Uncovering the First Atypical DS-1-like G1P[8] Rotavirus Strains That Circulated during Pre-Rotavirus Vaccine Introduction Era in South Africa
Emergence of DS-1-like G1P[8] group A rotavirus (RVA) strains during post-rotavirus vaccination period has recently been reported in several countries. This study demonstrates, for the first time, rare atypical DS-1-like G1P[8] RVA strains that circulated in 2008 during pre-vaccine era in South Afri...
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MDPI AG
2020-05-01
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| Series: | Pathogens |
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| Online Access: | https://www.mdpi.com/2076-0817/9/5/391 |
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| author | Peter N. Mwangi Milton T. Mogotsi Sebotsana P. Rasebotsa Mapaseka L. Seheri M. Jeffrey Mphahlele Valantine N. Ndze Francis E. Dennis Khuzwayo C. Jere Martin M. Nyaga |
| author_facet | Peter N. Mwangi Milton T. Mogotsi Sebotsana P. Rasebotsa Mapaseka L. Seheri M. Jeffrey Mphahlele Valantine N. Ndze Francis E. Dennis Khuzwayo C. Jere Martin M. Nyaga |
| author_sort | Peter N. Mwangi |
| collection | DOAJ |
| description | Emergence of DS-1-like G1P[8] group A rotavirus (RVA) strains during post-rotavirus vaccination period has recently been reported in several countries. This study demonstrates, for the first time, rare atypical DS-1-like G1P[8] RVA strains that circulated in 2008 during pre-vaccine era in South Africa. Rotavirus positive samples were subjected to whole-genome sequencing. Two G1P[8] strains (RVA/Human-wt/ZAF/UFS-NGS-MRC-DPRU1971/2008/G1P[8] and RVA/Human-wt/ZAF/UFS-NGS-MRC-DPRU1973/2008/G1P[8]) possessed a DS-1-like genome constellation background (I2-R2-C2-M2-A2-N2-T2-E2-H2). The outer VP4 and VP7 capsid genes of the two South African G1P[8] strains had the highest nucleotide (amino acid) nt (aa) identities of 99.6–99.9% (99.1–100%) with the VP4 and the VP7 genes of a locally circulating South African strain, RVA/Human-wt/ZAF/MRC-DPRU1039/2008/G1P[8]. All the internal backbone genes (VP1–VP3, VP6, and NSP1-NSP5) had the highest nt (aa) identities with cognate internal genes of another locally circulating South African strain, RVA/Human-wt/ZAF/MRC-DPRU2344/2008/G2P[6]. The two study strains emerged through reassortment mechanism involving locally circulating South African strains, as they were distinctly unrelated to other reported atypical G1P[8] strains. The identification of these G1P[8] double-gene reassortants during the pre-vaccination period strongly supports natural RVA evolutionary mechanisms of the RVA genome. There is a need to maintain long-term whole-genome surveillance to monitor such atypical strains. |
| first_indexed | 2024-03-10T19:42:51Z |
| format | Article |
| id | doaj.art-799bbe5025054e1f9c0dbde426cd1554 |
| institution | Directory Open Access Journal |
| issn | 2076-0817 |
| language | English |
| last_indexed | 2024-03-10T19:42:51Z |
| publishDate | 2020-05-01 |
| publisher | MDPI AG |
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| series | Pathogens |
| spelling | doaj.art-799bbe5025054e1f9c0dbde426cd15542023-11-20T01:06:48ZengMDPI AGPathogens2076-08172020-05-019539110.3390/pathogens9050391Uncovering the First Atypical DS-1-like G1P[8] Rotavirus Strains That Circulated during Pre-Rotavirus Vaccine Introduction Era in South AfricaPeter N. Mwangi0Milton T. Mogotsi1Sebotsana P. Rasebotsa2Mapaseka L. Seheri3M. Jeffrey Mphahlele4Valantine N. Ndze5Francis E. Dennis6Khuzwayo C. Jere7Martin M. Nyaga8Next Generation Sequencing Unit, Division of Virology, Faculty of Health Sciences, University of the Free State, Bloemfontein 9300, South AfricaNext Generation Sequencing Unit, Division of Virology, Faculty of Health Sciences, University of the Free State, Bloemfontein 9300, South AfricaNext Generation Sequencing Unit, Division of Virology, Faculty of Health Sciences, University of the Free State, Bloemfontein 