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  1. AU="Phan, Ngoc Minh Hien"
  2. AU="Khan, Tazeen"
  3. AU="Adzhubei, Ivan A"
  4. AU="Alicia Reyes-Arellano"
  5. AU="L. Marcus Wilhelmsson"
  6. AU=Filocamo Giovanni
  7. AU="Andrea Terán-Valdez"
  8. AU=Cleverley Joanne AU=Cleverley Joanne
  9. AU="Feng, Shiguang"
  10. AU="De Falco, Antonio"
  11. AU="Plenter, R J"
  12. AU="Malarz, Janusz"

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  1. Artikel: In Silico Analysis of Genetic Diversity of Human Hepatitis B Virus in Southeast Asia, Australia and New Zealand

    Phan, Ngoc Minh Hien / Faddy, Helen / Flower, Robert / Spann, Kirsten / Roulis, Eileen

    Viruses. 2020 Apr. 09, v. 12, no. 4

    2020  

    Abstract: The extent of whole genome diversity amongst hepatitis B virus (HBV) genotypes is not well described. This study aimed to update the current distribution of HBV types and to investigate mutation rates and nucleotide diversity between genotypes in ... ...

    Abstract The extent of whole genome diversity amongst hepatitis B virus (HBV) genotypes is not well described. This study aimed to update the current distribution of HBV types and to investigate mutation rates and nucleotide diversity between genotypes in Southeast Asia, Australia and New Zealand. We retrieved 930 human HBV complete genomes from these regions from the NCBI nucleotide database for genotyping, detection of potential recombination, serotype prediction, mutation identification and comparative genome analyses. Overall, HBV genotypes B (44.1%) and C (46.2%) together with predicted serotypes adr (36%), adw2 (29%) and ayw1 (19.9%) were the most commonly circulating HBV types in the studied region. The three HBV variants identified most frequently were p.V5L, c.1896G>A and double mutation c.1762A>T/c.1764G>A, while genotypes B and C had the widest range of mutation types. The study also highlighted the distinct nucleotide diversity of HBV genotypes for whole genome and along the genome length. Therefore, this study provided a robust update to HBV currently circulating in Southeast Asia, Australia and New Zealand as well as an insight into the association of HBV genetic hypervariability and prevalence of well reported mutations.
    Schlagwörter Hepatitis B virus ; computer simulation ; genetic databases ; genetic variation ; genome ; genotype ; genotyping ; humans ; mutation ; mutation rate ; prediction ; serotypes ; Australia ; New Zealand ; South East Asia
    Sprache Englisch
    Erscheinungsverlauf 2020-0409
    Erscheinungsort Multidisciplinary Digital Publishing Institute
    Dokumenttyp Artikel
    ZDB-ID 2516098-9
    ISSN 1999-4915
    ISSN 1999-4915
    DOI 10.3390/v12040427
    Datenquelle NAL Katalog (AGRICOLA)

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  2. Artikel ; Online: In silico

    Phan, Ngoc Minh Hien / Faddy, Helen / Flower, Robert / Spann, Kirsten / Roulis, Eileen

    Viruses

    2020  Band 12, Heft 4

    Abstract: The extent of whole genome diversity amongst hepatitis B virus (HBV) genotypes is not well described. This study aimed to update the current distribution of HBV types and to investigate mutation rates and nucleotide diversity between genotypes in ... ...

    Abstract The extent of whole genome diversity amongst hepatitis B virus (HBV) genotypes is not well described. This study aimed to update the current distribution of HBV types and to investigate mutation rates and nucleotide diversity between genotypes in Southeast Asia, Australia and New Zealand. We retrieved 930 human HBV complete genomes from these regions from the NCBI nucleotide database for genotyping, detection of potential recombination, serotype prediction, mutation identification and comparative genome analyses. Overall, HBV genotypes B (44.1%) and C (46.2%) together with predicted serotypes
    Mesh-Begriff(e) Amino Acid Substitution ; Asia, Southeastern ; Australia ; Computational Biology/methods ; Databases, Genetic ; Genetic Variation ; Genotype ; Hepatitis B/epidemiology ; Hepatitis B/virology ; Hepatitis B Surface Antigens/genetics ; Hepatitis B virus/classification ; Hepatitis B virus/genetics ; Humans ; Mutation ; New Zealand ; Phylogeny ; Phylogeography ; Polymorphism, Single Nucleotide ; Recombination, Genetic ; Serogroup
    Chemische Substanzen Hepatitis B Surface Antigens
    Sprache Englisch
    Erscheinungsdatum 2020-04-09
    Erscheinungsland Switzerland
    Dokumenttyp Journal Article
    ZDB-ID 2516098-9
    ISSN 1999-4915 ; 1999-4915
    ISSN (online) 1999-4915
    ISSN 1999-4915
    DOI 10.3390/v12040427
    Datenquelle MEDical Literature Analysis and Retrieval System OnLINE

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    Kategorien

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  3. Artikel ; Online: Low Genetic Diversity of Hepatitis B Virus Surface Gene amongst Australian Blood Donors.

