Identification and comparative analysis of hepatitis B virus genotype D/E recombinants in Africa.
Identifieur interne : 000065 ( Main/Exploration ); précédent : 000064; suivant : 000066Identification and comparative analysis of hepatitis B virus genotype D/E recombinants in Africa.
Auteurs : Ceejay L. Boyce [États-Unis] ; Lilia Ganova-Raeva [États-Unis] ; Timothy N A. Archampong [Ghana] ; Margaret Lartey [Ghana] ; Kwamena W. Sagoe [Ghana] ; Adjoa Obo-Akwa [Ghana] ; Ernest Kenu [Ghana] ; Awewura Kwara [États-Unis] ; Jason T. Blackard [États-Unis]Source :
- Virus genes [ 1572-994X ] ; 2017.
Abstract
Globally, there are approximately 240 million people chronically infected with hepatitis B virus (HBV)-a major cause of hepatocellular carcinoma. Ten different HBV genotypes (A-J) have been identified with distinct geographic distributions. Novel variants generated by recombination between different HBV genotypes have been documented worldwide and represent an important element of genetic variability with possible clinical implications. Here, the complete genome sequence of an HBV genotype D/E recombinant from Ghana is reported. The full-length sequence was obtained using rolling circle amplification followed by PCR and sequenced using next-generation sequencing (NGS). A consensus sequence was extracted from the NGS data and underwent phylogenetic analysis to determine genotype, as well as the recombination pattern. Subsequently, the sequence was compared to recombinants described previously in Africa. Based on MCMC phylogenetic analysis, SimPlot recombination analyses, and intragroup genetic distance, the isolate 007N full-length genome is unique compared to other reported D/E recombinants in Africa.
DOI: 10.1007/s11262-017-1469-4
PubMed: 28567562
Affiliations:
- Ghana, États-Unis
- Géorgie (États-Unis), Ohio, Rhode Island, Région du Grand Accra
- Accra, Legon (Ghana)
- Université du Ghana
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Boyce</name><affiliation wicri:level="2"><nlm:affiliation>Division of Digestive Disease, University of Cincinnati College of Medicine, Cincinnati, OH, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Division of Digestive Disease, University of Cincinnati College of Medicine, Cincinnati, OH</wicri:regionArea><placeName><region type="state">Ohio</region></placeName></affiliation></author><author><name sortKey="Ganova Raeva, Lilia" sort="Ganova Raeva, Lilia" uniqKey="Ganova Raeva L" first="Lilia" last="Ganova-Raeva">Lilia Ganova-Raeva</name><affiliation wicri:level="2"><nlm:affiliation>Division of Viral Hepatitis, National Center for HIV/AIDS, Viral Hepatitis, STD, and TB Prevention, Centers for Disease Control and Prevention, Atlanta, GA, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Division of Viral Hepatitis, National Center for HIV/AIDS, Viral Hepatitis, STD, and TB Prevention, Centers for Disease Control and Prevention, Atlanta, GA</wicri:regionArea><placeName><region type="state">Géorgie (États-Unis)</region></placeName></affiliation></author><author><name sortKey="Archampong, Timothy N A" sort="Archampong, Timothy N A" uniqKey="Archampong T" first="Timothy N A" last="Archampong">Timothy N A. 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Sagoe</name><affiliation wicri:level="4"><nlm:affiliation>Department of Medical Microbiology, School of Biomedical and Allied Health Sciences, College of Health Sciences, University of Ghana, Accra, Ghana.</nlm:affiliation><country xml:lang="fr">Ghana</country><wicri:regionArea>Department of Medical Microbiology, School of Biomedical and Allied Health Sciences, College of Health Sciences, University of Ghana, Accra</wicri:regionArea><placeName><settlement type="city">Accra</settlement><region nuts="2">Région du Grand Accra</region></placeName><orgName type="university">Université du Ghana</orgName></affiliation></author><author><name sortKey="Obo Akwa, Adjoa" sort="Obo Akwa, Adjoa" uniqKey="Obo Akwa A" first="Adjoa" last="Obo-Akwa">Adjoa Obo-Akwa</name><affiliation wicri:level="4"><nlm:affiliation>Department of Medicine and Therapeutics, School of Medicine and Dentistry, College of Health Sciences, University of Ghana, Accra, Ghana.</nlm:affiliation><country xml:lang="fr">Ghana</country><wicri:regionArea>Department of Medicine and Therapeutics, School of Medicine and Dentistry, College of Health Sciences, University of Ghana, Accra</wicri:regionArea><placeName><settlement type="city">Accra</settlement><region nuts="2">Région du Grand Accra</region></placeName><orgName type="university">Université du Ghana</orgName></affiliation></author><author><name sortKey="Kenu, Ernest" sort="Kenu, Ernest" uniqKey="Kenu E" first="Ernest" last="Kenu">Ernest Kenu</name><affiliation wicri:level="3"><nlm:affiliation>Korle-Bu Teaching Hospital, Accra, Ghana.