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Sequencing and phylogenetic analysis of human group A rotavirus genotypes circulating among diarrheic children in Edo State, Nigeria

Article

Last updated: 25 Dec 2024

Subjects

-

Tags

Medical virology

Abstract

rotaviruses are one of the vital causative agents of acute gastroenteritis (AGE) in young children worldwide. Genotyping of detected RVA strains is needed for a more extensive knowledge of the epidemiology of rotaviral infections. This descriptive cross-sectional study aimed to evaluate the circulation of RVA genotypes in diarrheic children living in Edo State, Nigeria. A total of 400 stool samples collected from children less than five years with acute diarrhea were initially screened for RVA antigen by immumochromatographic method, and the RVA antigen-positive samples were subsequently analyzed using Reverse Transcription Polymerase Chain Reaction (RT-PCR), multiplex PCR and sequencing of the VP7 and VP4 gene segments of the RVA strains. Phylogenetic trees were constructed from the nucleotide sequences using the neighbor joining algorithm in MEGA software, version 6. Seventeen stool samples were confirmed as RVA-positive by the first round RT-PCR out of the twenty RVA antigen-positive samples that were examined. Based on RT-PCR assay, the prevalence of RVA which caused diarrhea in children less than five years was estimated at 4.25%. All the 17 stool samples that were confirmed RVA-positive by first round RT-PCR were successfully genotyped for VP7-G and VP4-P genes. Multiplex PCR revealed that G2[P6] was the most frequently found genotype combination (1.50%) rather than the G1[P8] (1.25%) which occurred most frequently worldwide. G9[P6] strains were responsible for 0.50% of RVA prevalence. Unusual RVA strains carrying genotype G2[P8] accounted for a prevalence of 0.50% while mixed infections caused by the G2G9[P6] strains also accounted for a prevalence of 0.50%.

DOI

10.21608/mid.2023.212296.1524

Keywords

Group A rotavirus, Reverse Transcription Polymerase Chain Reaction, Type VP7-G, Type VP4-P, diarrhea

Authors

First Name

Osazee

Last Name

Izevbuwa

MiddleName

Ekundayo

Affiliation

Department of biological sciences, igbinedion university okada

Email

osazeeizevbuwa@gmail.com

City

-

Orcid

0000-0002-2122-6995

Volume

4

Article Issue

3

Related Issue

42578

Issue Date

2023-08-01

Receive Date

2023-05-20

Publish Date

2023-08-01

Page Start

777

Page End

791

Print ISSN

2682-4132

Online ISSN

2682-4140

Link

https://mid.journals.ekb.eg/article_302976.html

Detail API

https://mid.journals.ekb.eg/service?article_code=302976

Order

12

Type

Original Article

Type Code

1,157

Publication Type

Journal

Publication Title

Microbes and Infectious Diseases

Publication Link

https://mid.journals.ekb.eg/

MainTitle

Sequencing and phylogenetic analysis of human group A rotavirus genotypes circulating among diarrheic children in Edo State, Nigeria

Details

Type

Article

Created At

25 Dec 2024