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Application of RNA sequencing for the identification of microorganisms at the tick-host interface
Dissertation (MSc (Genetics))--University of Pretoria, 2024.
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| Format: | Thesis |
| Language: | English |
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University of Pretoria
2024
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| _version_ | 1867613487339929600 |
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| access_status_str | Open Access |
| author2 | Maritz-Olivier, Christine |
| author_browse | Maritz-Olivier, Christine |
| author_facet | Maritz-Olivier, Christine |
| 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 (Genetics))--University of Pretoria, 2024. |
| format | Thesis |
| id | oai:repository.up.ac.za:2263/99745 |
| institution | University of Pretoria (South Africa) |
| language | English |
| last_indexed | 2026-06-10T12:36:55.772Z |
| license_str | Other — see source repository |
| 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:2263/99745 Application of RNA sequencing for the identification of microorganisms at the tick-host interface Maritz-Olivier, Christine u18057102@tuks.co.za Olivier, Nicholas Abraham Archary, Merishka UCTD Sustainable Development Goals (SDGs) Rhipicephalus microplus Targeted metagenomics RNA-sequencing Jingmen tick virus Pathogen surveillance Dissertation (MSc (Genetics))--University of Pretoria, 2024. The cattle tick Rhipicephalus microplus, is an invasive hematophagous ecto-parasite in South Africa and is associated with high economic loss in the cattle industry. This tick species transmits pathogens such as Anaplasma marginale, Babesia bigemina and the virulent B. bovis, resulting in high morbidity and mortality in cattle populations. Recently, an RNA virus potentially associated with human disease has been detected in this tick species highlighting the need for proactive pathogen surveillance. The aim of this study was to use Next-generation sequencing to actively detect known and novel pathogens circulating in R. microplus and cattle populations in two South African provinces, Mpumalanga and KwaZulu Natal. RNA-sequencing analyses revealed that R. microplus has a highly diverse virome. Two viruses were detected in the majority of R. microplus samples, Wuhan tick virus 2 (WTV2) and Jingmen tick virus (JMTV), the latter is potentially associated with human disease. To monitor the presence of JMTV and the ubiquitous WTV2, PCR-RFLPs were developed as rapid diagnostic tests. Furthermore, 16S sequencing and microbiome analysis revealed the presence of several genera containing pathogenic bacteria that are a concern for human and animal health such as Coxiella, Anaplasma and Ehrlichia. Using R. microplus ticks reared on pathogen free cattle enabled the prediction of a core microbiome. The analyses suggested the presence of the Coxiella endosymbiont. NGS is an essential tool detecting and monitoring known, emerging and novel pathogens enabling the implementation of prophylactic measures to limit the spread of disease. National Research Foundation (NRF) Biochemistry, Genetics and Microbiology (BGM) MSc (Genetics) Unrestricted Faculty of Natural and Agricultural Sciences SDG-02: Zero Hunger SDG-03: Good health and well-being SDG-15: Life on land 2024-12-04T07:25:00Z 2024-12-04T07:25:00Z 2025-04 2024-08-06 Dissertation * http://hdl.handle.net/2263/99745 DOI:https://doi.org/10.25403/UPresearchdata.27942267.v1 10.25403/UPresearchdata.27900216 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 Sustainable Development Goals (SDGs) Rhipicephalus microplus Targeted metagenomics RNA-sequencing Jingmen tick virus Pathogen surveillance Application of RNA sequencing for the identification of microorganisms at the tick-host interface |
| title | Application of RNA sequencing for the identification of microorganisms at the tick-host interface |
| title_full | Application of RNA sequencing for the identification of microorganisms at the tick-host interface |
| title_fullStr | Application of RNA sequencing for the identification of microorganisms at the tick-host interface |
| title_full_unstemmed | Application of RNA sequencing for the identification of microorganisms at the tick-host interface |
| title_short | Application of RNA sequencing for the identification of microorganisms at the tick-host interface |
| title_sort | application of rna sequencing for the identification of microorganisms at the tick host interface |
| topic | UCTD Sustainable Development Goals (SDGs) Rhipicephalus microplus Targeted metagenomics RNA-sequencing Jingmen tick virus Pathogen surveillance |
| url | http://hdl.handle.net/2263/99745 |