</nlm:affiliation><country xml:lang="fr">Ghana</country><wicri:regionArea>Korle-Bu Teaching Hospital, Accra</wicri:regionArea><placeName><settlement type="city">Accra</settlement><region nuts="2">Région du Grand Accra</region></placeName></affiliation></author><author><name sortKey="Kwara, Awewura" sort="Kwara, Awewura" uniqKey="Kwara A" first="Awewura" last="Kwara">Awewura Kwara</name><affiliation wicri:level="2"><nlm:affiliation>Warren Alpert Medical School of Brown University, Providence, RI, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Warren Alpert Medical School of Brown University, Providence, RI</wicri:regionArea><placeName><region type="state">Rhode Island</region></placeName></affiliation></author><author><name sortKey="Blackard, Jason T" sort="Blackard, Jason T" uniqKey="Blackard J" first="Jason T" last="Blackard">Jason T. Blackard</name><affiliation wicri:level="2"><nlm:affiliation>Division of Digestive Disease, University of Cincinnati College of Medicine, Cincinnati, OH, USA. jason.blackard@uc.edu.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Division of Digestive Disease, University of Cincinnati College of Medicine, Cincinnati, OH</wicri:regionArea><placeName><region type="state">Ohio</region></placeName></affiliation></author></analytic><series><title level="j">Virus genes</title><idno type="eISSN">1572-994X</idno><imprint><date when="2017" type="published">2017</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Globally, there are approximately 240 million people chronically infected with hepatitis B virus (HBV)-a major cause of hepatocellular carcinoma. Ten different HBV genotypes (A-J) have been identified with distinct geographic distributions. Novel variants generated by recombination between different HBV genotypes have been documented worldwide and represent an important element of genetic variability with possible clinical implications. Here, the complete genome sequence of an HBV genotype D/E recombinant from Ghana is reported. The full-length sequence was obtained using rolling circle amplification followed by PCR and sequenced using next-generation sequencing (NGS). A consensus sequence was extracted from the NGS data and underwent phylogenetic analysis to determine genotype, as well as the recombination pattern. Subsequently, the sequence was compared to recombinants described previously in Africa. Based on MCMC phylogenetic analysis, SimPlot recombination analyses, and intragroup genetic distance, the isolate 007N full-length genome is unique compared to other reported D/E recombinants in Africa.</div></front></TEI><affiliations><list><country><li>Ghana</li><li>États-Unis</li></country><region><li>Géorgie (États-Unis)</li><li>Ohio</li><li>Rhode Island</li><li>Région du Grand Accra</li></region><settlement><li>Accra</li><li>Legon (Ghana)</li></settlement><orgName><li>Université du Ghana</li></orgName></list><tree><country name="États-Unis"><region name="Ohio"><name sortKey="Boyce, Ceejay L" sort="Boyce, Ceejay L" uniqKey="Boyce C" first="Ceejay L" last="Boyce">Ceejay L. Boyce</name></region><name sortKey="Blackard, Jason T" sort="Blackard, Jason T" uniqKey="Blackard J" first="Jason T" last="Blackard">Jason T. Blackard</name><name sortKey="Ganova Raeva, Lilia" sort="Ganova Raeva, Lilia" uniqKey="Ganova Raeva L" first="Lilia" last="Ganova-Raeva">Lilia Ganova-Raeva</name><name sortKey="Kwara, Awewura" sort="Kwara, Awewura" uniqKey="Kwara A" first="Awewura" last="Kwara">Awewura Kwara</name></country><country name="Ghana"><region name="Région du Grand Accra"><name sortKey="Archampong, Timothy N A" sort="Archampong, Timothy N A" uniqKey="Archampong T" first="Timothy N A" last="Archampong">Timothy N A. Archampong</name></region><name sortKey="Kenu, Ernest" sort="Kenu, Ernest" uniqKey="Kenu E" first="Ernest" last="Kenu">Ernest Kenu</name><name sortKey="Lartey, Margaret" sort="Lartey, Margaret" uniqKey="Lartey M" first="Margaret" last="Lartey">Margaret Lartey</name><name sortKey="Obo Akwa, Adjoa" sort="Obo Akwa, Adjoa" uniqKey="Obo Akwa A" first="Adjoa" last="Obo-Akwa">Adjoa Obo-Akwa</name><name sortKey="Sagoe, Kwamena W" sort="Sagoe, Kwamena W" uniqKey="Sagoe K" first="Kwamena W" last="Sagoe">Kwamena W. Sagoe</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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