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Molecular epidemiology of infectious bronchitis coronavirus in southern African poultry from 2011 to 2020
Dissertation (MSc (Production Animal Studies))--University of Pretoria, 2023.
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University of Pretoria
2024
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| _version_ | 1867613528696815616 |
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| access_status_str | Open Access |
| author2 | Abolnik, Celia |
| author_browse | Abolnik, Celia |
| author_facet | Abolnik, Celia |
| collection | Thesis |
| dc_rights_str_mv | © 2023 University of Pretoria. All rights reserved. The copyright in this work vests in the University of Pretoria. No part of this work may be reproduced or transmitted in any form or by any means, without the prior written permission of the University of Pretoria. |
| description | Dissertation (MSc (Production Animal Studies))--University of Pretoria, 2023. |
| format | Thesis |
| id | oai:repository.up.ac.za:2263/94969 |
| institution | University of Pretoria (South Africa) |
| language | English |
| last_indexed | 2026-06-10T12:37:35.225Z |
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| provenance_str_mv | Harvested via OAI-PMH from UPSpace — University of Pretoria Institutional Repository |
| publishDate | 2024 |
| publishDateRange | 2024 |
| publishDateSort | 2024 |
| publisher | University of Pretoria |
| publisherStr | University of Pretoria |
| record_format | dspace |
| source_str | UPSpace — University of Pretoria Institutional Repository |
| spelling | oai:repository.up.ac.za:2263/94969 Molecular epidemiology of infectious bronchitis coronavirus in southern African poultry from 2011 to 2020 Abolnik, Celia christine.f3nn@gmail.com Strydom, Christine UCTD Infectious bronchitis virus (IBV) Coronavirus Spike protein Epidemiology Phylogenetic Southern Africa Genotypes Lineages Dissertation (MSc (Production Animal Studies))--University of Pretoria, 2023. Infectious bronchitis virus (IBV) (family Gammacoronavirus) is an ever-evolving avian pathogen that causes major economic losses within the poultry industry worldwide. Antigenic variations allow the virus to evade vaccine induced immunity and produce new variants at an alarming rate. Epidemiological studies of IBV are imperative to selection of vaccines. Field isolates (n=385) grown in SPF embryonated chicken eggs at Deltamune (Pty) Laboratory, that originated in commercial flocks were collected from Botswana, Eswatini, Namibia and South Africa’s Eastern Cape, Free State, Gauteng, KwaZulu-Natal, Limpopo, Mpumalanga, North West, and Western Cape provinces from 2011-2020, were analysed in this study. A 745 bp region of the spike protein gene was amplified and sequenced, and phylogenetic analysis was performed. Twenty-four (6,2 %) samples contained mixed sequences from viral coinfections and were not evaluated further. In the remaining 364 isolates, 7 genetic lineages were identified. 184 (50,5%) viruses were identified as GI-19 (QX) strains and 78 (21,4%) as the GI-1 (Mass/H120) strain. 39 (10,7%) samples were identified as the GI-13 (4/91) lineage detected between 2011 and 2019, 29 (8,0%) as the GVI-1 (TC07-2) lineage detected from 2010-2020, 19 (5,2%) as the GI-23 (Var II) lineage from 2019-2020 with single isolates in 2010 and 2015, and 13 (3,6%) as the GI-11 (UFMG/G - Brazil) lineage detected from 2011-2020. Two (0.5%) viruses were closely related to GIV-1 (DE/072/92) lineages but were only isolated in 2011 and 2013. Three viruses from GI-1 and GI-13 may have been recombinants, but further analysis is required to confirm this. Overall, this study reveals the co-circulation of diverse IBV field and vaccine-derived genotypes in southern African poultry flocks for the first time. This study was funded by the University of Pretoria under NRF-DSI SARChI no. N00705/114612 Production Animal Studies MSc (Production Animal Studies) Unrestricted Faculty of Veterinary Science 2024-02-28T12:37:49Z 2024-02-28T12:37:49Z 2024-05-05 2023-10-31 Dissertation * A2024 http://hdl.handle.net/2263/94969 DOI: https://doi.org/10.25403/UPresearchdata.25296283.v1 https://doi.org/10.25403/UPresearchdata.25296283 en © 2023 University of Pretoria. All rights reserved. The copyright in this work vests in the University of Pretoria. No part of this work may be reproduced or transmitted in any form or by any means, without the prior written permission of the University of Pretoria. application/pdf University of Pretoria |
| spellingShingle | UCTD Infectious bronchitis virus (IBV) Coronavirus Spike protein Epidemiology Phylogenetic Southern Africa Genotypes Lineages Molecular epidemiology of infectious bronchitis coronavirus in southern African poultry from 2011 to 2020 |
| title | Molecular epidemiology of infectious bronchitis coronavirus in southern African poultry from 2011 to 2020 |
| title_full | Molecular epidemiology of infectious bronchitis coronavirus in southern African poultry from 2011 to 2020 |
| title_fullStr | Molecular epidemiology of infectious bronchitis coronavirus in southern African poultry from 2011 to 2020 |
| title_full_unstemmed | Molecular epidemiology of infectious bronchitis coronavirus in southern African poultry from 2011 to 2020 |
| title_short | Molecular epidemiology of infectious bronchitis coronavirus in southern African poultry from 2011 to 2020 |
| title_sort | molecular epidemiology of infectious bronchitis coronavirus in southern african poultry from 2011 to 2020 |
| topic | UCTD Infectious bronchitis virus (IBV) Coronavirus Spike protein Epidemiology Phylogenetic Southern Africa Genotypes Lineages |
| url | http://hdl.handle.net/2263/94969 https://doi.org/10.25403/UPresearchdata.25296283 |