The burden of human coronavirus infection in children hospitalized with severe lower respiratory tract infection in Cape Town, South Africa (2012-2013)
| dc.contributor.advisor | Muloiwa, Rudzani | |
| dc.contributor.author | Aliyu, Abdulmumuni Samuel | |
| dc.date.accessioned | 2022-06-22T13:55:54Z | |
| dc.date.available | 2022-06-22T13:55:54Z | |
| dc.date.issued | 2022 | |
| dc.date.updated | 2022-06-21T11:40:02Z | |
| dc.description.abstract | Introduction: In order to better understand the epidemiology and burden of human coronaviruses - NL63, HKU1, OC43 and 229E in South Africa, their role in the aetiology of childhood pneumonia needs to be described. Methods: We used data collected between September 2012 – September 2013 from children aged < 13 years with lower respiratory illness at Red Cross War Memorial Children's Hospital. Respiratory samples including a nasopharyngeal swab (NP) and induced sputum (IS) were taken and tested for the four strains of coronaviruses using FTD33 multiplex realtime PCR. Results: A total of 460 respiratory samples were analysed. Of these, 258 (56.0%) were male and 19 (4.1%) HIV infected. The median age of the children was 8 (IQR 4-18) months. Nasopharyngeal (NP) samples were obtained from 460 children while induced sputum (IS) was not available for six children due to sample loss prior to analysis, leaving 454 available for analysis. A total of 42 (9.1%, 95% CI 6.7- 12.1%) participants tested positive for HCoV in at least one of the two specimens. PCR was able to detect a total of 35 (7.7%) cases from the 454 tested IS specimens compared to 23 (5.0%) detected out of 460 NP samples. The commonest detected HCoVs were coronavirus OC43 with 20 (4.3%) detected from either specimen followed by coronavirus NL63 or coronavirus HKU detected in 14 (3.0%) and 10 (2.2%) of positive test samples, respectively. The least common virus detected HCoV was coronavirus 229E detected in both positive test samples of one participant. Overall HCoVs were detected in 23 (8.9%) of boys compared to 19 (9.1%) of the girls who returned a positive test; p=0.856. The overall age distribution of children with PCR detected HCoVs was similar to that of children with a negative result with median age of 10 (IQR 5- 16) months and median of 8 (IQR 4- 19) months, respectively; p=0.535. Prevalence of HCoV was 11/192 (5.7%), 23/153 (15.0%) and 8/115 (7.0%) in children <6 months old, 6-18 months and over 18 months respectively; p=0.008. Conclusion: Children aged 6 to 18 months had double the risk of other age groups. | |
| dc.identifier.apacitation | Aliyu, A. S. (2022). <i>The burden of human coronavirus infection in children hospitalized with severe lower respiratory tract infection in Cape Town, South Africa (2012-2013)</i>. (). ,Faculty of Health Sciences ,Department of Paediatrics and Child Health. Retrieved from http://hdl.handle.net/11427/36506 | en_ZA |
| dc.identifier.chicagocitation | Aliyu, Abdulmumuni Samuel. <i>"The burden of human coronavirus infection in children hospitalized with severe lower respiratory tract infection in Cape Town, South Africa (2012-2013)."</i> ., ,Faculty of Health Sciences ,Department of Paediatrics and Child Health, 2022. http://hdl.handle.net/11427/36506 | en_ZA |
| dc.identifier.citation | Aliyu, A.S. 2022. The burden of human coronavirus infection in children hospitalized with severe lower respiratory tract infection in Cape Town, South Africa (2012-2013). . ,Faculty of Health Sciences ,Department of Paediatrics and Child Health. http://hdl.handle.net/11427/36506 | en_ZA |
| dc.identifier.ris | TY - Master Thesis AU - Aliyu, Abdulmumuni Samuel AB - Introduction: In order to better understand the epidemiology and burden of human coronaviruses - NL63, HKU1, OC43 and 229E in South Africa, their role in the aetiology of childhood pneumonia needs to be described. Methods: We used data collected between September 2012 – September 2013 from children aged < 13 years with lower respiratory illness at Red Cross War Memorial Children's Hospital. Respiratory samples including a nasopharyngeal swab (NP) and induced sputum (IS) were taken and tested for the four strains of coronaviruses using FTD33 multiplex realtime PCR. Results: A total of 460 respiratory samples were analysed. Of these, 258 (56.0%) were male and 19 (4.1%) HIV infected. The median age of the children was 8 (IQR 4-18) months. Nasopharyngeal (NP) samples were obtained from 460 children while induced sputum (IS) was not available for six children due to sample loss prior to analysis, leaving 454 available for analysis. A total of 42 (9.1%, 95% CI 6.7- 12.1%) participants tested positive for HCoV in at least one of the two specimens. PCR was able to detect a total of 35 (7.7%) cases from the 454 tested IS specimens compared to 23 (5.0%) detected out of 460 NP samples. The commonest detected HCoVs were coronavirus OC43 with 20 (4.3%) detected from either specimen followed by coronavirus NL63 or coronavirus HKU detected in 14 (3.0%) and 10 (2.2%) of positive test samples, respectively. The least common virus detected HCoV was coronavirus 229E detected in both positive test samples of one participant. Overall HCoVs were detected in 23 (8.9%) of boys compared to 19 (9.1%) of the girls who returned a positive test; p=0.856. The overall age distribution of children with PCR detected HCoVs was similar to that of children with a negative result with median age of 10 (IQR 5- 16) months and median of 8 (IQR 4- 19) months, respectively; p=0.535. Prevalence of HCoV was 11/192 (5.7%), 23/153 (15.0%) and 8/115 (7.0%) in children <6 months old, 6-18 months and over 18 months respectively; p=0.008. Conclusion: Children aged 6 to 18 months had double the risk of other age groups. DA - 2022_ DB - OpenUCT DP - University of Cape Town KW - Maternal and Child Health LK - https://open.uct.ac.za PY - 2022 T1 - The burden of human coronavirus infection in children hospitalized with severe lower respiratory tract infection in Cape Town, South Africa (2012-2013) TI - The burden of human coronavirus infection in children hospitalized with severe lower respiratory tract infection in Cape Town, South Africa (2012-2013) UR - http://hdl.handle.net/11427/36506 ER - | en_ZA |
| dc.identifier.uri | http://hdl.handle.net/11427/36506 | |
| dc.identifier.vancouvercitation | Aliyu AS. The burden of human coronavirus infection in children hospitalized with severe lower respiratory tract infection in Cape Town, South Africa (2012-2013). []. ,Faculty of Health Sciences ,Department of Paediatrics and Child Health, 2022 [cited yyyy month dd]. Available from: http://hdl.handle.net/11427/36506 | en_ZA |
| dc.language.rfc3066 | eng | |
| dc.publisher.department | Department of Paediatrics and Child Health | |
| dc.publisher.faculty | Faculty of Health Sciences | |
| dc.subject | Maternal and Child Health | |
| dc.title | The burden of human coronavirus infection in children hospitalized with severe lower respiratory tract infection in Cape Town, South Africa (2012-2013) | |
| dc.type | Master Thesis | |
| dc.type.qualificationlevel | Masters | |
| dc.type.qualificationlevel | MPhil |