Molecular analysis of group A rotaviruses detected in hospitalized children from Rawalpindi, Pakistan during 2014
As a part of strategy to control diarrheal diseases, World Health Organization (WHO) recommends to include rotavirus vaccines in national immunization programs. Sentinel surveillance networks have been established to monitor rotavirus disease burden and genotype distribution in both pre and post vac...
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| Veröffentlicht in: | Infection, genetics and evolution genetics and evolution, 2017-09, Vol.53, p.160-166 |
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| creator | Umair, Massab Abbasi, Bilal Haider Nisar, Nadia Alam, Muhammad Masroor Sharif, Salmaan Shaukat, Shahzad Rana, Muhammad Suleman Khurshid, Adnan Mujtaba, Ghulam Aamir, Uzma Bashir Zaidi, Syed Sohail Zahoor |
| description | As a part of strategy to control diarrheal diseases, World Health Organization (WHO) recommends to include rotavirus vaccines in national immunization programs. Sentinel surveillance networks have been established to monitor rotavirus disease burden and genotype distribution in both pre and post vaccine era in many countries. Unfortunately, due to lack of proper surveillance programs, data on rotavirus disease burden and genotype distribution from Pakistan is scarce. We investigated 502 stool samples from children ( |
| doi_str_mv | 10.1016/j.meegid.2017.05.009 |
| format | Article |
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•Detection of globally common G1, G2, G3, G9 and emerging G12 genotypes•Increased prevalence of G12P[6]•Our finding strengthens the need for RVA vaccine introduction.</description><identifier>ISSN: 1567-1348</identifier><identifier>EISSN: 1567-7257</identifier><identifier>DOI: 10.1016/j.meegid.2017.05.009</identifier><identifier>PMID: 28527973</identifier><language>eng</language><publisher>Netherlands: Elsevier B.V</publisher><subject>Child, Hospitalized ; Child, Preschool ; Epidemiological Monitoring ; Feces - virology ; Female ; Gastroenteritis - epidemiology ; Gastroenteritis - virology ; Genotype ; Humans ; Infant ; Infant, Newborn ; Male ; Molecular Epidemiology ; Molecular Typing ; Pakistan ; Pakistan - epidemiology ; Phylogeny ; Prevalence ; RNA, Viral - genetics ; Rotavirus ; Rotavirus - classification ; Rotavirus - genetics ; Rotavirus - isolation & purification ; Rotavirus Infections - epidemiology ; Rotavirus Infections - virology ; Sequence Analysis, DNA ; Viral Proteins - genetics</subject><ispartof>Infection, genetics and evolution, 2017-09, Vol.53, p.160-166</ispartof><rights>2017 Elsevier B.V.</rights><rights>Copyright © 2017 Elsevier B.V. All rights reserved.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c362t-610a50bc921cc33c4bb90d817a31066ecce7e8aba768295c0568e43e3283afbd3</citedby><cites>FETCH-LOGICAL-c362t-610a50bc921cc33c4bb90d817a31066ecce7e8aba768295c0568e43e3283afbd3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktohtml>$$Uhttps://dx.doi.org/10.1016/j.meegid.2017.05.009$$EHTML$$P50$$Gelsevier$$H</linktohtml><link.rule.ids>314,780,784,3550,27924,27925,45995</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/28527973$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Umair, Massab</creatorcontrib><creatorcontrib>Abbasi, Bilal Haider</creatorcontrib><creatorcontrib>Nisar, Nadia</creatorcontrib><creatorcontrib>Alam, Muhammad Masroor</creatorcontrib><creatorcontrib>Sharif, Salmaan</creatorcontrib><creatorcontrib>Shaukat, Shahzad</creatorcontrib><creatorcontrib>Rana, Muhammad Suleman</creatorcontrib><creatorcontrib>Khurshid, Adnan</creatorcontrib><creatorcontrib>Mujtaba, Ghulam</creatorcontrib><creatorcontrib>Aamir, Uzma Bashir</creatorcontrib><creatorcontrib>Zaidi, Syed Sohail Zahoor</creatorcontrib><title>Molecular analysis of group