Genomic analysis of DS-1-like human rotavirus A strains uncovers genetic relatedness of NSP4 gene with animal strains in Manhiça District, Southern Mozambique
Abstract Post rotavirus vaccine introduction in Mozambique (September 2015), we documented a decline in rotavirus-associated diarrhoea and genotypes changes in our diarrhoeal surveillance spanning 2008–2021. This study aimed to perform whole-genome sequencing of rotavirus strains from 2009 to 2012 (...
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Nature Portfolio
2024-12-01
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| author | Filomena Manjate Eva D. João Peter Mwangi Percina Chirinda Milton Mogotsi Marcelino Garrine Augusto Messa Delfino Vubil Nélio Nobela Karen Kotloff James P. Nataro Tacilta Nhampossa Sozinho Acácio Goitom Weldegebriel Jacqueline E. Tate Umesh Parashar Jason M. Mwenda Pedro L. Alonso Celso Cunha Martin Nyaga Inácio Mandomando |
| author_facet | Filomena Manjate Eva D. João Peter Mwangi Percina Chirinda Milton Mogotsi Marcelino Garrine Augusto Messa Delfino Vubil Nélio Nobela Karen Kotloff James P. Nataro Tacilta Nhampossa Sozinho Acácio Goitom Weldegebriel Jacqueline E. Tate Umesh Parashar Jason M. Mwenda Pedro L. Alonso Celso Cunha Martin Nyaga Inácio Mandomando |
| author_sort | Filomena Manjate |
| collection | DOAJ |
| description | Abstract Post rotavirus vaccine introduction in Mozambique (September 2015), we documented a decline in rotavirus-associated diarrhoea and genotypes changes in our diarrhoeal surveillance spanning 2008–2021. This study aimed to perform whole-genome sequencing of rotavirus strains from 2009 to 2012 (pre-vaccine) and 2017–2018 (post-vaccine). Rotavirus strains previously detected by conventional PCR as G2P[4], G2P[6], G3P[4], G8P[4], G8P[6], and G9P[6] from children with moderate-to-severe and less-severe diarrhoea and without diarrhoea (healthy community controls) were sequenced using Illumina MiSeq® platform and analysed using bioinformatics tools. All these G and P-type combinations exhibited DS-1-like constellation in the rest of the genome segments as, I2-R2-C2-M2-A2-N2-T2-E2-H2. Phylogenetic analysis revealed that strains from children with and without diarrhoea clustered together with other Mozambican and global strains. Notably, the NSP4 gene of strains G3P[4] and G8P[4] in children with diarrhoea clustered with animal strains, such as bovine and caprine, with similarity identities ranging from 89.1 to 97.0% nucleotide and 89.5-97.0% amino acids. Our findings revealed genetic similarities among rotavirus strains from children with and without diarrhoea, as well as with animal strains, reinforcing the need of implementing studies with One Health approach in our setting, to elucidate the genetic diversity of this important pathogen. |
| format | Article |
| id | doaj-art-f7bf47c8555a4432b4dd2e984b4bd47a |
| institution | DOAJ |
| issn | 2045-2322 |
| language | English |
| publishDate | 2024-12-01 |
| publisher | Nature Portfolio |
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| spelling | doaj-art-f7bf47c8555a4432b4dd2e984b4bd47a2025-08-20T02:39:35ZengNature PortfolioScientific Reports2045-23222024-12-0114111210.1038/s41598-024-79767-4Genomic analysis of DS-1-like human rotavirus A strains uncovers genetic relatedness of NSP4 gene with animal strains in Manhiça District, Southern MozambiqueFilomena Manjate0Eva D. João1Peter Mwangi2Percina Chirinda3Milton Mogotsi4Marcelino Garrine5Augusto Messa6Delfino Vubil7Nélio Nobela8Karen Kotloff9James P. Nataro10Tacilta Nhampossa11Sozinho Acácio12Goitom Weldegebriel13Jacqueline E. Tate14Umesh Parashar15Jason M. Mwenda16Pedro L. Alonso17Celso Cunha18Martin Nyaga19Inácio Mandomando20Centro de Investigação em Saúde de Manhiça (CISM)Centro de Investigação em Saúde de Manhiça (CISM)Next Generation Sequencing Unit, Division of Virology, Faculty of Health Sciences, University of the Free StateCentro de Investigação em Saúde de Manhiça (CISM)Next Generation Sequencing Unit, Division of Virology, Faculty of Health Sciences, University of the Free StateCentro de Investigação em Saúde de Manhiça (CISM)Centro de Investigação em Saúde de Manhiça (CISM)Centro de Investigação em Saúde de Manhiça (CISM)Centro de Investigação em Saúde de Manhiça (CISM)Center for Vaccine Development, School of Medicine, University of MarylandDepartment of Paediatrics, University of Virginia School of MedicineCentro de Investigação