tetano
Editor, Senior Moderator
Pediatr Infect Dis J
. 2022 Dec 29.
doi: 10.1097/INF.0000000000003782. Online ahead of print.
Prolonged SARS-CoV-2 Infection and Intra-Patient Viral Evolution in an Immunodeficient Child
Micheli Filippi[SUP] 1 [/SUP], Mariene Ribeiro Amorim[SUP] 2 [/SUP], Mariana Soares da Silva[SUP] 1 [/SUP], Juliana Schons Gularte[SUP] 1 [/SUP], Meriane Demoliner[SUP] 1 [/SUP], Viviane Girardi[SUP] 1 [/SUP], Vyctoria Malayhka de Abreu Goes Pereira[SUP] 1 [/SUP], Alana Witt Hansen[SUP] 1 [/SUP], Juliane Deise Fleck[SUP] 1 [/SUP], Júlia Frohlich[SUP] 1 [/SUP], Fernanda de-Paris[SUP] 3 [/SUP], Grazielle Motta Rodrigues[SUP] 3 [/SUP], Janaina Aparecida Risczik Arruda Correa[SUP] 3 [/SUP], Elissandra Machado Arlindo De Mattos[SUP] 3 [/SUP], Rodrigo Minuto Paiva[SUP] 3 [/SUP], Caroline Deutschendorf[SUP] 3 [/SUP], Frederico Soares Falcetta[SUP] 3 [/SUP], José Luiz Proença Modena[SUP] 2 [/SUP], Fernando Rosado Spilki[SUP] 1 [/SUP]
Affiliations
Abstract
Background: With the progression of the Coronavirus disease pandemic, the number of mutations in the viral genome has increased, showing the adaptive evolution of severe acute respiratory syndrome coronavirus 2 in humans and intensification in transmissibility. Long-term infections also allow the development of viral diversity. In this study, we report the case of a child with severe combined immu presenting a prolonged severe acute respiratory syndrome coronavirus 2 infection. We aimed to analyze 3 naso-oropharyngeal swab samples collected between August and December 2021 to describe the amino acid changes present in the sequence reads that may have a role in the emergence of new viral variants.
Methods: The whole genome from clinical samples was sequenced through high throughput sequencing and analyzed using a workflow to map reads and then find variations/single-nucleotide polymorphisms. In addition, the samples were isolated in cell culture, and a plaque forming units assay was performed, which indicates the presence of viable viral particles.
Results: The results obtained showed that the virus present in all samples is infectious. Also, there were 20 common mutations among the 3 sequence reads, found in the ORF1ab and ORF10 proteins. As well, a considerable number of uncommon mutations were found.
Conclusions: In conclusion, we emphasize that genomic surveillance can be a useful tool to assess possible evolution signals in long-term patients.
. 2022 Dec 29.
doi: 10.1097/INF.0000000000003782. Online ahead of print.
Prolonged SARS-CoV-2 Infection and Intra-Patient Viral Evolution in an Immunodeficient Child
Micheli Filippi[SUP] 1 [/SUP], Mariene Ribeiro Amorim[SUP] 2 [/SUP], Mariana Soares da Silva[SUP] 1 [/SUP], Juliana Schons Gularte[SUP] 1 [/SUP], Meriane Demoliner[SUP] 1 [/SUP], Viviane Girardi[SUP] 1 [/SUP], Vyctoria Malayhka de Abreu Goes Pereira[SUP] 1 [/SUP], Alana Witt Hansen[SUP] 1 [/SUP], Juliane Deise Fleck[SUP] 1 [/SUP], Júlia Frohlich[SUP] 1 [/SUP], Fernanda de-Paris[SUP] 3 [/SUP], Grazielle Motta Rodrigues[SUP] 3 [/SUP], Janaina Aparecida Risczik Arruda Correa[SUP] 3 [/SUP], Elissandra Machado Arlindo De Mattos[SUP] 3 [/SUP], Rodrigo Minuto Paiva[SUP] 3 [/SUP], Caroline Deutschendorf[SUP] 3 [/SUP], Frederico Soares Falcetta[SUP] 3 [/SUP], José Luiz Proença Modena[SUP] 2 [/SUP], Fernando Rosado Spilki[SUP] 1 [/SUP]
Affiliations
- PMID: 36728777
- DOI: 10.1097/INF.0000000000003782
Abstract
Background: With the progression of the Coronavirus disease pandemic, the number of mutations in the viral genome has increased, showing the adaptive evolution of severe acute respiratory syndrome coronavirus 2 in humans and intensification in transmissibility. Long-term infections also allow the development of viral diversity. In this study, we report the case of a child with severe combined immu presenting a prolonged severe acute respiratory syndrome coronavirus 2 infection. We aimed to analyze 3 naso-oropharyngeal swab samples collected between August and December 2021 to describe the amino acid changes present in the sequence reads that may have a role in the emergence of new viral variants.
Methods: The whole genome from clinical samples was sequenced through high throughput sequencing and analyzed using a workflow to map reads and then find variations/single-nucleotide polymorphisms. In addition, the samples were isolated in cell culture, and a plaque forming units assay was performed, which indicates the presence of viable viral particles.
Results: The results obtained showed that the virus present in all samples is infectious. Also, there were 20 common mutations among the 3 sequence reads, found in the ORF1ab and ORF10 proteins. As well, a considerable number of uncommon mutations were found.
Conclusions: In conclusion, we emphasize that genomic surveillance can be a useful tool to assess possible evolution signals in long-term patients.