A rotaviruses detected in hospitalized children from Rawalpindi, Pakistan during 2014</title><title>Infection, genetics and evolution</title><addtitle>Infect Genet Evol</addtitle><description>As a part of strategy to control diarrheal diseases, World Health Organization (WHO) recommends to include rotavirus vaccines in national immunization programs. Sentinel surveillance networks have been established to monitor rotavirus disease burden and genotype distribution in both pre and post vaccine era in many countries. Unfortunately, due to lack of proper surveillance programs, data on rotavirus disease burden and genotype distribution from Pakistan is scarce. We investigated 502 stool samples from children (<5years) hospitalized due to gastroenteritis in Rawalpindi, Pakistan during 2014 for the presence of group A rotavirus (RVA) and its genotypic diversity. Among 147 ELISA positive samples, 131 were successfully genotyped for RVA. Common G types detected were G1 (23.6%), followed by G3 (22.9%), G12 (19.8%), G2 (19.08%) and G9 (9.9%). The most common P-type was P[8] (41.2%), followed by P[6] (29%) and P[4] (28.24%). G3P[8] (17.55%) was the most prevalent genotype combination followed by G12P[6] (16.7%), G2P[4] (15.2%) and G1P[8] (14.5%). Mixed infection of rotavirus G-P types was also observed in 6% of samples. Phylogenetic analysis of VP7 and VP4 genes of Pakistani strains showed that G1, G2, G9 and P[4], P[6], P[8] were closely related to strains circulating worldwide as well as previously reported strains from Pakistan. Pakistani G12P[8] strains NIH-BBH-3981 and NIH-BBH-4003 belonged to lineage 3 cluster 3a along with strains from USA and Italy whereas G12P[6] strains NIH-BBH-3978, NIH-BBH-4052 and NIH-BBH-4444 were closely related to strains from Italy, Thailand, United Kingdom and with previously reported G12 strains from Pakistan within lineage 3 cluster 3b. This pre-vaccination data supports the need for RVA vaccine inclusion at our national level and will be helpful in assessing the effect of vaccination on RVA genotype diversity due to vaccine selection pressure once post-vaccination data becomes available.
•Detection of globally common G1, G2, G3, G9 and emerging G12 genotypes•Increased prevalence of G12P[6]•Our finding strengthens the need for RVA vaccine introduction.</description><subject>Child, Hospitalized</subject><subject>Child, Preschool</subject><subject>Epidemiological Monitoring</subject><subject>Feces - virology</subject><subject>Female</subject><subject>Gastroenteritis - epidemiology</subject><subject>Gastroenteritis - virology</subject><subject>Genotype</subject><subject>Humans</subject><subject>Infant</subject><subject>Infant, Newborn</subject><subject>Male</subject><subject>Molecular Epidemiology</subject><subject>Molecular Typing</subject><subject>Pakistan</subject><subject>Pakistan - epidemiology</subject><subject>Phylogeny</subject><subject>Prevalence</subject><subject>RNA, Viral - genetics</subject><subject>Rotavirus</subject><subject>Rotavirus - classification</subject><subject>Rotavirus - genetics</subject><subject>Rotavirus - isolation & purification</subject><subject>Rotavirus Infections - epidemiology</subject><subject>Rotavirus Infections - virology</subject><subject>Sequence Analysis, DNA</subject><subject>Viral Proteins - genetics</subject><issn>1567-1348</issn><issn>1567-7257</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2017</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNp9kEtP3DAQgC1EVR7tP0DIRw7d4EcSJ5dKCNFSCdQK0bPl2JNltk4c7AREf32NdumR08xI37w-Qk44Kzjj9fmmGADW6ArBuCpYVTDW7pFDXtVqpUSl9nc5l2VzQI5S2rAMMtF8JAeiqYRqlTwkj7fBg128idSMxr8kTDT0dB3DMtELGsNsnjAuCRJ1MIOdwVEc6UNIE87G499c2wf0LsJI-xgGemeejZ9wdPiF_jJ_MM1mpG6JOK5pPrX8RD70xif4vIvH5Pe3q_vL69XNz-8_Li9uVlbWYl7VnJmKdbYV3Fopbdl1LXMNV0ZyVtdgLShoTGdU3Yi2sqyqGyglSNFI03dOHpOz7dwphscF0qwHTBa8NyOEJWneMp5HMd5mtNyiNoaUIvR6ijiY-KI506-y9UZvZetX2ZpVOsvObae7DUs3gPvf9GY3A1-3AOQ_nxCiThZhtOAwZpXaBXx_wz8CaJMP</recordid><startdate>201709</startdate><enddate>201709</enddate><creator>Umair, Massab</creator><creator>Abbasi, Bilal