Molecular Detection of Enteric Viruses in Under-Five Children with Diarrhea in Debre Tabor, Northwest Ethiopia

References

• Institute for Health Metrics and Evaluation (IHME). Findings from the global burden of disease study 2017. Seattle, WA, USA: IHME; 2018.
   Google Scholar
• Troeger C, Khalil IA, Rao PC, et al. Rotavirus vaccination and the global burden of rotavirus diarrhea among children younger than 5 years. JAMA Pediatr. 2018;172(10):958–965. doi:10.1001/jamapediatrics.2018.1960
   PubMed Web of Science ®Google Scholar
• Liu L, Oza S, Hogan D, et al. (2016) Global, regional, and national causes of under-5 mortality in 2000-15: an updated systematic analysis with implications for the sustainable development goals. Lancet. 2016;388(10063):3027–3035. doi:10.1016/S0140-6736(16)31593-8
   PubMed Web of Science ®Google Scholar
• Green RJ. Viral Infections in Children Volume II. Publishing SI, editor. Springer; Vol. 2, 2017:1–224
   Google Scholar
• Moore NE, Wang J, Hewitt J, et al. Metagenomic analysis of viruses in feces from unsolved outbreaks of gastroenteritis in humans. J Clin Microbiol. 2015;53(1):15–21. doi:10.1128/JCM.02029-14
   Web of Science ®Google Scholar
• Holtz LR, Cao S, Zhao G, et al. Geographic variation in the eukaryotic virome of human diarrhea. Virology. 2014;468–470:556–564. doi:10.1016/j.virol.2014.09.012
   PubMed Web of Science ®Google Scholar
• Tate JE, Burton AH, Boschi-Pinto C, Parashar UD. Global, regional, and national estimates of rotavirus mortality in children <5 years of age, 2000–2013. Clin Infect Dis. 2016;62(2):S96–S105. doi:10.1093/cid/civ1013
   Web of Science ®Google Scholar
• Bányai K, Kemenesi G, Budinski I, et al. Candidate new rotavirus species in Schreiber’s bats, Serbia. Infect Genet Evol. 2017;48:19–26. doi:10.1016/j.meegid.2016.12.002
   PubMed Web of Science ®Google Scholar
• Kirkwood CD. Genetic and antigenic diversity of human rotaviruses: potential impact on vaccination programs. J Infect Dis. 2010;202(S1):S43–8. doi:10.1086/653548
   PubMed Web of Science ®Google Scholar
• World Health Organization. Rotavirus vaccines: an update. WklyEpidemiol Rec. 2009;84:533–540.
   PubMedGoogle Scholar
• Mwenda JM, Burke RM, Shaba K, et al. Implementation of rotavirus surveillance and vaccine introduction-world health organization African region, 2007–2016. MMWR. 2017;66(43):1192–1196. doi:10.15585/mmwr.mm6643a7
   Web of Science ®Google Scholar
• Oka T, Wang Q, Katayama K, Saif LJ. Comprehensive review of human sapoviruses. Clin Microbiol Rev. 2015;28(1):32–53. doi:10.1128/CMR.00011-14
   PubMed Web of Science ®Google Scholar
• Robilotti E, Deresinski S, Pinsky BA. Norovirus. Clin Microbiol Rev. 2015;28(1):134–164. doi:10.1128/CMR.00075-14
   PubMed Web of Science ®Google Scholar
• Oka T, Lu Z, Phan T, Delwart EL, Saif LJ, Wang Q. Genetic characterization and classification of human and animal sapoviruses. PLoS One. 2016;11(5):e0156373. doi:10.1371/journal.pone.0156373
   PubMed Web of Science ®Google Scholar
• Chhabra P, de Graaf M, Parra GI, et al. Updated classification of norovirus genogroups and genotypes. J Gen Virol. 2019;100(10):1393–1406. doi:10.1099/jgv.0.001318
   PubMed Web of Science ®Google Scholar
