New insights into Human Pegivirus-1 (HPgV-1) genotypes diversity in sub-Saharan Africa

In the framework of a viral discovery research program using metagenomics, Human Pegivirus-1 reads (HPgV-1, formerly known as GBV-C) were detected in plasma pools of healthy blood donors from seven sub-Saharan African countries. For five of these countries, Mauritania, Mali, Niger, Burundi and Madag...

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Published in:Infection, genetics and evolution genetics and evolution, 2021-10, Vol.94 (11), p.104995, Article 104995
Main Authors: Sauvage, Virginie, Gomez, Johanna, Boizeau, Laure, Vandenbogaert, Mathias, Barbier, Léa, Tagny, Claude Tayou, Rakoto Alson, Aimée Olivat, Bizimana, Pascal, Coulibaly, Sekou Oumar, Boullahi, Mohamed Abdallahi, Soumana, Hadiza, Mbensa, Guy, Caro, Valérie, Laperche, Syria
Format: Article
Language:English
Subjects:
5’-NCR
Blood donations
Burkina Faso
Burundi
Cameroon
Democratic Republic of the Congo
Flaviviridae Infections - virology
GB virus C - genetics
GB virus C - physiology
Genetic Variation
Genotype
Genotype diversity
Hepatitis, Viral, Human - virology
Human health and pathology
Human Pegivirus-1
Infectious diseases
Life Sciences
Madagascar
Mali
Mauritania
Niger
Sub-Saharan Africa
Viral metagenomics
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Summary:In the framework of a viral discovery research program using metagenomics, Human Pegivirus-1 reads (HPgV-1, formerly known as GBV-C) were detected in plasma pools of healthy blood donors from seven sub-Saharan African countries. For five of these countries, Mauritania, Mali, Niger, Burundi and Madagascar, no data about HPgV-1 genotypes was reported to date. To confirm our metagenomic findings and further investigate the genotype diversity and distribution of HPgV-1 in Africa, 400 blood donations from these five localities as well as from Cameroon, the Democratic Republic of Congo (DRC) and the Burkina Faso were screened with a RT-nested PCR targeting the viral 5’NCR region. Amplified products were sequenced, and the virus was genotyped by phylogenetic analysis. Out of the 400 plasma samples tested, 65 were positive for HPgV-1 RNA and 61 were successfully genotyped. Among these, 54 strains (88.5%) clustered with genotype 1, six (9.8%) with genotype 2 and one (1.6%) with genotype 5. Genotype 1 was observed in all countries studied, except in Madagascar, genotype 2 was detected in Mauritania and Madagascar, and genotype 5 in DRC. Overall, our results extend the geographic distribution of HPgV-1 in Africa and provide six additional nearly complete genomes. Considering that some HPgV-1 genotypes have been reported as potential predictive indicators of lower disease progression in HIV-1 infected subjects, further investigations should be conducted to better understand the positive impact, if any, of this virus. •First description of HPgV-1 genotypes in six sub-Saharan African countries•Genotype 1 was newly reported in Mauritania, Mali, Niger, Burundi and Burkina Faso•Genotype 2 was newly reported in Mauritania and Madagascar•Six additional complete genomes of HPgV-1 belonging to genotypes 1 and 2•Previously reported HPgV-1 genotypes from Cameroon and DRC were also confirmed
ISSN:1567-1348
1567-7257
DOI:10.1016/j.meegid.2021.104995