Rodríguez-Frías, Andrés Antón and David Tabernero Subject: Virus pandemics have happened, are happening and will happen again. In recent decades, the rate of zoonotic viral spillover into humans has accelerated, mirroring the expansion of our global footprint and travel network, including the expansion of viral vectors and the destruction of natural spaces, bringing humans closer to wild animals. Once viral cross-species transmission to humans occurs, transmission cannot be stopped by cement walls but by developing barriers based on knowledge that can prevent or reduce the effects of any pandemic. Controlling a local transmission affecting few individuals is more efficient that confronting a community outbreak in which infections cannot be traced. Genetic detection, identification, and characterization of infectious agents using next-generation sequencing (NGS) has been proven to be a powerful tool allowing for the development of fast PCR-based molecular assays, the rapid development of vaccines based on mRNA and DNA, the identification of outbreaks, transmission dynamics and spill-over events, the detection of new variants and treatment of vaccine resistance mutations, the development of direct-acting antiviral drugs, the discovery of relevant minority variants to improve knowledge of the viral life cycle, strengths and weaknesses, the potential for becoming dominant to take appropriate preventive measures, and the discovery of new routes of viral transmission. 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