Phylogenetic conservation of the stem-loop III structure of the 5' untranslated region of Hepatitis C virus RNA among natural variants in samples collected from Southern India
The stem-loop III (SLIII) structure within the 5' untranslated region has been shown to be critical for internal initiation of translation of Hepatitis C virus (HCV). Using 'Single Strand Conformation Polymorphism (SSCP)' of the SLIII region we have investigated for natural mutations...
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| Veröffentlicht in: | Archives of virology 2004-05, Vol.149 (5), p.1015-1026 |
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| container_title | Archives of virology |
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| creator | Bhattacharyya, S Mapa, K Prabhavathi, S Sudhamani, S R Menon, P K John, K P J Shivaram, C Amarnath, S Das, S |
| description | The stem-loop III (SLIII) structure within the 5' untranslated region has been shown to be critical for internal initiation of translation of Hepatitis C virus (HCV). Using 'Single Strand Conformation Polymorphism (SSCP)' of the SLIII region we have investigated for natural mutations and demonstrated presence of some non-covariant changes in certain sub-domains. However, overall SLIII-RNA structure was found to be phylogenetically conserved. Additionally, by SSCP analysis we have determined the genotype of 50 HCV isolates collected from Southern India, 25 random samples were confirmed by DNA sequencing. Results showed the prevalence of genotype 1 in this part of India. |
| doi_str_mv | 10.1007/s00705-003-0265-8 |
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Using 'Single Strand Conformation Polymorphism (SSCP)' of the SLIII region we have investigated for natural mutations and demonstrated presence of some non-covariant changes in certain sub-domains. However, overall SLIII-RNA structure was found to be phylogenetically conserved. Additionally, by SSCP analysis we have determined the genotype of 50 HCV isolates collected from Southern India, 25 random samples were confirmed by DNA sequencing. Results showed the prevalence of genotype 1 in this part of India.</description><identifier>ISSN: 0304-8608</identifier><identifier>EISSN: 1432-8798</identifier><identifier>DOI: 10.1007/s00705-003-0265-8</identifier><identifier>PMID: 15098115</identifier><language>eng</language><publisher>Austria: Springer Nature B.V</publisher><subject>5' Untranslated Regions - genetics ; Base Sequence ; Conserved Sequence ; Genotype ; Hepacivirus - genetics ; Hepacivirus - isolation & purification ; Hepatitis C - epidemiology ; Hepatitis C - virology ; Hepatitis C virus ; Humans ; India - epidemiology ; Molecular Sequence Data ; Mutation ; Nucleic Acid Conformation ; Phylogeny ; Polymorphism, Single-Stranded Conformational</subject><ispartof>Archives of virology, 2004-05, Vol.149 (5), p.1015-1026</ispartof><rights>Copyright Springer-Verlag 2004</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,780,784,27922,27923</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/15098115$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Bhattacharyya, S</creatorcontrib><creatorcontrib>Mapa, K</creatorcontrib><creatorcontrib>Prabhavathi, S</creatorcontrib><creatorcontrib>Sudhamani, S R</creatorcontrib><creatorcontrib>Menon, P K</creatorcontrib><creatorcontrib>John, K P J</creatorcontrib><creatorcontrib>Shivaram, C</creatorcontrib><creatorcontrib>Amarnath, S</creatorcontrib><creatorcontrib>Das, S</creatorcontrib><title>Phylogenetic conservation of the stem-loop III structure of the 5' untranslated region of Hepatitis C virus RNA among natural variants in samples collected from Southern India</title><title>Archives of virology</title><addtitle>Arch Virol</addtitle><description>The stem-loop III (SLIII) structure within the 5' untranslated region has been shown to be critical for internal initiation of translation of Hepatitis C virus (HCV). 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| subjects | 5' Untranslated Regions - genetics Base Sequence Conserved Sequence Genotype Hepacivirus - genetics Hepacivirus - isolation & purification Hepatitis C - epidemiology Hepatitis C - virology Hepatitis C virus Humans India - epidemiology Molecular Sequence Data Mutation Nucleic Acid Conformation Phylogeny Polymorphism, Single-Stranded Conformational |
| title | Phylogenetic conservation of the stem-loop III structure of the 5' untranslated region of Hepatitis C virus RNA among natural variants in samples collected from Southern India |
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