Detection of Different Enteric Viruses in Children with Diarrheal Disease: Evidence of the High Frequency of Mixed Infections

Overview

Journal Access Microbiol

Specialty Microbiology

Date 2020 Sep 25

PMID 32974508

Citations 5

Authors

Vaishali S Tatte

Varanasi Gopalkrishna

Affiliations

Soon will be listed here.

Abstract

Enteric viruses play a major role in causing diarrhea in children. Early identification of the causative pathogen is still a challenge in the clinical laboratory. A multiplex PCR assay is a useful tool to screen a large number of clinical samples especially in an outbreak situation. In this study, a multiplex reverse transcription (RT)-PCR assay was developed to detect nine enteric viruses such as group A rotavirus, norovirus GGII, sapovirus, adenovirus, astrovirus, aichivirus, parechovirus, bocavirus and enterovirus in clinical samples of diarrheal cases. Stool samples (=185) collected from infants and children with acute gastroenteritis cases in Pune, western India were analysed for nine different enteric viruses by currently developed multiplex RT- PCR. Predominance of group A rotavirus (76%) followed by enterovirus (11.5%), astrovirus (4.5%), adenovirus (2.7%) and norovirus GII (1.6%) was observed. A total of 44.8 % (82/185) samples analysed by this method showed high frequency of mixed infections. These results highlighted high prevalence and diversity of different enteric viruses in children. The multiplex PCR showed good concordance with monoplex RT-PCR for detection of these enteric viruses in clinical samples. This is the first report on the development of a multiplex RT-PCR assay for detection of multiple enteric viruses in diarrheal diseases from India.

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References

Lanata C, Fischer-Walker C, Olascoaga A, Torres C, Aryee M, Black R . Global causes of diarrheal disease mortality in children <5 years of age: a systematic review. PLoS One. 2013; 8(9):e72788. PMC: 3762858. DOI: 10.1371/journal.pone.0072788. View

Van der Sanden S, de Bruin E, Vennema H, Swanink C, Koopmans M, Van Der Avoort H . Prevalence of human parechovirus in the Netherlands in 2000 to 2007. J Clin Microbiol. 2008; 46(9):2884-9. PMC: 2546772. DOI: 10.1128/JCM.00168-08. View

Allander T, Tammi M, Eriksson M, Bjerkner A, Tiveljung-Lindell A, Andersson B . Cloning of a human parvovirus by molecular screening of respiratory tract samples. Proc Natl Acad Sci U S A. 2005; 102(36):12891-6. PMC: 1200281. DOI: 10.1073/pnas.0504666102. View

Amar C, East C, Gray J, Iturriza-Gomara M, Maclure E, McLAUCHLIN J . Detection by PCR of eight groups of enteric pathogens in 4,627 faecal samples: re-examination of the English case-control Infectious Intestinal Disease Study (1993-1996). Eur J Clin Microbiol Infect Dis. 2007; 26(5):311-23. DOI: 10.1007/s10096-007-0290-8. View

Akhter S, Turegun B, Kiyan M, Gerceker D, Guriz H, Sahin F . [Investigation of seven different RNA viruses associated with gastroenteritis in children under five years old]. Mikrobiyol Bul. 2014; 48(2):233-41. DOI: 10.5578/mb.7374. View

Sano K, Hamada H, Hirose S, Sugiura K, Harada S, Koizumi M . Prevalence and characteristics of human parechovirus and enterovirus infection in febrile infants. Pediatr Int. 2017; 60(2):142-147. DOI: 10.1111/ped.13467. View

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. PMC: 87765. DOI: 10.1128/JCM.39.2.498-505.2001. View

Yan H, Nguyen T, Phan T, Okitsu S, Li Y, Ushijima H . Development of RT-multiplex PCR assay for detection of adenovirus and group A and C rotaviruses in diarrheal fecal specimens from children in China. Kansenshogaku Zasshi. 2004; 78(8):699-709. DOI: 10.11150/kansenshogakuzasshi1970.78.699. View

Roman E, Wilhelmi I, Colomina J, Villar J, Cilleruelo M, Nebreda V . Acute viral gastroenteritis: proportion and clinical relevance of multiple infections in Spanish children. J Med Microbiol. 2003; 52(Pt 5):435-440. DOI: 10.1099/jmm.0.05079-0. View

10.