em Saúde de Manhiça (CISM)Centro de Investigação em Saúde de Manhiça (CISM)African Rotavirus Surveillance Network, Immunization, Vaccines and Development Program, World Health Organization (WHO), Regional Office for AfricaCenters for Disease Control and Prevention (CDC)Centers for Disease Control and Prevention (CDC)African Rotavirus Surveillance Network, Immunization, Vaccines and Development Program, World Health Organization (WHO), Regional Office for AfricaCentro de Investigação em Saúde de Manhiça (CISM)Global Health and Tropical Medicine, GHTM, Associate Laboratory in Translation and Innovation Towards Global Health, LA-REAL, Instituto de Higiene e Medicina Tropical, IHMT, Universidade NOVA de Lisboa, UNLNext Generation Sequencing Unit, Division of Virology, Faculty of Health Sciences, University of the Free StateCentro de Investigação em Saúde de Manhiça (CISM)Abstract Post rotavirus vaccine introduction in Mozambique (September 2015), we documented a decline in rotavirus-associated diarrhoea and genotypes changes in our diarrhoeal surveillance spanning 2008–2021. This study aimed to perform whole-genome sequencing of rotavirus strains from 2009 to 2012 (pre-vaccine) and 2017–2018 (post-vaccine). Rotavirus strains previously detected by conventional PCR as G2P[4], G2P[6], G3P[4], G8P[4], G8P[6], and G9P[6] from children with moderate-to-severe and less-severe diarrhoea and without diarrhoea (healthy community controls) were sequenced using Illumina MiSeq® platform and analysed using bioinformatics tools. All these G and P-type combinations exhibited DS-1-like constellation in the rest of the genome segments as, I2-R2-C2-M2-A2-N2-T2-E2-H2. Phylogenetic analysis revealed that strains from children with and without diarrhoea clustered together with other Mozambican and global strains. Notably, the NSP4 gene of strains G3P[4] and G8P[4] in children with diarrhoea clustered with animal strains, such as bovine and caprine, with similarity identities ranging from 89.1 to 97.0% nucleotide and 89.5-97.0% amino acids. Our findings revealed genetic similarities among rotavirus strains from children with and without diarrhoea, as well as with animal strains, reinforcing the need of implementing studies with One Health approach in our setting, to elucidate the genetic diversity of this important pathogen.https://doi.org/10.1038/s41598-024-79767-4Rotavirus group AWhole genome sequencingChildren with diarrhoeaChildren without diarrhoeaManhiça districtMozambique |
| spellingShingle | Filomena Manjate Eva D. João Peter Mwangi Percina Chirinda Milton Mogotsi Marcelino Garrine Augusto Messa Delfino Vubil Nélio Nobela Karen Kotloff James P. Nataro Tacilta Nhampossa Sozinho Acácio Goitom Weldegebriel Jacqueline E. Tate Umesh Parashar Jason M. Mwenda Pedro L. Alonso Celso Cunha Martin Nyaga Inácio Mandomando Genomic analysis of DS-1-like human rotavirus A strains uncovers genetic relatedness of NSP4 gene with animal strains in Manhiça District, Southern Mozambique Scientific Reports Rotavirus group A Whole genome sequencing Children with diarrhoea Children without diarrhoea Manhiça district Mozambique |
| title | Genomic analysis of DS-1-like human rotavirus A strains uncovers genetic relatedness of NSP4 gene with animal strains in Manhiça District, Southern Mozambique |
| title_full | Genomic analysis of DS-1-like human rotavirus A strains uncovers genetic relatedness of NSP4 gene with animal strains in Manhiça District, Southern Mozambique |
| title_fullStr | Genomic analysis of DS-1-like human rotavirus A strains uncovers genetic relatedness of NSP4 gene with animal strains in Manhiça District, Southern Mozambique |
| title_full_unstemmed | Genomic analysis of DS-1-like human rotavirus A strains uncovers genetic relatedness of NSP4 gene with animal strains in Manhiça District, Southern Mozambique |
| title_short | Genomic analysis of DS-1-like human rotavirus A strains uncovers genetic relatedness of NSP4 gene with animal strains in Manhiça District, Southern Mozambique |
| title_sort | genomic analysis of ds 1 like human rotavirus a strains uncovers genetic relatedness of nsp4 gene with animal strains in manhica district southern mozambique |
| topic | Rotavirus group A Whole genome sequencing Children with diarrhoea Children without diarrhoea Manhiça district Mozambique |
| url | https://doi.org/10.1038/s41598-024-79767-4 |
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