    Phan, Ngoc Minh Hien / Faddy, Helen M / Flower, Robert L / Dimech, Wayne J / Spann, Kirsten M / Roulis, Eileen V

    Viruses

    2021  Band 13, Heft 7

    Abstract: Variants in the small surface gene of hepatitis B virus (HBV), which codes for viral surface antigen (HBsAg), can affect the efficacy of HBsAg screening assays and can be associated with occult HBV infection (OBI). This study aimed to characterise the ... ...

    Abstract Variants in the small surface gene of hepatitis B virus (HBV), which codes for viral surface antigen (HBsAg), can affect the efficacy of HBsAg screening assays and can be associated with occult HBV infection (OBI). This study aimed to characterise the molecular diversity of the HBV small surface gene from HBV-reactive Australian blood donors. HBV isolates from 16 HBsAg-positive Australian blood donors' plasma were sequenced and genotyped by phylogenies of viral coding genes and/or whole genomes. An analysis of the genetic diversity of eight HBV small surface genes from our 16 samples was conducted and compared with HBV sequences from NCBI of 164 international (non-Australian) blood donors. Genotypes A-D were identified in our samples. The region of HBV small surface gene that contained the sequence encoding the 'a' determinant had a greater genetic diversity than the remaining part of the gene. No escape mutants or OBI-related variants were observed in our samples. Variant call analysis revealed two samples with a nucleotide deletion leading to truncation of polymerase and/or large/middle surface amino acid sequences. Overall, we found that HBV small surface gene sequences from Australian donors demonstrated a lower level of genetic diversity than those from non-Australian donor population included in the study.
    Mesh-Begriff(e) Australia/epidemiology ; Blood Donors/statistics & numerical data ; DNA, Viral/genetics ; Genetic Variation ; Genotype ; Hepatitis B/epidemiology ; Hepatitis B/virology ; Hepatitis B Surface Antigens/genetics ; Hepatitis B virus/classification ; Hepatitis B virus/genetics ; Humans ; Mutation
    Chemische Substanzen DNA, Viral ; Hepatitis B Surface Antigens
    Sprache Englisch
    Erscheinungsdatum 2021-06-30
    Erscheinungsland Switzerland
    Dokumenttyp Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2516098-9
    ISSN 1999-4915 ; 1999-4915
    ISSN (online) 1999-4915
    ISSN 1999-4915
    DOI 10.3390/v13071275
    Datenquelle MEDical Literature Analysis and Retrieval System OnLINE

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    Über subito bestellen

    Dieser Service ist kostenpflichtig (siehe Lieferbedingungen von subito). Bestellungen, die einen Artikel nebst Supplementary Material umfassen, werden grundsätzlich wie mehrfache Bestellungen bearbeitet. Gebühren fallen in diesen Fällen für jede einzelne Bestellung an.

  4. Artikel: Low Genetic Diversity of Hepatitis B Virus Surface Gene amongst Australian Blood Donors

    Phan, Ngoc Minh Hien / Faddy, Helen M. / Flower, Robert L. / Dimech, Wayne J. / Spann, Kirsten M. / Roulis, Eileen V.

    Viruses. 2021 June 30, v. 13, no. 7

    2021  

    Abstract: Variants in the small surface gene of hepatitis B virus (HBV), which codes for viral surface antigen (HBsAg), can affect the efficacy of HBsAg screening assays and can be associated with occult HBV infection (OBI). This study aimed to characterise the ... ...

    Abstract Variants in the small surface gene of hepatitis B virus (HBV), which codes for viral surface antigen (HBsAg), can affect the efficacy of HBsAg screening assays and can be associated with occult HBV infection (OBI). This study aimed to characterise the molecular diversity of the HBV small surface gene from HBV-reactive Australian blood donors. HBV isolates from 16 HBsAg-positive Australian blood donors’ plasma were sequenced and genotyped by phylogenies of viral coding genes and/or whole genomes. An analysis of the genetic diversity of eight HBV small surface genes from our 16 samples was conducted and compared with HBV sequences from NCBI of 164 international (non-Australian) blood donors. Genotypes A–D were identified in our samples. The region of HBV small surface gene that contained the sequence encoding the ‘a’ determinant had a greater genetic diversity than the remaining part of the gene. No escape mutants or OBI-related variants were observed in our samples. Variant call analysis revealed two samples with a nucleotide deletion leading to truncation of polymerase and/or large/middle surface amino acid sequences. Overall, we found that HBV small surface gene sequences from Australian donors demonstrated a lower level of genetic diversity than those from non-Australian donor population included in the study.
    Schlagwörter Hepatitis B virus ; amino acids ; genes ; genetic variation ; genotyping ; phylogeny ; sequence deletion ; surface antigens
    Sprache Englisch
    Erscheinungsverlauf 2021-0630
    Erscheinungsort Multidisciplinary Digital Publishing Institute
    Dokumenttyp Artikel
    ZDB-ID 2516098-9
    ISSN 1999-4915
    ISSN 1999-4915
    DOI 10.3390/v13071275
    Datenquelle NAL Katalog (AGRICOLA)

    Zusatzmaterialien

    Kategorien

    Über subito bestellen

    Dieser Service ist kostenpflichtig (siehe Lieferbedingungen von subito). Bestellungen, die einen Artikel nebst Supplementary Material umfassen, werden grundsätzlich wie mehrfache Bestellungen bearbeitet. Gebühren fallen in diesen Fällen für jede einzelne Bestellung an.

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