Llor C, Bjerrum L . Antimicrobial resistance: risk associated with antibiotic overuse and initiatives to reduce the problem. Ther Adv Drug Saf. 2014; 5(6):229-41. PMC: 4232501. DOI: 10.1177/2042098614554919. View

11.

Yamashita T, Sakae K, Tsuzuki H, Suzuki Y, Ishikawa N, Takeda N . Complete nucleotide sequence and genetic organization of Aichi virus, a distinct member of the Picornaviridae associated with acute gastroenteritis in humans. J Virol. 1998; 72(10):8408-12. PMC: 110230. DOI: 10.1128/JVI.72.10.8408-8412.1998. View

12.

Gomara M, Wong C, Blome S, Desselberger U, Gray J . Molecular characterization of VP6 genes of human rotavirus isolates: correlation of genogroups with subgroups and evidence of independent segregation. J Virol. 2002; 76(13):6596-601. PMC: 136279. DOI: 10.1128/jvi.76.13.6596-6601.2002. View

13.

Stockmann C, Pavia A, Graham B, Vaughn M, Crisp R, Poritz M . Detection of 23 Gastrointestinal Pathogens Among Children Who Present With Diarrhea. J Pediatric Infect Dis Soc. 2016; 6(3):231-238. PMC: 5907859. DOI: 10.1093/jpids/piw020. View

14.

Khamrin P, Okame M, Thongprachum A, Nantachit N, Nishimura S, Okitsu S . A single-tube multiplex PCR for rapid detection in feces of 10 viruses causing diarrhea. J Virol Methods. 2011; 173(2):390-3. DOI: 10.1016/j.jviromet.2011.02.012. View

15.

Chow B, Ou Z, Esper F . Newly recognized bocaviruses (HBoV, HBoV2) in children and adults with gastrointestinal illness in the United States. J Clin Virol. 2009; 47(2):143-7. DOI: 10.1016/j.jcv.2009.11.030. View

16.

Brault A, Fang Y, Reisen W . Multiplex qRT-PCR for the Detection of Western Equine Encephalomyelitis, St. Louis Encephalitis, and West Nile Viral RNA in Mosquito Pools (Diptera: Culicidae). J Med Entomol. 2015; 52(3):491-9. PMC: 4581483. DOI: 10.1093/jme/tjv021. View

17.

Chhabra P, Payne D, Szilagyi P, Edwards K, Staat M, Shirley S . Etiology of viral gastroenteritis in children <5 years of age in the United States, 2008-2009. J Infect Dis. 2013; 208(5):790-800. DOI: 10.1093/infdis/jit254. View

18.

Ouyang Y, Ma H, Jin M, Wang X, Wang J, Xu L . Etiology and epidemiology of viral diarrhea in children under the age of five hospitalized in Tianjin, China. Arch Virol. 2012; 157(5):881-7. DOI: 10.1007/s00705-012-1235-9. View

19.

Rohayem J, Berger S, Juretzek T, Herchenroder O, Mogel M, Poppe M . A simple and rapid single-step multiplex RT-PCR to detect Norovirus, Astrovirus and Adenovirus in clinical stool samples. J Virol Methods. 2004; 118(1):49-59. DOI: 10.1016/j.jviromet.2004.01.016. View

20.

Lu L, Jia R, Zhong H, Xu M, Su L, Cao L . Molecular characterization and multiple infections of rotavirus, norovirus, sapovirus, astrovirus and adenovirus in outpatients with sporadic gastroenteritis in Shanghai, China, 2010-2011. Arch Virol. 2015; 160(5):1229-38. DOI: 10.1007/s00705-015-2387-1. View