Comparative analysis of within-host diversity among vaccinated COVID-19 patients infected with different SARS-CoV-2 variants
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...
Saved in:
| Main Author: | |
|---|---|
| Other Authors: | , , , , , , , , , , , |
| Format: | article |
| Published: |
2022
|
| Subjects: | |
| Online Access: | http://dx.doi.org/10.1016/j.isci.2022.105438 https://www.sciencedirect.com/science/article/pii/S2589004222017102 http://hdl.handle.net/10576/44626 |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1857415085178224640 |
|---|---|
| author | Hebah A., Al-Khatib |
| author2 | Smatti, Maria K. Ali, Fatma H. Zedan, Hadeel T. Thomas, Swapna Ahmed, Muna N. El-kahlout, Reham A. Al Bader, Mashael A. Elgakhlab, Dina Coyle, Peter V. Abu-Raddad, Laith J. Al Thani, Asma A. Yassine, Hadi M. |
| author2_role | author author author author author author author author author author author author |
| author_facet | Hebah A., Al-Khatib Smatti, Maria K. Ali, Fatma H. Zedan, Hadeel T. Thomas, Swapna Ahmed, Muna N. El-kahlout, Reham A. Al Bader, Mashael A. Elgakhlab, Dina Coyle, Peter V. Abu-Raddad, Laith J. Al Thani, Asma A. Yassine, Hadi M. |
| author_role | author |
| dc.creator.none.fl_str_mv | Hebah A., Al-Khatib Smatti, Maria K. Ali, Fatma H. Zedan, Hadeel T. Thomas, Swapna Ahmed, Muna N. El-kahlout, Reham A. Al Bader, Mashael A. Elgakhlab, Dina Coyle, Peter V. Abu-Raddad, Laith J. Al Thani, Asma A. Yassine, Hadi M. |
| dc.date.none.fl_str_mv | 2022-11-18 2023-06-21T05:24:44Z |
| dc.format.none.fl_str_mv | application/pdf |
| dc.identifier.none.fl_str_mv | http://dx.doi.org/10.1016/j.isci.2022.105438 25890042 https://www.sciencedirect.com/science/article/pii/S2589004222017102 http://hdl.handle.net/10576/44626 11 25 |
| dc.language.none.fl_str_mv | en |
| dc.publisher.none.fl_str_mv | Elsevier |
| dc.rights.none.fl_str_mv | http://creativecommons.org/licenses/by/4.0/ info:eu-repo/semantics/openAccess |
| dc.subject.none.fl_str_mv | Immunology Immune response Virology Genomics |
| dc.title.none.fl_str_mv | Comparative analysis of within-host diversity among vaccinated COVID-19 patients infected with different SARS-CoV-2 variants |
| dc.type.none.fl_str_mv | Article info:eu-repo/semantics/publishedVersion info:eu-repo/semantics/article |
| description | 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. |
| eu_rights_str_mv | openAccess |
| format | article |
| id | qu_47d45bcc83cce51d1c949d9bb8689526 |
| identifier_str_mv | 25890042 11 25 |
| language_invalid_str_mv | en |
| network_acronym_str | qu |
| network_name_str | Qatar University repository |
| oai_identifier_str | oai:qspace.qu.edu.qa:10576/44626 |
| publishDate | 2022 |
| publisher.none.fl_str_mv | Elsevier |
| repository.mail.fl_str_mv | |
| repository.name.fl_str_mv | |
| repository_id_str | |
| rights_invalid_str_mv | http://creativecommons.org/licenses/by/4.0/ |
| spelling | Comparative analysis of within-host diversity among vaccinated COVID-19 patients infected with different SARS-CoV-2 variantsHebah A., Al-KhatibSmatti, Maria K.Ali, Fatma H.Zedan, Hadeel T.Thomas, SwapnaAhmed, Muna N.El-kahlout, Reham A.Al Bader, Mashael A.Elgakhlab, DinaCoyle, Peter V.Abu-Raddad, Laith J.Al Thani, Asma A.Yassine, Hadi M.ImmunologyImmune responseVirologyGenomicsSevere 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.The authors are grateful for the leadership and assistance provided by the Ministry of Public Health in Qatar, the virology laboratory staff at Hamad Medical Corporation, and Qatar Biobank (QBB) team. This project was funded by Qatar National Research Fund (QNRF; Project number UREP28-164-3-048) and Qatar University (Project number QUCG-BRC-22/23-547). The article processing charges were paid from grant no. QUCG-BRC-2022/23-578.Elsevier2023-06-21T05:24:44Z2022-11-18Articleinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleapplication/pdfhttp://dx.doi.org/10.1016/j.isci.2022.10543825890042https://www.sciencedirect.com/science/article/pii/S2589004222017102http://hdl.handle.net/10576/446261125enhttp://creativecommons.org/licenses/by/4.0/info:eu-repo/semantics/openAccessoai:qspace.qu.edu.qa:10576/446262024-07-23T13:53:39Z |
| spellingShingle | Comparative analysis of within-host diversity among vaccinated COVID-19 patients infected with different SARS-CoV-2 variants Hebah A., Al-Khatib Immunology Immune response Virology Genomics |
| status_str | publishedVersion |
| 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://dx.doi.org/10.1016/j.isci.2022.105438 https://www.sciencedirect.com/science/article/pii/S2589004222017102 http://hdl.handle.net/10576/44626 |