Sequence analysis of partial VP7 gene of human rotaviruses in clinical specimens, raw sewage and Nile water samples in Egypt | ||
| Egyptian Journal of Botany | ||
| Article 6, Volume 64, Issue 4, December 2024, Pages 73-79 PDF (1.43 M) | ||
| Document Type: Special Issue (Original Article) | ||
| DOI: 10.21608/ejbo.2024.238305.2499 | ||
| Authors | ||
| Waleed Morsy* ; Mohammed Kamal Rashed1; Marwa A. kamel2; Seaham F. Hasan3 | ||
| 1Environmental Virology Lab., Water Pollution Research Department, Environment and Climate Change Research Institute, National Research Centre, Dokki, Giza, Egypt; | ||
| 2Environmental Virology Lab., Water Pollution Research Department, Environment and Climate Change Research Institute, National Research Centre, Dokki, Giza, Egypt. | ||
| 3Botany and Microbiology Department, Faculty of Science, Al-Azhar University (Girls Branch), Yossuf Abbas st., Nasr city, P.O. 11754, Cairo, Egypt | ||
| Abstract | ||
| The objective of this study is to estimate the most common G genotypes of human rotaviruses in addition to the most common sequence of partial VP7 gene in clinical specimens, raw sewage, and Nile water samples in Egypt. A total of five hundred and fifty-four stool specimens were collected from December 2020 to April 2022 from children ≤ 3 years old. Of 554 specimens, 182 specimens were positive for rotavirus VP6 using RT-PCR (32.85%). Using multiplex nested and semi-nested RT-PCR, a higher prevalence of common P genotypes than that of common G genotypes was observed in clinical specimens, raw sewage, and Nile water samples. Only common P genotypes could be detected, while P[9] genotype (uncommon P genotype) could not be detected in clinical specimens, raw sewage, and Nile water samples. Of the common G genotypes, G1 was the most prevalent in clinical specimens, raw sewage, and Nile water samples followed by G3. The uncommon G genotypes detected were G9 and G8 in clinical specimens, raw sewage, and Nile water samples. Sequence analysis of 1062 bp of VP7 gene for G1 genotype (the most common G in clinical specimens, raw sewage, and Nile water samples) showed high similarity with human rotavirus Wa strain. In conclusion, the highest frequency of G1 genotype among common G genotypes in clinical specimens, sewage, and Nile water samples may make it a suitable G genotype to be added to the common P genotypes in candidate recombinant subunit vaccine in Egypt and similar patterns in other countries. | ||
| Keywords | ||
| Human rotaviruses; G genotypes and P genotypes; Clinical specimens and water samples; Silent and non-silent mutations; Vaccine development; Recombinant subunit vaccine | ||
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