Genetic characterization and phylogenetic variations of human adenovirus‐F strains circulating in eastern India during 2017–2020
Human adenovirus‐F (HAdV‐F) (genotype 40/41) is the second‐most leading cause of pediatric gastroenteritis after rotavirus, worldwide, accounting for 2.8%–11.8% of infantile diarrheal cases. Earlier studies across eastern India revealed a shift in the predominance of genotypes from HAdV41 in 2007–09...
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| Veröffentlicht in: | Journal of medical virology 2021-11, Vol.93 (11), p.6180-6190 |
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| creator | Chandra, Pritam Lo, Mahadeb Mitra, Suvrotoa Banerjee, Anindita Saha, Priyanka Okamoto, Keinosuke Deb, Alok Kumar Ghosh, Sanat Kumar Manna, Asis Dutta, Shanta Chawla‐Sarkar, Mamta |
| description | Human adenovirus‐F (HAdV‐F) (genotype 40/41) is the second‐most leading cause of pediatric gastroenteritis after rotavirus, worldwide, accounting for 2.8%–11.8% of infantile diarrheal cases. Earlier studies across eastern India revealed a shift in the predominance of genotypes from HAdV41 in 2007–09 to HAdV40 in 2013–14. Thus, the surveillance for HAdV‐F genotypes in this geographical setting was undertaken over 2017–2020 to analyze the viral evolutionary dynamics. A total of 3882 stool samples collected from children (≤5 years) were screened for HAdV‐F positivity by conventional PCR. The hypervariable regions of the hexon and the partial shaft region of long fiber genes were amplified, sequenced, and phylogenetically analyzed with respect to the prototype strains. A marginal decrease in enteric HAdV prevalence was observed (9.04%, n = 351/3882) compared to the previous report (11.8%) in this endemic setting. Children |
| doi_str_mv | 10.1002/jmv.27136 |
| format | Article |
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Earlier studies across eastern India revealed a shift in the predominance of genotypes from HAdV41 in 2007–09 to HAdV40 in 2013–14. Thus, the surveillance for HAdV‐F genotypes in this geographical setting was undertaken over 2017–2020 to analyze the viral evolutionary dynamics. A total of 3882 stool samples collected from children (≤5 years) were screened for HAdV‐F positivity by conventional PCR. The hypervariable regions of the hexon and the partial shaft region of long fiber genes were amplified, sequenced, and phylogenetically analyzed with respect to the prototype strains. A marginal decrease in enteric HAdV prevalence was observed (9.04%, n = 351/3882) compared to the previous report (11.8%) in this endemic setting. Children <2 years were found most vulnerable to enteric HAdV infection. Reduction in adenovirus‐rotavirus co‐infection was evident compared to the sole adenovirus infection. HAdV‐F genotypes 40 and 41 were found to co‐circulate, but HAdV41 was predominant. HAdV40 strains were genetically conserved, whereas HAdV41 strains accumulated new mutations. On the basis of a different set of mutations in their genome, HAdV41 strains segregated into 2 genome type clusters (GTCs). Circulating HAdV41 strains clustered with GTC1 of the fiber gene, for the first time during this study period. This study will provide much‐needed baseline data on the emergence and circulation of HAdV40/41 strains for future vaccine development.</description><identifier>ISSN: 0146-6615</identifier><identifier>EISSN: 1096-9071</identifier><identifier>DOI: 10.1002/jmv.27136</identifier><identifier>PMID: 34138479</identifier><language>eng</language><publisher>United States: Wiley Subscription Services, Inc</publisher><subject>Adenovirus Infections, Human - epidemiology ; Adenovirus Infections, Human - virology ; Adenoviruses ; Adenoviruses, Human - classification ; Adenoviruses, Human - genetics ; Adenoviruses, Human - isolation & purification ; Child, Preschool ; Children ; Diarrhea ; Diarrhea - virology ; Feces - virology ; Female ; Gastroenteritis ; Gastroenteritis - epidemiology ; Gastroenteritis - virology ; Genetic diversity ; genome type cluster (GTC) ; Genomes ; Genotype ; Genotypes ; human adenovirus (HAdV) ; Humans ; India - epidemiology ; Infant ; Infant, Newborn ; Infections ; Long fibers ; Male ; Mutation ; Pediatrics ; phylogenetic analysis ; Phylogeny ; Rotavirus ; Rotavirus - genetics ; rotavirus vaccine ; Rotavirus Vaccines ; Sequence Analysis, DNA ; Strains (organisms) ; Vaccine Development ; Vaccines ; Virology ; Viruses</subject><ispartof>Journal of medical virology, 2021-11, Vol.93 (11), p.6180-6190</ispartof><rights>2021 Wiley Periodicals LLC</rights><rights>2021 Wiley Periodicals LLC.