Microbial metagenomic approach uncovers the first rabbit haemorrhagic disease virus genome in Sub-Saharan Africa

Abstract Rabbit Haemorrhagic Disease (RHD) causes high morbidity and mortality in rabbits and hares. Here, we report the first genomic characterization of lagovirus GI.2 virus in domestic rabbits from sub-Saharan Africa. We used an unbiased microbial metagenomic Next Generation Sequencing (mNGS) app...

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Autores principales:	Anise N. Happi, Olusola A. Ogunsanya, Judith U. Oguzie, Paul E. Oluniyi, Alhaji S. Olono, Jonathan L. Heeney, Christian T. Happi
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/40ab283dd4244188aa478f207ba38887
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spelling	oai:doaj.org-article:40ab283dd4244188aa478f207ba388872021-12-02T18:18:51ZMicrobial metagenomic approach uncovers the first rabbit haemorrhagic disease virus genome in Sub-Saharan Africa10.1038/s41598-021-91961-22045-2322https://doaj.org/article/40ab283dd4244188aa478f207ba388872021-07-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-91961-2https://doaj.org/toc/2045-2322Abstract Rabbit Haemorrhagic Disease (RHD) causes high morbidity and mortality in rabbits and hares. Here, we report the first genomic characterization of lagovirus GI.2 virus in domestic rabbits from sub-Saharan Africa. We used an unbiased microbial metagenomic Next Generation Sequencing (mNGS) approach to diagnose the pathogen causing the suspected outbreak of RHD in Ibadan, Nigeria. The liver, spleen, and lung samples of five rabbits from an outbreak in 2 farms were analyzed. The mNGS revealed one full and two partial RHDV2 genomes on both farms. Phylogenetic analysis showed close clustering with RHDV2 lineages from Europe (98.6% similarity with RHDV2 in the Netherlands, and 99.1 to 100% identity with RHDV2 in Germany), suggesting potential importation. Subsequently, all the samples were confirmed by RHDV virus-specific RT-PCR targeting the VP60 gene with the expected band size of 398 bp for the five rabbits sampled. Our findings highlight the need for increased genomic surveillance of RHDV2 to track its origin, understand its diversity and to inform public health policy in Nigeria, and Sub-Saharan Africa.Anise N. HappiOlusola A. OgunsanyaJudith U. OguziePaul E. OluniyiAlhaji S. OlonoJonathan L. HeeneyChristian T. HappiNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-8 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Anise N. Happi Olusola A. Ogunsanya Judith U. Oguzie Paul E. Oluniyi Alhaji S. Olono Jonathan L. Heeney Christian T. Happi Microbial metagenomic approach uncovers the first rabbit haemorrhagic disease virus genome in Sub-Saharan Africa
description	Abstract Rabbit Haemorrhagic Disease (RHD) causes high morbidity and mortality in rabbits and hares. Here, we report the first genomic characterization of lagovirus GI.2 virus in domestic rabbits from sub-Saharan Africa. We used an unbiased microbial metagenomic Next Generation Sequencing (mNGS) approach to diagnose the pathogen causing the suspected outbreak of RHD in Ibadan, Nigeria. The liver, spleen, and lung samples of five rabbits from an outbreak in 2 farms were analyzed. The mNGS revealed one full and two partial RHDV2 genomes on both farms. Phylogenetic analysis showed close clustering with RHDV2 lineages from Europe (98.6% similarity with RHDV2 in the Netherlands, and 99.1 to 100% identity with RHDV2 in Germany), suggesting potential importation. Subsequently, all the samples were confirmed by RHDV virus-specific RT-PCR targeting the VP60 gene with the expected band size of 398 bp for the five rabbits sampled. Our findings highlight the need for increased genomic surveillance of RHDV2 to track its origin, understand its diversity and to inform public health policy in Nigeria, and Sub-Saharan Africa.
format	article
author	Anise N. Happi Olusola A. Ogunsanya Judith U. Oguzie Paul E. Oluniyi Alhaji S. Olono Jonathan L. Heeney Christian T. Happi
author_facet	Anise N. Happi Olusola A. Ogunsanya Judith U. Oguzie Paul E. Oluniyi Alhaji S. Olono Jonathan L. Heeney Christian T. Happi
author_sort	Anise N. Happi
title	Microbial metagenomic approach uncovers the first rabbit haemorrhagic disease virus genome in Sub-Saharan Africa
title_short	Microbial metagenomic approach uncovers the first rabbit haemorrhagic disease virus genome in Sub-Saharan Africa
title_full	Microbial metagenomic approach uncovers the first rabbit haemorrhagic disease virus genome in Sub-Saharan Africa
title_fullStr	Microbial metagenomic approach uncovers the first rabbit haemorrhagic disease virus genome in Sub-Saharan Africa
title_full_unstemmed	Microbial metagenomic approach uncovers the first rabbit haemorrhagic disease virus genome in Sub-Saharan Africa
title_sort	microbial metagenomic approach uncovers the first rabbit haemorrhagic disease virus genome in sub-saharan africa
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/40ab283dd4244188aa478f207ba38887
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Microbial metagenomic approach uncovers the first rabbit haemorrhagic disease virus genome in Sub-Saharan Africa

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