Genetic diversity and molecular epidemiology of human rhinoviruses in South Africa

Details

• Alternative Title:
  Influenza Other Respir Viruses
• Personal Author:
  Pretorius, Marthi A ; Tempia, Stefano ; Treurnicht, Florette K ; Walaza, Sibongile ; Cohen, Adam L ; Moyes, Jocelyn ; Hellferscee, Orienka ; Variava, Ebrahim ; Dawood, Halima ; Chhagan, Meera ; Haffjee, Sumayya ; Madhi, Shabir A ; Cohen, Cheryl ; Venter, Marietjie
• Description:
  Background
  
  Rhinoviruses (RV) are a well-established cause of respiratory illness. RV-C has been associated with more severe illness. We aimed to characterize and compare the clinical presentations and disease severity of different RV type circulating in South Africa.
  
  Method
  
  We performed two analyses of RV-positive specimens identified through surveillance in South Africa across all age groups. First, RV-positive specimens identified through severe acute respiratory illness (SARI) surveillance in four provinces was randomly selected from 2009 to 2010 for molecular characterization. Second, RV-positive specimens identified through SARI, influenza-like illness (ILI) and control surveillance at hospitals and outpatient clinics in during 2012–2013 were used to determine the association of RV type with severe disease. Selected specimens were sequenced, and phylogenetic analysis was performed.
  
  Results
  
  Among the 599 sequenced specimens from 2009 to 2010 and 2012 to 2013, RV-A (285, 48%) and RV-C (247, 41%) were more commonly identified than RV-B (67, 11%), with no seasonality and a high genetic diversity. A higher prevalence of RV infection was identified in cases with SARI [515/962 (26%); aRRR = 1·6; 95% CI 1·21; 2·2] and ILI [356/962 (28%); aRRR = 1·9; 95% CI 1·37; 2·6] compared with asymptomatic controls (91/962, 22%). There was no difference in disease severity between the different type when comparing SARI, ILI and controls.
  
  Conclusion
  
  All three type of RV were identified in South Africa, although RV-A and RV-C were more common than RV-B. RV was associated with symptomatic respiratory illness; however, there was no association between RV type and disease severity.
  
  
• Subjects:
  Adolescent Adult Child Child, Preschool Female Genetic Variation Humans Infant Male Middle Aged Molecular Epidemiology Molecular Sequence Data Phylogeny Picornaviridae Infections Rhinovirus Young Adult

  More +
• Source:
  Influenza Other Respir Viruses. 2014; 8(5):567-573
• Pubmed ID:
  24990601
• Pubmed Central ID:
  PMC4181821
• Document Type:
  Journal Article
• Funding:
  5U51IP000155/IP/NCIRD CDC HHS/United States
• Place as Subject:
  South Africa
• Volume:
  8
• Issue:
  5
• Collection(s):
  CDC Public Access
• Main Document Checksum:
  urn:sha256:234ef6ef085d7570cea3549d1adcf608f2545959d60cce5dac81048f1fb06cab
• Download URL:
  https://stacks.cdc.gov/view/cdc/25759/cdc_25759_DS1.pdf
• File Type:
  [PDF - 446.44 KB ]