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01-12-2020 | Rhabdomyosarcoma | Original Contribution

Isolation and Genomic Characterization of Echovirus 11 from faeces of a Non-Human Primate in Nigeria

Authors: T. O. C. Faleye, U. E. George, D. Klapsa, M. Majumdar, A. O. Oragwa, M. O. Adewumi, J. Martin, J. A. Adeniji

Published in: EcoHealth | Issue 4/2020

Abstract

We recently investigated the presence of enteroviruses (EVs) in non-human primates (NHPs) in Northern Nigeria and documented the presence of EV-A76 of South-East Asian ancestry in an NHP. In this study, we go further to ask if we could also find EVs in NHPs indigenous to the forested South-south Nigeria. Fresh faecal samples were collected from the floor of 10 cages housing NHPs in Cross River Nigeria, re-suspended in PBS and subjected to RNA extraction, cDNA synthesis, PanEnt 5′-UTR and PanEnt VP1 PCR assays. None of the samples was positive for the PanEnt VP1 assay, but one sample was positive for PanEnt 5′-UTR PCR. This sample was subsequently inoculated into RD cell line, produced CPE and the isolate analysed by PCR assays, next-generation whole genome sequencing and passage in four different cell lines showing replication in two of them. Analysis of the complete genome of the isolate identified it as an Echovirus 11 (E11) and revealed a recombinant genomic structure. Phylogenetic analysis showed that the E11 NHP strain was related to human clinical isolates suggesting a zoonotic behaviour. We describe the first isolation and complete genome characterization of an E11 obtained from an NHP in Nigeria having zoonotic potential.

Adeniji JA, Faleye TOC (2014) Isolation and identification of enteroviruses from sewage and sewage contaminated water in Lagos, Nigeria. Food and Environmental Virology 6:75–86CrossRef

Adeniji JA, Oragwa AO, George UE, Ibok UI, Faleye TOC, Adewumi MO (2017) Preponderance of Enterovirus Species C in RD-L20B cell culture negative stool samples from children diagnosed with Acute Flaccid Paralysis in Nigeria. Archives of Virology 162(10):3089–3101CrossRef

Benschop KSM, van der Avoort HG, Jusic E, Vennema H, van Binnendijk R, Duizer E. (2017). Polio and Measles Down the Drain: Environmental Enterovirus Surveillance in the Netherlands, 2005 to 2015. Appl Environ Microbiol. 83(13). pii: e00558–17. doi: https://doi.org/10.1128/AEM.00558-17.

Bina Rai S, H Wan Mansor H, Vasantha T, Norizah I, Chua K.B. (2007). An Outbreak of Echovirus 11 Amongst Neonates in a Confinement Home in Penang, Malaysia. Med J Malaysia Vol 62 No 3

Cross River National Park, Nigeria National Park Service www.en.wikipedia.org/wiki/Cross_River_National_Park (accessed at 12.03.2019).

Enuoh OOO, and Bisong FE. (2014). Global Sustainable Development Agenda: An Implication for Conservation Challenges in Cross River State, Nigeria. Journal of Sustainable Development; 7( 4) doi:https://doi.org/10.5539/jsd.v7n4p211

Fatemi Y, Chakraborty R (2019) Acute Flaccid Myelitis: A Clinical Overview for 2019. Mayo Clin Proc. 94(5):875–881. https://doi.org/10.1016/j.mayocp.2019.03.011CrossRefPubMed

Fernandez-Garcia MD, Kebe O, Fall AD, Ndiaye K (2017) Identification and molecular characterization of non-polio enteroviruses from children with acute flaccid paralysis in West Africa, 2013–2014. Sci Rep. 7(1):3808. https://doi.org/10.1038/s41598-017-03835-1CrossRefPubMedPubMedCentral

Harvala H et al (2011) Detection and genetic characterization of enteroviruses circulating among wild populations of chimpanzees in Cameroon: relationship with human and simian enteroviruses. J. Virol. 85:4480–4486CrossRef