Haider</creator><creator>Nisar, Nadia</creator><creator>Alam, Muhammad Masroor</creator><creator>Sharif, Salmaan</creator><creator>Shaukat, Shahzad</creator><creator>Rana, Muhammad Suleman</creator><creator>Khurshid, Adnan</creator><creator>Mujtaba, Ghulam</creator><creator>Aamir, Uzma Bashir</creator><creator>Zaidi, Syed Sohail Zahoor</creator><general>Elsevier B.V</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope></search><sort><creationdate>201709</creationdate><title>Molecular analysis of group A rotaviruses detected in hospitalized children from Rawalpindi, Pakistan during 2014</title><author>Umair, Massab ; 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Sentinel surveillance networks have been established to monitor rotavirus disease burden and genotype distribution in both pre and post vaccine era in many countries. Unfortunately, due to lack of proper surveillance programs, data on rotavirus disease burden and genotype distribution from Pakistan is scarce. We investigated 502 stool samples from children (<5years) hospitalized due to gastroenteritis in Rawalpindi, Pakistan during 2014 for the presence of group A rotavirus (RVA) and its genotypic diversity. Among 147 ELISA positive samples, 131 were successfully genotyped for RVA. Common G types detected were G1 (23.6%), followed by G3 (22.9%), G12 (19.8%), G2 (19.08%) and G9 (9.9%). The most common P-type was P[8] (41.2%), followed by P[6] (29%) and P[4] (28.24%). G3P[8] (17.55%) was the most prevalent genotype combination followed by G12P[6] (16.7%), G2P[4] (15.2%) and G1P[8] (14.5%). Mixed infection of rotavirus G-P types was also observed in 6% of samples. Phylogenetic analysis of VP7 and VP4 genes of Pakistani strains showed that G1, G2, G9 and P[4], P[6], P[8] were closely related to strains circulating worldwide as well as previously reported strains from Pakistan. Pakistani G12P[8] strains NIH-BBH-3981 and NIH-BBH-4003 belonged to lineage 3 cluster 3a along with strains from USA and Italy whereas G12P[6] strains NIH-BBH-3978, NIH-BBH-4052 and NIH-BBH-4444 were closely related to strains from Italy, Thailand, United Kingdom and with previously reported G12 strains from Pakistan within lineage 3 cluster 3b. This pre-vaccination data supports the need for RVA vaccine inclusion at our national level and will be helpful in assessing the effect of vaccination on RVA genotype diversity due to vaccine selection pressure once post-vaccination data becomes available.
•Detection of globally common G1, G2, G3, G9 and emerging G12 genotypes•Increased prevalence of G12P[6]•Our finding strengthens the need for RVA vaccine introduction.</abstract><cop>Netherlands</cop><pub>Elsevier B.V</pub><pmid>28527973</pmid><doi>10.1016/j.meegid.2017.05.009</doi><tpages>7</tpages></addata></record> |
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| subjects | Child, Hospitalized Child, Preschool Epidemiological Monitoring Feces - virology Female Gastroenteritis - epidemiology Gastroenteritis - virology Genotype Humans Infant Infant, Newborn Male Molecular Epidemiology Molecular Typing Pakistan Pakistan - epidemiology Phylogeny Prevalence RNA, Viral - genetics Rotavirus Rotavirus - classification Rotavirus - genetics Rotavirus - isolation & purification Rotavirus Infections - epidemiology Rotavirus Infections - virology Sequence Analysis, DNA Viral Proteins - genetics |
| title | Molecular analysis of group A rotaviruses detected in hospitalized children from Rawalpindi, Pakistan during 2014 |
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