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Next-generation sequencing of a human-animal reassortant G6P[14] rotavirus A strain from a child hospitalized with diarrhoea

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Abstract

We previously reported the VP4 and the VP7 genotypes of the first G6P[14] rotavirus strain (RVA/Human-wt/GHA/M0084/2010/G6P[14]) from the stool of an infant with diarrhoea in Ghana. In the current study, we obtained the complete genome sequences using Illumina MiSeq next-generation sequencing to enable us to determine the host species origin of the genes by phylogenetic analysis. The genotype constellation was G6-P[14]-I2-R2-C2-M2-A11-N2-T6-E2-H3. Phylogenetic analysis showed that M0084 was a reassortant strain from RVAs of both artiodactyl and human host species origin. The level of sequence identity of the individual genes of M0084 to other sequences in the GenBank ranged from 95.2 to 99.5%; however, there was no single strain from the GenBank database with a complete genome sequence that was highly similar to that of M0084. To help trace the source of such unique gene pools being introduced into human RVAs, it will be useful to examine RVA sequences from potential reservoirs such as sheep and goats, which are common domestic animals in this locality.

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Acknowledgements

The authors acknowledge the Staff of the West African Regional Rotavirus Reference Laboratory of the Department of Electron Microscopy and Histopathology, Noguchi Memorial Institute for Medical Research, for their technical support. We also express our gratitude to the National Institute of Infectious Diseases, Tokyo, Japan, for providing reagents, the Illumina MiSeq platform and expertise for the complete genome sequencing of the rotavirus strain reported in this study.

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Authors and Affiliations

  1. Department of Electron Microscopy and Histopathology, Noguchi Memorial Institute for Medical Research, College of Health Sciences, University of Ghana, Legon, Accra, Ghana

    Susan Afua Damanka, Francis Ekow Dennis, Belinda Larteley Lartey, Chantal Ama Agbemabiese & George Enyimah Armah

  2. School of Public Health, Faculty of Health Sciences, University of Namibia, Windhoek, Namibia

    Kofi Mensah Nyarko

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  1. Susan Afua Damanka
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  2. Francis Ekow Dennis
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  3. Belinda Larteley Lartey
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  4. Kofi Mensah Nyarko
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  5. Chantal Ama Agbemabiese
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  6. George Enyimah Armah
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Correspondence to Susan Afua Damanka.

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Approved by the Institutional Review Board, Noguchi Memorial Institute for Medical Research, University of Ghana, Legon, Accra, Ghana.

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Damanka, S.A., Dennis, F.E., Lartey, B.L. et al. Next-generation sequencing of a human-animal reassortant G6P[14] rotavirus A strain from a child hospitalized with diarrhoea. Arch Virol 165, 1003–1005 (2020). https://doi.org/10.1007/s00705-020-04543-4

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  • DOI: https://doi.org/10.1007/s00705-020-04543-4

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