Harvala H, McIntyre CL, Imai N, Clasper L, Djoko CF, LeBreton M, Vermeulen M, Saville A, Mutapi F, Tamoufé U, Kiyang J, Biblia TG, Midzi N, Mduluza T, Pépin J, Njouom R, Smura T, Fair JN, Wolfe ND, Roivainen M, Simmonds P (2012) High seroprevalence of enterovirus infections in apes and old-world monkeys. Emerg Infect Dis. 18(2):283–286CrossRef

Harvala H, Sharp CP, Ngole EM, Delaporte E, Peeters M, Simmonds P (2014) Co-circulation of enteroviruses between apes and humans. J. Gen. Virol. 95(Pt 2):403–407CrossRef

Harvala H, Broberg E, Benschop K, Berginc N, Ladhani S, Susi P, Christiansen C, McKenna J, Allen D, Makiello P, McAllister G, Carmen M, Zakikhany K, Dyrdak R, Nielsen X, Madsen T, Paul J, Moore C, von Eije K, Piralla A, Carlier M, Vanoverschelde L, Poelman R, Anton A, López-Labrador FX, Pellegrinelli L, Keeren K, Maier M, Cassidy H, Derdas S, Savolainen-Kopra C, Diedrich S, Nordbø S, Buesa J, Bailly JL, Baldanti F, MacAdam A, Mirand A, Dudman S, Schuffenecker I, Kadambari S, Neyts J, Griffiths MJ, Richter J, Margaretto C, Govind S, Morley U, Adams O, Krokstad S, Dean J, Pons-Salort M, Prochazka B, Cabrerizo M, Majumdar M, Nebbia G, Wiewel M, Cottrell S, Coyle P, Martin J, Moore C, Midgley S, Horby P, Wolthers K, Simmonds P, Niesters H, Fischer TK (2018) Recommendations for enterovirus diagnostics and characterisation within and beyond Europe. J Clin Virol. 2018(101):11–17

Ho SY, Chiu CH, Huang YC, Chen CJ, Lien R, Chu SM, Huang CG, Tsao KC, Shih SR, Hsu JF (2019) Investigation and successful control of an echovirus 11 outbreak in neonatal intensive care units. Pediatrics and Neonatology. https://doi.org/10.1016/j.pedneo.2019.09.012CrossRefPubMed

http://www.picornaviridae.com/enterovirus/enterovirus.htm

http://www.picornaviridae.com/enterovirus/ev-j/ev_j.htm

Kleinert RDV, Montoya-Diaz E, Khera T, Welsch K, Tegtmeyer B, Hoehl S, Ciesek S, Brown RJP. 2019. Yellow Fever: Integrating Current Knowledge with Technological Innovations to Identify Strategies for Controlling a Re-Emerging Virus. Viruses. 2019 Oct 17;11(10). pii: E960. doi: https://doi.org/10.3390/v11100960.

Kroneman A, Vennema H, Deforche K, Avoort, H.v.d., Penarandac, S., Oberste M.S., Vinjéc, J., Koopmans, M. (2011) An automated genotyping tool for enteroviruses and noroviruses. Journal of Clinical Virology 51:121–125CrossRef

Laassri M, Laassri M, Zagorodnyaya T, Hassin-Baer S, Handsher R, Sofer D, Weil M, Karagiannis K, Simonyan V, Chumakov K, Shulman L (2018) Evolution of echovirus 11 in a chronically infected immunodeficient patient. PLoS Pathog 14(3):e1006943. https://doi.org/10.1371/journal.ppat.1006943CrossRefPubMedPubMedCentral

Lole KS, Bollinger RC, Paranjape RS, Gadkari D, Kulkarni SS, Novak NG et al (1999) Full-length human immunodeficiency virus type 1 genomes from subtype C-infected seroconverters in India, with evidence of intersubtype recombination. J Virol. 73(1):152–160CrossRef

Lulla V, Dinan AM, Hosmillo M, Chaudhry Y, Sherry L, Irigoyen N, Nayak KM, Stonehouse NJ, Zilbauer M, Goodfellow I, Firth AE (2018) An upstream protein-coding region in enteroviruses modulates virus infection in gut epithelial cells. Nat Microbiol. https://doi.org/10.1038/s41564-018-0297-1CrossRefPubMedPubMedCentral