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c3536-77afdcdcd1bbade7ef42ee75b48ac2d24362424d618f64cc6b6064c72ab376aa3</citedby><cites>FETCH-LOGICAL-c3536-77afdcdcd1bbade7ef42ee75b48ac2d24362424d618f64cc6b6064c72ab376aa3</cites><orcidid>0000-0002-7141-1785</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://onlinelibrary.wiley.com/doi/pdf/10.1002%2Fjmv.27136$$EPDF$$P50$$Gwiley$$H</linktopdf><linktohtml>$$Uhttps://onlinelibrary.wiley.com/doi/full/10.1002%2Fjmv.27136$$EHTML$$P50$$Gwiley$$H</linktohtml><link.rule.ids>314,780,784,1417,27924,27925,45574,45575</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/34138479$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Chandra, Pritam</creatorcontrib><creatorcontrib>Lo, Mahadeb</creatorcontrib><creatorcontrib>Mitra, Suvrotoa</creatorcontrib><creatorcontrib>Banerjee, Anindita</creatorcontrib><creatorcontrib>Saha, Priyanka</creatorcontrib><creatorcontrib>Okamoto, Keinosuke</creatorcontrib><creatorcontrib>Deb, Alok Kumar</creatorcontrib><creatorcontrib>Ghosh, Sanat Kumar</creatorcontrib><creatorcontrib>Manna, Asis</creatorcontrib><creatorcontrib>Dutta, Shanta</creatorcontrib><creatorcontrib>Chawla‐Sarkar, Mamta</creatorcontrib><title>Genetic characterization and phylogenetic variations of human adenovirus‐F strains circulating in eastern India during 2017–2020</title><title>Journal of medical virology</title><addtitle>J Med Virol</addtitle><description>Human adenovirus‐F (HAdV‐F) (genotype 40/41) is the second‐most leading cause of pediatric gastroenteritis after rotavirus, worldwide, accounting for 2.8%–11.8% of infantile diarrheal cases. Earlier studies across eastern India revealed a shift in the predominance of genotypes from HAdV41 in 2007–09 to HAdV40 in 2013–14. Thus, the surveillance for HAdV‐F genotypes in this geographical setting was undertaken over 2017–2020 to analyze the viral evolutionary dynamics. A total of 3882 stool samples collected from children (≤5 years) were screened for HAdV‐F positivity by conventional PCR. The hypervariable regions of the hexon and the partial shaft region of long fiber genes were amplified, sequenced, and phylogenetically analyzed with respect to the prototype strains. A marginal decrease in enteric HAdV prevalence was observed (9.04%, n = 351/3882) compared to the previous report (11.8%) in this endemic setting. Children <2 years were found most vulnerable to enteric HAdV infection. Reduction in adenovirus‐rotavirus co‐infection was evident compared to the sole adenovirus infection. HAdV‐F genotypes 40 and 41 were found to co‐circulate, but HAdV41 was predominant. HAdV40 strains were genetically conserved, whereas HAdV41 strains accumulated new mutations. On the basis of a different set of mutations in their genome, HAdV41 strains segregated into 2 genome type clusters (GTCs). Circulating HAdV41 strains clustered with GTC1 of the fiber gene, for the first time during this study period. This study will provide much‐needed baseline data on the emergence and circulation of HAdV40/41 strains for future vaccine development.</description><subject>Adenovirus Infections, Human - epidemiology</subject><subject>Adenovirus Infections, Human - virology</subject><subject>Adenoviruses</subject><subject>Adenoviruses, Human - classification</subject><subject>Adenoviruses, Human - genetics</subject><subject>Adenoviruses, Human - isolation & purification</subject><subject>Child, Preschool</subject><subject>Children</subject><subject>Diarrhea</subject><subject>Diarrhea - virology</subject><subject>Feces - virology</subject><subject>Female</subject><subject>Gastroenteritis</subject><subject>Gastroenteritis - epidemiology</subject><subject>Gastroenteritis - virology</subject><subject>Genetic diversity</subject><subject>genome type cluster (GTC)</subject><subject>Genomes</subject><subject>Genotype</subject><subject>Genotypes</subject><subject>human adenovirus (HAdV)</subject><subject>Humans</subject><subject>India - epidemiology</subject><subject>Infant</subject><subject>Infant, Newborn</subject><subject>Infections</subject><subject>Long fibers</subject><subject>Male</subject><subject>Mutation</subject><subject>Pediatrics</subject><subject>phylogenetic analysis</subject><subject>Phylogeny</subject><subject>Rotavirus</subject><subject>Rotavirus - genetics</subject><subject>rotavirus vaccine</subject><subject>Rotavirus Vaccines</subject><subject>Sequence Analysis, DNA</subject><subject>Strains (organisms)</subject><subject>Vaccine Development</subject><subject>Vaccines</subject><subject>Virology</subject><subject>Viruses</subject><issn>0146-6615</issn><issn>1096-9071</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2021</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNp10cFO3DAQBmCrKoItcOgLVJZ6oYeAPXbs5FihQkGgXoBrNHEc1qvE2drJVsuJQx-gUt-QJ8Gw2x4qVT6M5Pn029JPyHvOjjljcLLoV8eguVBvyIyzUmUl0_wtmTEuVaYUz_fIuxgXjLGiBNgle0JyUUhdzsjPc-vt6Aw1cwxoRhvcA45u8BR9Q5fzdTfcb8UKg3tdRTq0dD71mFBj_bByYYpPj7_OaBwDurQ3LpipS9jfU-epxZiCPb3wjUPaTOHlHhjXT4-_gQE7IDstdtEebuc-uT37cnP6Nbv6dn5x-vkqMyIXKtMa28akw-s6PaxtK8FandeyQAMNSKFAgmwUL1oljVG1YmlqwFpohSj2ydEmdxmG75ONY9W7aGzXobfDFCvIJYi8lFIm-vEfuhim4NPvktKQi6JkkNSnjTJhiDHYtloG12NYV5xVL9VUqZrqtZpkP2wTp7q3zV_5p4sETjbgh-vs-v9J1eX13SbyGSuwm4A</recordid><startdate>202111</startdate><enddate>202111</enddate><creator>Chandra, Pritam</creator><creator>Lo, Mahadeb</creator><creator>Mitra, Suvrotoa</creator><creator>Banerjee, Anindita</creator><creator>Saha, Priyanka</creator><creator>Okamoto, Keinosuke</creator><creator>Deb, Alok Kumar</creator><creator>Ghosh, Sanat Kumar</creator><creator>Manna, Asis</creator><creator>Dutta, Shanta</creator><creator>Chawla‐Sarkar, Mamta</creator><general>Wiley Subscription Services, Inc</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>7QL</scope><scope>7TK</scope><scope>7U9</scope><scope>8FD</scope><scope>C1K</scope><scope>FR3</scope><scope>H94</scope><scope>K9.</scope><scope>M7N</scope><scope>P64</scope><scope>RC3</scope><scope>7X8</scope><orcidid>https://orcid.org/0000-0002-7141-1785</orcidid></search><sort><creationdate>202111</creationdate><title>Genetic characterization and phylogenetic variations of human adenovirus‐F strains circulating in eastern India during 2017–2020</title><author>Chandra, Pritam ; Lo, Mahadeb ; Mitra, Suvrotoa ; Banerjee, Anindita ; Saha, Priyanka ; Okamoto, Keinosuke ; Deb, Alok Kumar ; Ghosh, Sanat Kumar ; Manna, Asis ; Dutta, Shanta ; Chawla‐Sarkar, Mamta</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c3536-77afdcdcd1bbade7ef42ee75b48ac2d24362424d618f64cc6b6064c72ab376aa3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2021</creationdate><topic>Adenovirus Infections, Human - epidemiology</topic><topic>Adenovirus Infections, Human - virology</topic><topic>Adenoviruses</topic><topic>Adenoviruses, Human - classification</topic><topic>Adenoviruses, Human - genetics</topic><topic>Adenoviruses, Human - isolation & purification</topic><topic>Child, Preschool</topic><topic>Children</topic><topic>Diarrhea</topic><topic>Diarrhea - virology</topic><topic>Feces - virology</topic><topic>Female</topic><topic>Gastroenteritis</topic><topic>Gastroenteritis - epidemiology</topic><topic>Gastroenteritis - virology</topic><topic>Genetic diversity</topic><topic>genome type cluster (GTC)</topic><topic>Genomes</topic><topic>Genotype</topic><topic>Genotypes</topic><topic>human adenovirus (HAdV)</topic><topic>Humans</topic><topic>India - epidemiology</topic><topic>Infant</topic><topic>Infant, Newborn</topic><topic>Infections</topic><topic>Long fibers</topic><topic>Male</topic><topic>Mutation</topic><topic>Pediatrics</topic><topic>phylogenetic analysis</topic><topic>Phylogeny</topic><topic>Rotavirus</topic><topic>Rotavirus - genetics</topic><topic>rotavirus vaccine</topic><topic>Rotavirus Vaccines</topic><topic>Sequence Analysis, DNA</topic><topic>Strains (organisms)</topic><topic>Vaccine Development</topic><topic>Vaccines</topic><topic>Virology</topic><topic>Viruses</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Chandra, Pritam</creatorcontrib><creatorcontrib>Lo, Mahadeb</creatorcontrib><creatorcontrib>Mitra, Suvrotoa</creatorcontrib><creatorcontrib>Banerjee, Anindita</creatorcontrib><creatorcontrib>Saha, Priyanka</creatorcontrib><creatorcontrib>Okamoto, Keinosuke</creatorcontrib><creatorcontrib>Deb, Alok