• Vinje J. Advances in laboratory methods for detection and typing of norovirus. J Clin Microbiol. 2015;53(2):373–381. doi:10.1128/JCM.01535-14
   PubMed Web of Science ®Google Scholar
• de Graaf M, van Beek J, Koopmans MP. Human norovirus transmission and evolution in a changing world. Nat Rev Microbiol. 2016;14(7):421–433. doi:10.1038/nrmicro.2016.48
   PubMed Web of Science ®Google Scholar
• Lynch J, Kajon A. Adenovirus, epidemiology, global spread of novel serotypes, and advances in treatment and prevention. Semin Respir Crit Care Med. 2016;37(04):586–602. doi:10.1055/s-0036-1584923
   Web of Science ®Google Scholar
• Khanal S, Ghimire P, Dhamoon AS. The repertoire of adenovirus in human disease: the innocuous to the deadly. Biomedicines. 2018;6(1):30. doi:10.3390/biomedicines6010030
   PubMed Web of Science ®Google Scholar
• Ghebremedhin B. Human adenovirus: viral pathogen with increasing importance. Eur J Microbiol Immunol. 2014;4(1):26–33. doi:10.1556/EuJMI.4.2014.1.2
   Google Scholar
• Reis TAV, Assis ASF, Do Valle DA, et al. The role of human adenoviruses type 41 in acute diarrheal disease in Minas Gerais after rotavirus vaccination. Braz J Microbiol. 2016;47(1):243–250. doi:10.1016/j.bjm.2015.11.011
   PubMed Web of Science ®Google Scholar
• Ouedraogo N, Kaplon J, Bonkoungou IJO, et al. Prevalence and genetic diversity of enteric viruses in children with diarrhea in Ouagadougou, Burkina Faso. PLoS One. 2016;11(4):e0153652. doi:10.1371/journal.pone.0153652
   PubMed Web of Science ®Google Scholar
• Perot P, Lecuit M, Eloit M. Astrovirus diagnostics. Viruses. 2017;9(1):10. doi:10.3390/v9010010
   Web of Science ®Google Scholar
• Vu D-L, Bosch A, Pinto RM, Guix S. Epidemiology of classic and novel human astrovirus: gastroenteritis and beyond. Viruses. 2017;9(2):33. doi:10.3390/v9020033
   Web of Science ®Google Scholar
• Bosch A, Pintó RM, Guix S. Human astroviruses. Clin Microbiol Rev. 2014;27(4):1048–1074. doi:10.1128/CMR.00013-14
   Web of Science ®Google Scholar
• Tapparel C, Siegrist F, Petty TJ, Kaiser L. Picornavirus and enterovirus diversity with associated human diseases. Infect Genet Evol. 2013;14:282–293. doi:10.1016/j.meegid.2012.10.016
   PubMed Web of Science ®Google Scholar
• Pietsch C, Schuster V, Liebert UG. A hospital based study on inter- and intragenotypic diversity of human rotavirus A VP4 and VP7 gene segments, Germany. J Clin Virol. 2011;50(2):136–141. doi:10.1016/j.jcv.2010.10.013
   Web of Science ®Google Scholar
• Pietsch C, Ennuschat N, Härtel Liebert UG. Within-host evolution of virus variants during chronic infection with novel GII.P26-GII.26 norovirus. J Clin Virol. 2018;108:96–102. doi:10.1016/j.jcv.2018.09.013
   Web of Science ®Google Scholar
• Hoehne M, Schreier E. Detection of Norovirus genogroup I and II by multiplex real-time RT- PCR using a 3′-minor groove binder-DNA probe. BMC Infect Dis. 2006;6(1):69. doi:10.1186/1471-2334-6-69
   Web of Science ®Google Scholar
• Pietsch C, Liebert UG. Intrahost viral evolution during chronic sapovirus infections. J Clin Virol. 2019;113:1–7. doi:10.1016/j.jcv.2019.02.001
   Web of Science ®Google Scholar
• Heim A, Ebnet C, Harste G, Pring-Akerblom P. Rapid and quantitative detection of human adenovirus DNA by real-time PCR. J Med. 2003;70:228–239.
