A second-generation method of genotyping hepatitis C virus by the polymerase chain reaction with sense and antisense primers deduced from the core gene
Identifieur interne : 003F07 ( Main/Exploration ); précédent : 003F06; suivant : 003F08A second-generation method of genotyping hepatitis C virus by the polymerase chain reaction with sense and antisense primers deduced from the core gene
Auteurs : Hiroaki Okamoto [Japon] ; Satoyuki Kobata [Japon] ; Hajime Tokita [Japon] ; Taisuke Inoue [Japon] ; Graeme D. Woodfield [Nouvelle-Zélande] ; Paul V. Holland [États-Unis] ; Bandar A. Al-Knawy [Arabie saoudite] ; Ozden Uzunalimoglu [Turquie] ; Yuzo Miyakawa [Japon] ; Makoto Mayumi [Japon]Source :
- Journal of Virological Methods [ 0166-0934 ] ; 1996.
English descriptors
- Teeft :
- Annealing, Annealing temperature, Antisense, Antisense primer, Antisense primers, Arabia, Blood donors, Bukh, Classifiable, Common genotypes, Core gene, Different genotypes, First round, Genetic group, Genetic groups, Genome, Genotype, Genotyping, Genotyping method, Hepatitis, Hepatitis patients, Interferon, Mayumi, Miyakawa, Ns5b, Ns5b region, Nssb, Nssb region, Nucleotide, Okamoto, Other genotypes, Plasma samples, Polymerase, Polymerase chain reaction, Previous method, Primer, Primer pair, Primer pairs, Restriction fragment length polymorphism, Saudi arabia, Second round, Sequence analysis, Simmonds, Stuyver, Subtypes, Target genotype, Tokita, Universal primers, Various genotypes, Viral, Virol, Virological, Virological methods, Virus genotypes.
Abstract
Abstract: A second-generation method of genotyping hepatitis C virus (HCV) was developed by the polymerase chain reaction (PCR) with sense as well as antisense primers deduced from the core gene. HCV RNA specimens extracted from sera were reverse-transcribed and amplified with universal primers in the first round of PCR to obtain fragments of 433 base pairs representing nucleotides 319–751. In the second round of PCR, portions of PCR products were amplified separately with sense and antisense primers specific for each of the five common genotypes prevailing across the world i.e., I/1a, II/1b, III/2a, IV/2b and V/3a. The specificity of the method was verified by a panel of 177 HCV isolates of various genotypes in the genetic groups 1–9. It allowed clear differentiation of genotype I/1a from Il/1b which was not always accomplished by the previous method. When 501 sera from blood donors and hepatitis patients with HCV viremia from various countries were genotyped by the second-generation method, 478 (95.4%) were classified into the five genotypes. HCV RNA samples from 23 (4.6%) sera were not classifiable into any of the five common genotypes and, by sequence analysis, 22 were found to be of four genotypes in group 4 and one of genotype 1c in Simmond's classification.
Url:
DOI: 10.1016/0166-0934(95)01960-X
Affiliations:
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Woodfield</name><affiliation wicri:level="1"><country xml:lang="fr">Nouvelle-Zélande</country><wicri:regionArea>Auckland Hospital, Auckland</wicri:regionArea><wicri:noRegion>Auckland</wicri:noRegion></affiliation></author><author><name sortKey="Holland, Paul V" sort="Holland, Paul V" uniqKey="Holland P" first="Paul V." last="Holland">Paul V. Holland</name><affiliation wicri:level="1"><country xml:lang="fr">États-Unis</country><wicri:regionArea>Sacramento Blood Center, Sacramento, CA</wicri:regionArea><wicri:noRegion>CA</wicri:noRegion></affiliation></author><author><name sortKey="Al Knawy, Bandar A" sort="Al Knawy, Bandar A" uniqKey="Al Knawy B" first="Bandar A." last="Al-Knawy">Bandar A. Al-Knawy</name><affiliation wicri:level="1"><country xml:lang="fr">Arabie saoudite</country><wicri:regionArea>College of Medicine, King Saud University, Abha</wicri:regionArea><wicri:noRegion>Abha</wicri:noRegion></affiliation></author><author><name sortKey="Uzunalimoglu, Ozden" sort="Uzunalimoglu, Ozden" uniqKey="Uzunalimoglu O" first="Ozden" last="Uzunalimoglu">Ozden Uzunalimoglu</name><affiliation wicri:level="1"><country xml:lang="fr">Turquie</country><wicri:regionArea>Section of Gastroenterology, Ankara University Medical School, Ankara</wicri:regionArea><wicri:noRegion>Ankara</wicri:noRegion></affiliation></author><author><name sortKey="Miyakawa, Yuzo" sort="Miyakawa, Yuzo" uniqKey="Miyakawa Y" first="Yuzo" last="Miyakawa">Yuzo Miyakawa</name><affiliation wicri:level="3"><country xml:lang="fr">Japon</country><wicri:regionArea>Mita Institute, Tokyo</wicri:regionArea><placeName><settlement type="city">Tokyo</settlement><region type="région">Région de Kantō</region></placeName></affiliation></author><author><name sortKey="Mayumi, Makoto" sort="Mayumi, Makoto" uniqKey="Mayumi M" first="Makoto" last="Mayumi">Makoto Mayumi</name><affiliation></affiliation><affiliation wicri:level="1"><country xml:lang="fr">Japon</country><wicri:regionArea>Immunology Division, Jichi Medical School, Minamikawachi-Machi, Tochigi-Ken 329-04</wicri:regionArea><wicri:noRegion>Tochigi-Ken 329-04</wicri:noRegion></affiliation></author></analytic><monogr></monogr><series><title level="j">Journal of Virological Methods</title><title level="j" type="abbrev">VIRMET</title><idno