Majumdar M, Klapsa D, Wilton T, Akello J, Anscombe C, Allen D, Mee ET, Minor PD, Martin J (2018) Isolation of Vaccine-Like Poliovirus Strains in Sewage Samples From the United Kingdom. J Infect Dis. 217(8):1222–1230CrossRef

Mombo IM, Berthet N, Lukashev AN, Bleicker T, Brünink S, Léger L, Atencia R, Cox D, Bouchier C, Durand P, Arnathau C, Brazier L, Fair JN, Schneider BS, Drexler JF, Prugnolle F, Drosten C, Renaud F, Leroy EM, Rougeron V (2015) First detection of an enterovirus C99 in a captive chimpanzee with acute flaccid paralysis, from the Tchimpounga Chimpanzee Rehabilitation Center. Republic of Congo. PLoS ONE 10:e0136700CrossRef

Mombo IM, Lukashev AN, Bleicker T, Brünink S, Berthet N, Maganga GD, Durand P, Arnathau C, Boundenga L, Ngoubangoye B, Boué V, Liégeois F, Ollomo B, Prugnolle F, Drexler JF, Drosten C, Renaud F, Rougeron V, Leroy E (2017) African non-human primates host diverse enteroviruses. PLoS ONE 12:e0169067CrossRef

Nielsen SC, Mourier T, Baandrup U, Soland TM, Bertelsen MF, Gilbert MT, Nielsen LP (2012) Probable transmission of coxsackie B3 virus from human to chimpanzee. Denmark. Emerg. Infect. Dis. 18:1163–1165CrossRef

Nix WA, Oberste MS, Pallansch MA (2006) Sensitive, Seminested PCR Amplification of VP1 Sequences for Direct Identification of All Enterovirus Serotypes from Original Clinical Specimens. Journal of Clinical Microbiology 44(8):2698–2704CrossRef

Oberste MS, Maher K, Flemister MR, Marchetti G, Kilpatrick DR, Pallansch MA (2000) Comparison of classic and molecular approaches for the identification of untypeable enteroviruses. Journal of Clinical Microbiology. 38(3):1170–1174CrossRef

Oberste MS, Feeroz MM, Maher K, Nix WA, Engel GA, Hasan KM, Begum S, Oh G, Chowdhury AH, Pallansch MA, Jones-Engel L (2013a) Characterizing the picornavirus landscape among synanthropic nonhuman primates in Bangladesh, 2007 to 2008. J Virol. 87(1):558–571CrossRef

Oberste MS, Feeroz MM, Maher K, Nix WA, Engel GA, Begum S, Hasan KM, Oh G, Pallansch MA, Jones-Engel L (2013b) Naturally acquired picornavirus infections in primates at the Dhaka zoo. J. Virol. 87:572–580CrossRef

Oragwa AO, George UE, Faleye TOC, Adewumi MO, Adeniji JA (2018) Enterovirus-A76 of South-East Asian ancestry in a Captive Chimpanzee (Pan troglodytes) in Jos. Nigeria. Journal of Advances in Microbiology. 9(3):1–8CrossRef

Sadeuh-Mba SA, Bessaud M, Joffret ML, Endegue Zanga MC, Balanant J, Mpoudi Ngole E, Njouom R, Reynes JM, Delpeyroux F, Rousset D (2014) Characterization of enteroviruses from non-human primates in Cameroon revealed virus types widespread in humans along with candidate new types and species. PLoS Negl. Trop. Dis. 8:e3052CrossRef

Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S (2011) MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28:2731–2739CrossRef

World Health Organisation. Polio laboratory Manual. 4th Edition, Geneva (2004).

Title: Isolation and Genomic Characterization of Echovirus 11 from faeces of a Non-Human Primate in Nigeria
Authors: T. O. C. Faleye
U. E. George
D. Klapsa
M. Majumdar
A. O. Oragwa
M. O. Adewumi
J. Martin
J. A. Adeniji
Publication date: 01-12-2020
Publisher: Springer US
Keyword: Rhabdomyosarcoma
Published in: EcoHealth / Issue 4/2020
Print ISSN: 1612-9202
Electronic ISSN: 1612-9210
DOI: https://doi.org/10.1007/s10393-021-01515-1

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Isolation and Genomic Characterization of Echovirus 11 from faeces of a Non-Human Primate in Nigeria

Abstract

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Abstract

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