   Google Scholar
• Logan C, O’Leary JJ, O’Sullivan N. Real-time reverse transcription PCR detection of norovirus, sapovirus and astrovirus as causative agents of acute viral gastroenteritis. J Virol Methods. 2007;146(1–2):36–44. doi:10.1016/j.jviromet.2007.05.031
   Web of Science ®Google Scholar
• Nix WA, Oberste MS, Pallansch MA. Sensitive, seminested PCR amplification of VP1 sequences for direct identification of all enterovirus serotypes from original clinical specimens. J Clin Microbiol. 2006;44(8):2698–2704. doi:10.1128/JCM.00542-06
   PubMed Web of Science ®Google Scholar
• Savolainen C, Mulders MN, Hovi T. Phylogenetic analysis of rhinovirus isolates collected during successive epidemic seasons. Virus Res. 2002;85(1):41–46. doi:10.1016/S0168-1702(02)00016-3
   Web of Science ®Google Scholar
• Kroneman A, Vennema H, Deforche K, et al. An automated genotyping tool for enteroviruses and noroviruses. J Clin Virol. 2011;51(2):121–125. doi:10.1016/j.jcv.2011.03.006
   PubMed Web of Science ®Google Scholar
• Allard A, Albinsson B, Wadell G. Rapid typing of human adenoviruses by a general PCR combined with restriction endonuclease analysis. J Clin Microbiol. 2001;39(2):498–505. doi:10.1128/JCM.39.2.498-505.2001
   PubMed Web of Science ®Google Scholar
• Damtie D, Melku M, Tessema B, Vlasova AN. Prevalence and genetic diversity of rotaviruses among under-five children in Ethiopia: a systematic review and meta-analysis. Viruses. 2020;12(1):62. doi:10.3390/v12010062
   PubMed Web of Science ®Google Scholar
• Azage M, Kumie A, Worku A, Bagtzoglou AC. Childhood diarrhea in high and low hotspot districts of Amhara Region, northwest Ethiopia: a multilevel modeling. J Health Popul Nutr. 2016;35(1):13. doi:10.1186/s41043-016-0052-2
   PubMed Web of Science ®Google Scholar
• Abebe A, Teka T, Kassa T, et al. Hospital based surveillance for rotavirus gastroenteritis in children younger than 5 years of age in Ethiopia: 2007–2012. Pediatr Infect Dis J. 2014;33(1):S28–S33. doi:10.1097/INF.0000000000000048
   Web of Science ®Google Scholar
• Yassin MA, Kirby A, Mengistu AA, et al. Unusual norovirus and rotavirus genotypes in Ethiopia. Paediatr Int Child Health. 2012;32(1):51–55. doi:10.1179/1465328111Y.0000000047
   Web of Science ®Google Scholar
• Gelaw A, Pietsch C, Liebert UG. Molecular epidemiology of rotaviruses in Northwest Ethiopia after national vaccine introduction. Infect Genet Evol. 2018;65:300–307. doi:10.1016/j.meegid.2018.08.016
   Web of Science ®Google Scholar
• Altan E, Aiemjoy K, Phan TG, et al. Enteric virome of Ethiopian children participating in a clean water intervention trial. PLoS One. 2018;13(8):e0202054. doi:10.1371/journal.pone.0202054
   PubMed Web of Science ®Google Scholar
• Gelaw A, Pietsch C, Mann P, Liebert UG. Molecular detection and characterisation of sapoviruses and noroviruses in outpatient children with diarrhoea in Northwest Ethiopia. Epidemimol Infect. 2019;147(e218):1–7.
   Google Scholar
• Sisay Z, Djikeng A, Berhe N, et al. Prevalence and molecular characterization of human noroviruses and sapoviruses in Ethiopia. Arch Virol. 2016;161(8):2169–2182. doi:10.1007/s00705-016-2887-7
   Web of Science ®Google Scholar
• Makhaola K, Moyo S, Kebaabetswe LP. Distribution and genetic variability of sapoviruses in Africa. Viruses. 2020;12(5):490. doi:10.3390/v12050490
   Web of Science ®Google Scholar
• Gelaw A, Pietsch C, Liebert UG. Genetic diversity of human adenovirus and human astrovirus in children with acute gastroenteritis in Northwest Ethiopia. Arch Virol. 2019;164(12):2985–2993. doi:10.1007/s00705-019-04421-8
   PubMed Web of Science ®Google Scholar
• Ayukekbong JA, Fobbing C, Lindh M, Nkuo-Akenji T, Bergström T, Norder H. Molecular analysis of enterovirus in Cameroon by partial 5ʹUTR-VP4 gene sequencing reveals a high genetic diversity and frequency of infections. J Med Virol. 2014;86(12):2092–2101. doi:10.1002/jmv.23926
   Web of Science ®Google Scholar
• Faleye TOC, Adewumi MO, Coker BA, Nudamajo FY, Adeniji JA. Direct detection and identification of enteroviruses from faeces of healthy Nigerian children using a cell-culture independent RT-seminested PCR assay. Adv Virol. 2016;2016:1412838. doi:10.1155/2016/1412838
   Google Scholar
• Fernandez-Garcia MD, Kebe O, Fall AD, Ndiaye K. Identification and molecular characterization of non-polio enteroviruses from children with acute flaccid paralysis in West Africa, 2013–2014. Sci Rep. 2017;7(1):3808. doi:10.1038/s41598-017-03835-1
   Web of Science ®Google Scholar
• Opanda SM, Wamunyokoli F, Khamadi S, Coldren R, Bulimo WD. Genotyping of enteroviruses isolated in Kenya from pediatric patients using partial VP1 region. Springer Plus. 2016;5(1):158. doi:10.1186/s40064-016-1834-0
   Google Scholar
• Gelaw A, Pietsch C, Tigabu Z, Liebert UG. Genotyping of enteroviruses and human parechoviruses highlights their diversity in Northwest Ethiopia. J Med Virol. 2020;92(12):2891–3895. doi:10.1002/jmv.25765
   Web of Science ®Google Scholar