Comparative analysis of within-host diversity among vaccinated COVID-19 patients infected with different SARS-CoV-2 variants
Summary: Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is a rapidly evolving RNA virus that mutates within hosts and exists as viral quasispecies. Here, we evaluated the within-host diversity among vaccinated and unvaccinated individuals (n = 379) infected with different SARS-CoV-2 Va...
| Main Authors: | , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Elsevier
2022-11-01
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| Series: | iScience |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S2589004222017102 |
| _version_ | 1811223781760303104 |
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| author | Hebah A. Al-Khatib Maria K. Smatti Fatma H. Ali Hadeel T. Zedan Swapna Thomas Muna N. Ahmed Reham A. El-kahlout Mashael A. Al Bader Dina Elgakhlab Peter V. Coyle Laith J. Abu-Raddad Asma A. Al Thani Hadi M. Yassine |
| author_facet | Hebah A. Al-Khatib Maria K. Smatti Fatma H. Ali Hadeel T. Zedan Swapna Thomas Muna N. Ahmed Reham A. El-kahlout Mashael A. Al Bader Dina Elgakhlab Peter V. Coyle Laith J. Abu-Raddad Asma A. Al Thani Hadi M. Yassine |
| author_sort | Hebah A. Al-Khatib |
| collection | DOAJ |
| description | Summary: Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is a rapidly evolving RNA virus that mutates within hosts and exists as viral quasispecies. Here, we evaluated the within-host diversity among vaccinated and unvaccinated individuals (n = 379) infected with different SARS-CoV-2 Variants of Concern. The majority of samples harbored less than 14 intra-host single-nucleotide variants (iSNVs). A deep analysis revealed a significantly higher intra-host diversity in Omicron samples than in other variants (p value < 0.05). Vaccination status and type had a limited impact on intra-host diversity except for Beta-B.1.315 and Delta-B.1.617.2 vaccinees, who exhibited higher diversity than unvaccinated individuals (p values: <0.0001 and <0.0021, respectively). Three immune-escape mutations were identified: S255F in Delta and R346K and T376A in Omicron-B.1.1.529. The latter 2 mutations were fixed in BA.1 and BA.2 genomes, respectively. Overall, the relatively higher intra-host diversity among vaccinated individuals and the detection of immune-escape mutations, despite being rare, suggest a potential vaccine-induced immune pressure in vaccinated individuals. |
| first_indexed | 2024-04-12T08:38:38Z |
| format | Article |
| id | doaj.art-6562339c07ce412cafef476c342f015a |
| institution | Directory Open Access Journal |
| issn | 2589-0042 |
| language | English |
| last_indexed | 2024-04-12T08:38:38Z |
| publishDate | 2022-11-01 |
| publisher | Elsevier |
| record_format | Article |
| series | iScience |
| spelling | doaj.art-6562339c07ce412cafef476c342f015a2022-12-22T03:39:57ZengElsevieriScience2589-00422022-11-012511105438Comparative analysis of within-host diversity among vaccinated COVID-19 patients infected with different SARS-CoV-2 variantsHebah A. Al-Khatib0Maria K. Smatti1Fatma H. Ali2Hadeel T. Zedan3Swapna Thomas4Muna N. Ahmed5Reham A. El-kahlout6Mashael A. Al Bader7Dina Elgakhlab8Peter V. Coyle9Laith J. Abu-Raddad10Asma A. Al Thani11Hadi M. Yassine12Biomedical Research Center, Qatar University, Doha 2713, Qatar; Corresponding authorBiomedical Research Center, Qatar University, Doha 2713, QatarBiomedical Research Center, Qatar University, Doha 2713, QatarBiomedical Research Center, Qatar University, Doha 2713, QatarBiomedical Research Center, Qatar University, Doha 2713, QatarBiomedical Research Center, Qatar University, Doha 2713, QatarVirology Laboratory, Hamad Medical Corporation, Doha 3050, QatarNational Reference Laboratory, Ministry of Public Health, Doha 42, QatarQatar Biobank, Qatar Foundation, Doha, QatarVirology Laboratory, Hamad Medical Corporation, Doha 3050, QatarWeill Cornell Medicine–Qatar, Qatar Foundation, Doha, QatarBiomedical Research Center, Qatar University, Doha 2713, Qatar; Department of Biomedical Sciences, College of Health Sciences, Qatar University, Doha, QatarBiomedical Research Center, Qatar University, Doha 2713, Qatar; Department of Biomedical Sciences, College of Health Sciences, Qatar University, Doha, Qatar; Corresponding authorSummary: Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is a rapidly evolving RNA virus that mutates within hosts and exists as viral quasispecies. Here, we evaluated the within-host diversity among vaccinated and unvaccinated individuals (n = 379) infected with different SARS-CoV-2 Variants of Concern. The majority of samples harbored less than 14 intra-host single-nucleotide variants (iSNVs). A deep analysis revealed a significantly higher intra-host diversity in Omicron samples than in other variants (p value < 0.05). Vaccination status and type had a limited impact on intra-host diversity except for Beta-B.1.315 and Delta-B.1.617.2 vaccinees, who exhibited higher diversity than unvaccinated individuals (p values: <0.0001 and <0.0021, respectively). Three immune-escape mutations were identified: S255F in Delta and R346K and T376A in Omicron-B.1.1.529. The latter 2 mutations were fixed in BA.1 and BA.2 genomes, respectively. Overall, the relatively higher intra-host diversity among vaccinated individuals and the detection of immune-escape mutations, despite being rare, suggest a potential vaccine-induced immune pressure in vaccinated individuals.http://www.sciencedirect.com/science/article/pii/S2589004222017102ImmunologyImmune responseVirologyGenomics |
| spellingShingle | Hebah A. Al-Khatib Maria K. Smatti Fatma H. Ali Hadeel T. Zedan Swapna Thomas Muna N. Ahmed Reham A. El-kahlout Mashael A. Al Bader Dina Elgakhlab Peter V. Coyle Laith J. Abu-Raddad Asma A. Al Thani Hadi M. Yassine Comparative analysis of within-host diversity among vaccinated COVID-19 patients infected with different SARS-CoV-2 variants iScience Immunology Immune response Virology Genomics |
| title | Comparative analysis of within-host diversity among vaccinated COVID-19 patients infected with different SARS-CoV-2 variants |
| title_full | Comparative analysis of within-host diversity among vaccinated COVID-19 patients infected with different SARS-CoV-2 variants |
| title_fullStr | Comparative analysis of within-host diversity among vaccinated COVID-19 patients infected with different SARS-CoV-2 variants |
| title_full_unstemmed | Comparative analysis of within-host diversity among vaccinated COVID-19 patients infected with different SARS-CoV-2 variants |
| title_short | Comparative analysis of within-host diversity among vaccinated COVID-19 patients infected with different SARS-CoV-2 variants |
| title_sort | comparative analysis of within host diversity among vaccinated covid 19 patients infected with different sars cov 2 variants |
| topic | Immunology Immune response Virology Genomics |
| url | http://www.sciencedirect.com/science/article/pii/S2589004222017102 |
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