Kumar</creatorcontrib><creatorcontrib>Ghosh, Sanat Kumar</creatorcontrib><creatorcontrib>Manna, Asis</creatorcontrib><creatorcontrib>Dutta, Shanta</creatorcontrib><creatorcontrib>Chawla‐Sarkar, Mamta</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Neurosciences Abstracts</collection><collection>Virology and AIDS Abstracts</collection><collection>Technology Research Database</collection><collection>Environmental Sciences and Pollution Management</collection><collection>Engineering Research Database</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>Journal of medical virology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Chandra, Pritam</au><au>Lo, Mahadeb</au><au>Mitra, Suvrotoa</au><au>Banerjee, Anindita</au><au>Saha, Priyanka</au><au>Okamoto, Keinosuke</au><au>Deb, Alok Kumar</au><au>Ghosh, Sanat Kumar</au><au>Manna, Asis</au><au>Dutta, Shanta</au><au>Chawla‐Sarkar, Mamta</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Genetic characterization and phylogenetic variations of human adenovirus‐F strains circulating in eastern India during 2017–2020</atitle><jtitle>Journal of medical virology</jtitle><addtitle>J Med Virol</addtitle><date>2021-11</date><risdate>2021</risdate><volume>93</volume><issue>11</issue><spage>6180</spage><epage>6190</epage><pages>6180-6190</pages><issn>0146-6615</issn><eissn>1096-9071</eissn><abstract>Human adenovirus‐F (HAdV‐F) (genotype 40/41) is the second‐most leading cause of pediatric gastroenteritis after rotavirus, worldwide, accounting for 2.8%–11.8% of infantile diarrheal cases. Earlier studies across eastern India revealed a shift in the predominance of genotypes from HAdV41 in 2007–09 to HAdV40 in 2013–14. Thus, the surveillance for HAdV‐F genotypes in this geographical setting was undertaken over 2017–2020 to analyze the viral evolutionary dynamics. A total of 3882 stool samples collected from children (≤5 years) were screened for HAdV‐F positivity by conventional PCR. The hypervariable regions of the hexon and the partial shaft region of long fiber genes were amplified, sequenced, and phylogenetically analyzed with respect to the prototype strains. A marginal decrease in enteric HAdV prevalence was observed (9.04%, n = 351/3882) compared to the previous report (11.8%) in this endemic setting. Children <2 years were found most vulnerable to enteric HAdV infection. Reduction in adenovirus‐rotavirus co‐infection was evident compared to the sole adenovirus infection. HAdV‐F genotypes 40 and 41 were found to co‐circulate, but HAdV41 was predominant. HAdV40 strains were genetically conserved, whereas HAdV41 strains accumulated new mutations. On the basis of a different set of mutations in their genome, HAdV41 strains segregated into 2 genome type clusters (GTCs). Circulating HAdV41 strains clustered with GTC1 of the fiber gene, for the first time during this study period. This study will provide much‐needed baseline data on the emergence and circulation of HAdV40/41 strains for future vaccine development.</abstract><cop>United States</cop><pub>Wiley Subscription Services, Inc</pub><pmid>34138479</pmid><doi>10.1002/jmv.27136</doi><tpages>11</tpages><orcidid>https://orcid.org/0000-0002-7141-1785</orcidid></addata></record> |
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| subjects | Adenovirus Infections, Human - epidemiology Adenovirus Infections, Human - virology Adenoviruses Adenoviruses, Human - classification Adenoviruses, Human - genetics Adenoviruses, Human - isolation & purification Child, Preschool Children Diarrhea Diarrhea - virology Feces - virology Female Gastroenteritis Gastroenteritis - epidemiology Gastroenteritis - virology Genetic diversity genome type cluster (GTC) Genomes Genotype Genotypes human adenovirus (HAdV) Humans India - epidemiology Infant Infant, Newborn Infections Long fibers Male Mutation Pediatrics phylogenetic analysis Phylogeny Rotavirus Rotavirus - genetics rotavirus vaccine Rotavirus Vaccines Sequence Analysis, DNA Strains (organisms) Vaccine Development Vaccines Virology Viruses |
| title | Genetic characterization and phylogenetic variations of human adenovirus‐F strains circulating in eastern India during 2017–2020 |
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