9300, South AfricaDiarrhoeal Pathogens Research Unit, Sefako Makgatho Health Sciences University, Medunsa 0204, Pretoria, South AfricaSouth African Medical Research Council, 1 Soutpansberg Road, Pretoria 0001, South AfricaFaculty of Health Sciences, University of Buea, P.O. Box 63, Buea, CameroonNoguchi Memorial Institute for Medical Research, University of Ghana, P.O. Box LG581, Legon, GhanaCentre for Global Vaccine Research, Institute of Infection and Global Health, University of Liverpool, Ronald Ross Building, 8 West Derby Street, Liverpool L69 7BE, UKNext Generation Sequencing Unit, Division of Virology, Faculty of Health Sciences, University of the Free State, Bloemfontein 9300, South AfricaEmergence of DS-1-like G1P[8] group A rotavirus (RVA) strains during post-rotavirus vaccination period has recently been reported in several countries. This study demonstrates, for the first time, rare atypical DS-1-like G1P[8] RVA strains that circulated in 2008 during pre-vaccine era in South Africa. Rotavirus positive samples were subjected to whole-genome sequencing. Two G1P[8] strains (RVA/Human-wt/ZAF/UFS-NGS-MRC-DPRU1971/2008/G1P[8] and RVA/Human-wt/ZAF/UFS-NGS-MRC-DPRU1973/2008/G1P[8]) possessed a DS-1-like genome constellation background (I2-R2-C2-M2-A2-N2-T2-E2-H2). The outer VP4 and VP7 capsid genes of the two South African G1P[8] strains had the highest nucleotide (amino acid) nt (aa) identities of 99.6–99.9% (99.1–100%) with the VP4 and the VP7 genes of a locally circulating South African strain, RVA/Human-wt/ZAF/MRC-DPRU1039/2008/G1P[8]. All the internal backbone genes (VP1–VP3, VP6, and NSP1-NSP5) had the highest nt (aa) identities with cognate internal genes of another locally circulating South African strain, RVA/Human-wt/ZAF/MRC-DPRU2344/2008/G2P[6]. The two study strains emerged through reassortment mechanism involving locally circulating South African strains, as they were distinctly unrelated to other reported atypical G1P[8] strains. The identification of these G1P[8] double-gene reassortants during the pre-vaccination period strongly supports natural RVA evolutionary mechanisms of the RVA genome. There is a need to maintain long-term whole-genome surveillance to monitor such atypical strains.https://www.mdpi.com/2076-0817/9/5/391atypical strainsgenome constellationreassortmentrotaviruswhole-genome characterization |
| spellingShingle | Peter N. Mwangi Milton T. Mogotsi Sebotsana P. Rasebotsa Mapaseka L. Seheri M. Jeffrey Mphahlele Valantine N. Ndze Francis E. Dennis Khuzwayo C. Jere Martin M. Nyaga Uncovering the First Atypical DS-1-like G1P[8] Rotavirus Strains That Circulated during Pre-Rotavirus Vaccine Introduction Era in South Africa Pathogens atypical strains genome constellation reassortment rotavirus whole-genome characterization |
| title | Uncovering the First Atypical DS-1-like G1P[8] Rotavirus Strains That Circulated during Pre-Rotavirus Vaccine Introduction Era in South Africa |
| title_full | Uncovering the First Atypical DS-1-like G1P[8] Rotavirus Strains That Circulated during Pre-Rotavirus Vaccine Introduction Era in South Africa |
| title_fullStr | Uncovering the First Atypical DS-1-like G1P[8] Rotavirus Strains That Circulated during Pre-Rotavirus Vaccine Introduction Era in South Africa |
| title_full_unstemmed | Uncovering the First Atypical DS-1-like G1P[8] Rotavirus Strains That Circulated during Pre-Rotavirus Vaccine Introduction Era in South Africa |
| title_short | Uncovering the First Atypical DS-1-like G1P[8] Rotavirus Strains That Circulated during Pre-Rotavirus Vaccine Introduction Era in South Africa |
| title_sort | uncovering the first atypical ds 1 like g1p 8 rotavirus strains that circulated during pre rotavirus vaccine introduction era in south africa |
| topic | atypical strains genome constellation reassortment rotavirus whole-genome characterization |
| url | https://www.mdpi.com/2076-0817/9/5/391 |
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