Molecular Characterization & Recombination Analysis of Complete Enterovirus-88 Isolated from Acute Flaccid Paralysis Cases in India

Overview

Journal Indian J Med Res

Specialty General Medicine

Date 2023 Apr 11

PMID 37040226

Authors

Ashok Munivenkatappa

Dimpal A Nyayanit

Sreelekshmy Mohandas

Asia Luwang

Anita Shete

H Hanumaiah

Devendra T Mourya

Pragya D Yadav

Affiliations

Soon will be listed here.

Abstract

Background & Objectives: Focus on non-polio enteroviruses (NPEVs) causing acute flaccid paralysis (AFP) due to myelitis has increased with the containment of the poliovirus. Enterovirus-B88 (EV-B88) has been associated with the AFP cases in Bangladesh, Ghana, South Africa, Thailand and India. In India, EV-B88 infection was linked to AFP a decade ago; however, to date, no complete genome has been made available. In this study, the complete genome sequence of EV-B88 was identified and reported from two different States (Bihar and Uttar Pradesh) in India using the next-generation sequencing technique.

Methods: Virus isolation was performed on the three AFP suspected cases as per the WHO-recommended protocol. Samples showing cytopathic effects in the human Rhabdocarcinoma were labelled as NPEVs. Next-generation sequencing was performed on these NPEVs to identify the aetiological agent. The contiguous sequences (contigs) generated were identified, and reference-based mapping was performed.

Results: EV-B88 sequences retrieved in our study were found to be 83 per cent similar to the EV-B88 isolate from Bangladesh in 2001 (strain: BAN01-10398; Accession number: AY843306.1). Recombination analyses of these samples demonstrate recombination events with sequences from echovirus-18 and echovirus-30.

Interpretation & Conclusions: Recombination events in the EV-B serotypes are known, and this work reconfirms the same for EV-B88 isolates also. This study is a step in increasing the awareness about EV-B88 in India and emphasizes future studies to be conducted in the identification of other types of EV present in India.

References

Munivenkatappa A, Yadav P, Nyayanit D, Majumdar T, Sangal L, Jain S . Molecular diversity of Coxsackievirus A10 circulating in the southern and northern region of India [2009-17]. Infect Genet Evol. 2018; 66:101-110. DOI: 10.1016/j.meegid.2018.09.004. View

Silva P, Stark K, Mockenhaupt F, Reither K, Weitzel T, Ignatius R . Molecular characterization of enteric viral agents from children in northern region of Ghana. J Med Virol. 2008; 80(10):1790-8. DOI: 10.1002/jmv.21231. View

Gradel C, Terrazos Miani M, Baumann C, Barbani M, Neuenschwander S, Leib S . Whole-Genome Sequencing of Human Enteroviruses from Clinical Samples by Nanopore Direct RNA Sequencing. Viruses. 2020; 12(8). PMC: 7472277. DOI: 10.3390/v12080841. View

Lukashev A . Role of recombination in evolution of enteroviruses. Rev Med Virol. 2004; 15(3):157-67. DOI: 10.1002/rmv.457. View

Tauriainen S, Oikarinen S, Oikarinen M, Hyoty H . Enteroviruses in the pathogenesis of type 1 diabetes. Semin Immunopathol. 2010; 33(1):45-55. DOI: 10.1007/s00281-010-0207-y. View

Tapparel C, Siegrist F, Petty T, Kaiser L . Picornavirus and enterovirus diversity with associated human diseases. Infect Genet Evol. 2012; 14:282-93. DOI: 10.1016/j.meegid.2012.10.016. View

Kumar S, Stecher G, Tamura K . MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets. Mol Biol Evol. 2016; 33(7):1870-4. PMC: 8210823. DOI: 10.1093/molbev/msw054. View

Chehadeh W, Ali S, Maimoona S . Molecular characterization of three enteroviral strains isolated in Kuwait from young children with serious conditions. J Infect Dev Ctries. 2019; 11(8):626-639. DOI: 10.3855/jidc.9065. View

Patil P, Chitambar S, Gopalkrishna V . Molecular surveillance of non-polio enterovirus infections in patients with acute gastroenteritis in Western India: 2004-2009. J Med Virol. 2014; 87(1):154-61. DOI: 10.1002/jmv.23992. View

10.

Oberste M, Maher K, Nix W, Michele S, Uddin M, Schnurr D . Molecular identification of 13 new enterovirus types, EV79-88, EV97, and EV100-101, members of the species Human Enterovirus B. Virus Res. 2007; 128(1-2):34-42. DOI: 10.1016/j.virusres.2007.04.001. View

11.

Oberste M, Feeroz M, Maher K, Nix W, Engel G, Hasan K . Characterizing the picornavirus landscape among synanthropic nonhuman primates in Bangladesh, 2007 to 2008. J Virol. 2012; 87(1):558-71. PMC: 3536389. DOI: 10.1128/JVI.00837-12. View

12.

Yadav P, Nyayanit D, Shete A, Jain S, Majumdar T, Chaubal G . Complete genome sequencing of Kaisodi virus isolated from ticks in India belonging to Phlebovirus genus, family Phenuiviridae. Ticks Tick Borne Dis. 2018; 10(1):23-33. DOI: 10.1016/j.ttbdis.2018.08.012. View

13.

Martin D, Murrell B, Golden M, Khoosal A, Muhire B . RDP4: Detection and analysis of recombination patterns in virus genomes. Virus Evol. 2015; 1(1):vev003. PMC: 5014473. DOI: 10.1093/ve/vev003. View

14.

Marjomaki V, Turkki P, Huttunen M . Infectious Entry Pathway of Enterovirus B Species. Viruses. 2015; 7(12):6387-99. PMC: 4690868. DOI: 10.3390/v7122945. View

15.

Kumar A, Shukla D, Kumar R, Idris M, Misra U, Dhole T . Molecular epidemiological study of enteroviruses associated with encephalitis in children from India. J Clin Microbiol. 2012; 50(11):3509-12. PMC: 3486256. DOI: 10.1128/JCM.01483-12. View

16.

LENNETTE E, Fox V, SCHMIDT N, Culver J . The Coe virus: an apparently new virus recovered from patients with mild respiratory disease. Am J Hyg. 1958; 68(3):272-87. View

17.

Ganorkar N, Patil P, Tikute S, Gopalkrishna V . Genetic characterization of enterovirus strains identified in Hand, Foot and Mouth Disease (HFMD): Emergence of B1c, C1 subgenotypes, E2 sublineage of CVA16, EV71 and CVA6 strains in India. Infect Genet Evol. 2017; 54:192-199. DOI: 10.1016/j.meegid.2017.05.024. View

18.

Lugo D, Krogstad P . Enteroviruses in the early 21st century: new manifestations and challenges. Curr Opin Pediatr. 2015; 28(1):107-13. PMC: 4750492. DOI: 10.1097/MOP.0000000000000303. View

19.

Rao C, Yergolkar P, Shankarappa K . Antigenic diversity of enteroviruses associated with nonpolio acute flaccid paralysis, India, 2007-2009. Emerg Infect Dis. 2012; 18(11):1833-40. PMC: 3559176. DOI: 10.3201/eid1811.111457. View

20.

Kumthip K, Khamrin P, Ushijima H, Maneekarn N . Multiple enterovirus genotypes circulating in children hospitalized with acute gastroenteritis in Thailand. Infect Genet Evol. 2017; 55:324-331. DOI: 10.1016/j.meegid.2017.10.002. View