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SARS-CoV-2 Evolution among Oncological Population: In-Depth Virological Analysis of a Clinical Cohort
- Source :
- Microorganisms, Volume 9, Issue 10, Microorganisms, Vol 9, Iss 2145, p 2145 (2021)
- Publication Year :
- 2021
- Publisher :
- Multidisciplinary Digital Publishing Institute, 2021.
-
Abstract
- Background: Oncological patients have a higher risk of prolonged SARS-CoV-2 shedding, which, in turn, can lead to evolutionary mutations and emergence of novel viral variants. The aim of this study was to analyze biological samples of a cohort of oncological patients by deep sequencing to detect any significant viral mutations. Methods: High-throughput sequencing was performed on selected samples from a SARS-CoV-2-positive oncological patient cohort. Analysis of variants and minority variants was performed using a validated bioinformatics pipeline. Results: Among 54 oncological patients, we analyzed 12 samples of 6 patients, either serial nasopharyngeal swab samples or samples from the upper and lower respiratory tracts, by high-throughput sequencing. We identified amino acid changes D614G and P4715L as well as mutations at nucleotide positions 241 and 3037 in all samples. There were no other significant mutations, but we observed intra-host evolution in some minority variants, mainly in the ORF1ab gene. There was no significant mutation identified in the spike region and no minority variants common to several hosts. Conclusions: There was no major and rapid evolution of viral strains in this oncological patient cohort, but there was minority variant evolution, reflecting a dynamic pattern of quasi-species replication.
- Subjects :
- Microbiology (medical)
Oncology
medicine.medical_specialty
Clinical cohort
QH301-705.5
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)
Population
medicine.disease_cause
Microbiology
DNA sequencing
Deep sequencing
Article
Virology
Internal medicine
Medicine
oncological patients
Biology (General)
education
Gene
education.field_of_study
Mutation
business.industry
SARS-CoV-2
minority variants
high-throughput sequencing
compartment
Cohort
business
Subjects
Details
- Language :
- English
- ISSN :
- 20762607
- Database :
- OpenAIRE
- Journal :
- Microorganisms
- Accession number :
- edsair.doi.dedup.....6d61bd31808bc2441f3ff73985d34879
- Full Text :
- https://doi.org/10.3390/microorganisms9102145