{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"omics_type":["Unknown"],"volume":["42(3)"],"submitter":["Filippi M"],"pubmed_abstract":["<h4>Background</h4>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.<h4>Methods</h4>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.<h4>Results</h4>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.<h4>Conclusions</h4>In conclusion, we emphasize that genomic surveillance can be a useful tool to assess possible evolution signals in long-term patients."],"journal":["The Pediatric infectious disease journal"],"pagination":["212-217"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC9935232"],"repository":["biostudies-literature"],"pubmed_title":["Prolonged SARS-CoV-2 Infection and Intra-Patient Viral Evolution in an Immunodeficient Child."],"pmcid":["PMC9935232"],"pubmed_authors":["Demoliner M","Fleck JD","Girardi V","Filippi M","Rosado Spilki F","Motta Rodrigues G","Frohlich J","Minuto Paiva R","Schons Gularte J","de Abreu Goes Pereira VM","de-Paris F","Witt Hansen A","Soares Falcetta F","Ribeiro Amorim M","Machado Arlindo De Mattos E","Deutschendorf C","Soares da Silva M","Proenca Modena JL","Aparecida Risczik Arruda Correa J"],"additional_accession":[]},"is_claimable":false,"name":"Prolonged SARS-CoV-2 Infection and Intra-Patient Viral Evolution in an Immunodeficient Child.","description":"<h4>Background</h4>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.<h4>Methods</h4>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.<h4>Results</h4>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.<h4>Conclusions</h4>In conclusion, we emphasize that genomic surveillance can be a useful tool to assess possible evolution signals in long-term patients.","dates":{"release":"2023-01-01T00:00:00Z","publication":"2023 Mar","modification":"2025-04-22T10:16:37.305Z","creation":"2025-04-05T23:30:54.246Z"},"accession":"S-EPMC9935232","cross_references":{"pubmed":["36728777"],"doi":["10.1097/INF.0000000000003782"]}}