type="ISSN">0166-0934</idno><imprint><publisher>ELSEVIER</publisher><date type="published" when="1996">1996</date><biblScope unit="volume">57</biblScope><biblScope unit="issue">1</biblScope><biblScope unit="page" from="31">31</biblScope><biblScope unit="page" to="45">45</biblScope></imprint><idno type="ISSN">0166-0934</idno></series></biblStruct></sourceDesc><seriesStmt><idno type="ISSN">0166-0934</idno></seriesStmt></fileDesc><profileDesc><textClass><keywords scheme="Teeft" xml:lang="en"><term>Annealing</term><term>Annealing temperature</term><term>Antisense</term><term>Antisense primer</term><term>Antisense primers</term><term>Arabia</term><term>Blood donors</term><term>Bukh</term><term>Classifiable</term><term>Common genotypes</term><term>Core gene</term><term>Different genotypes</term><term>First round</term><term>Genetic group</term><term>Genetic groups</term><term>Genome</term><term>Genotype</term><term>Genotyping</term><term>Genotyping method</term><term>Hepatitis</term><term>Hepatitis patients</term><term>Interferon</term><term>Mayumi</term><term>Miyakawa</term><term>Ns5b</term><term>Ns5b region</term><term>Nssb</term><term>Nssb region</term><term>Nucleotide</term><term>Okamoto</term><term>Other genotypes</term><term>Plasma samples</term><term>Polymerase</term><term>Polymerase chain reaction</term><term>Previous method</term><term>Primer</term><term>Primer pair</term><term>Primer pairs</term><term>Restriction fragment length polymorphism</term><term>Saudi arabia</term><term>Second round</term><term>Sequence analysis</term><term>Simmonds</term><term>Stuyver</term><term>Subtypes</term><term>Target genotype</term><term>Tokita</term><term>Universal primers</term><term>Various genotypes</term><term>Viral</term><term>Virol</term><term>Virological</term><term>Virological methods</term><term>Virus genotypes</term></keywords></textClass><langUsage><language ident="en">en</language></langUsage></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Abstract: A second-generation method of genotyping hepatitis C virus (HCV) was developed by the polymerase chain reaction (PCR) with sense as well as antisense primers deduced from the core gene. HCV RNA specimens extracted from sera were reverse-transcribed and amplified with universal primers in the first round of PCR to obtain fragments of 433 base pairs representing nucleotides 319–751. In the second round of PCR, portions of PCR products were amplified separately with sense and antisense primers specific for each of the five common genotypes prevailing across the world i.e., I/1a, II/1b, III/2a, IV/2b and V/3a. The specificity of the method was verified by a panel of 177 HCV isolates of various genotypes in the genetic groups 1–9. It allowed clear differentiation of genotype I/1a from Il/1b which was not always accomplished by the previous method. When 501 sera from blood donors and hepatitis patients with HCV viremia from various countries were genotyped by the second-generation method, 478 (95.4%) were classified into the five genotypes. HCV RNA samples from 23 (4.6%) sera were not classifiable into any of the five common genotypes and, by sequence analysis, 22 were found to be of four genotypes in group 4 and one of genotype 1c in Simmond's classification.</div></front></TEI><affiliations><list><country><li>Arabie saoudite</li><li>Japon</li><li>Nouvelle-Zélande</li><li>Turquie</li><li>États-Unis</li></country><region><li>Région de Kantō</li></region><settlement><li>Tokyo</li></settlement></list><tree><country name="Japon"><noRegion><name sortKey="Okamoto, Hiroaki" sort="Okamoto, Hiroaki" uniqKey="Okamoto H" first="Hiroaki" last="Okamoto">Hiroaki Okamoto</name></noRegion><name sortKey="Inoue, Taisuke" sort="Inoue, Taisuke" uniqKey="Inoue T" first="Taisuke" last="Inoue">Taisuke Inoue</name><name sortKey="Kobata, Satoyuki" sort="Kobata, Satoyuki" uniqKey="Kobata S" first="Satoyuki" last="Kobata">Satoyuki Kobata</name><name sortKey="Mayumi, Makoto" sort="Mayumi, Makoto" uniqKey="Mayumi M" first="Makoto" last="Mayumi">Makoto Mayumi</name><name sortKey="Miyakawa, Yuzo" sort="Miyakawa, Yuzo" uniqKey="Miyakawa Y" first="Yuzo" last="Miyakawa">Yuzo Miyakawa</name><name sortKey="Tokita, Hajime" sort="Tokita, Hajime" uniqKey="Tokita H" first="Hajime" last="Tokita">Hajime Tokita</name></country><country name="Nouvelle-Zélande"><noRegion><name sortKey="Woodfield, Graeme D" sort="Woodfield, Graeme D" uniqKey="Woodfield G" first="Graeme D." last="Woodfield">Graeme D. Woodfield</name></noRegion></country><country name="États-Unis"><noRegion><name sortKey="Holland, Paul V" sort="Holland, Paul V" uniqKey="Holland P" first="Paul V." last="Holland">Paul V. Holland</name></noRegion></country><country name="Arabie saoudite"><noRegion><name sortKey="Al Knawy, Bandar A" sort="Al Knawy, Bandar A" uniqKey="Al Knawy B" first="Bandar A." last="Al-Knawy">Bandar A. Al-Knawy</name></noRegion></country><country name="Turquie"><noRegion><name sortKey="Uzunalimoglu, Ozden" sort="Uzunalimoglu, Ozden" uniqKey="Uzunalimoglu O" first="Ozden" last="Uzunalimoglu">Ozden Uzunalimoglu</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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