Establishment of reference sequences of hepatitis B virus genotype B subgenotypes

Authors

  • Xiaojun Jin 1. Heibei North University, 11 Zuanshi South Rd, High-Ttech District, Zhangjiakou 075000; 2. Department of Infectious Diseases, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, the First Affiliated Hospital, School of Medicine, Zhejiang University, 79 Qingchun Rd., Shangcheng District, Hangzhou 310003 https://orcid.org/0000-0002-2295-0061
  • Qun Cai Department of Infectious Diseases, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, the First Affiliated Hospital, School of Medicine, Zhejiang University, 79 Qingchun Rd., Shangcheng District, Hangzhou 310003 https://orcid.org/0000-0002-9101-1850
  • Zhenhua Zhang Department of Infectious Diseases, the First Affiliated Hospital, Anhui Medical University, 218 Jixi Rd., Shushan District, Hefei 230022 http://orcid.org/0000-0002-9522-532X
  • Jifang Sheng Department of Infectious Diseases, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, the First Affiliated Hospital, School of Medicine, Zhejiang University, 79 Qingchun Rd., Shangcheng District, Hangzhou 310003 https://orcid.org/0000-0003-0732-1555

DOI:

https://doi.org/10.2298/ABS200817042J

Keywords:

Hepatitis B virus, genotype, phylogenetic analysis, reference strains, bioinformatics

Abstract

Paper description:

  • Some reference sequences of hepatitis B virus genotype B (HBV/B) are not sufficient to represent the reference of individual sub-genotypes. It is necessary to establish new reference sequences of the HBV/B sub-genotype.
  • Genomic sequences of HBV/B were obtained from GenBank and compartmentalized into genomic subtypes. Homology between established HBV/B references was evaluated at the nucleotide level.
  • Reference strains for B1-Japan, B2-China, B3-Indonesia, B4-Vietnam, B6-North America, B7-Indonesia and B9-Southeast Asia were established. Fractional significant mutation sites of strains were observed in the BCP/Pre-C regions.
  • Reference sequences provide reference standards for molecular characterization, virology and pathogenesis of HBV/B.

Abstract: Hepatitis B virus (HBV) has been classified into ten genotypes (A-J). Genotype B (HBV/B) is divided into nine subgenotypes (B1-B9), each with specific geographical predominance. Some reference sequence of HBV/B subgenotypes are currently in use, but these sequences have defects, being insufficient to represent the reference of individual subgenotype. The aim of this study was to establish a more representative reference of HBV/B subgenotypes in different regions. Full genomic sequences of HBV/B were obtained from GenBank and compartmentalized into genomic subtypes. The homology between our established HBV/B subgenotype references was evaluated at the nucleotide level. We established reference strains for B1-Japan, B2-China, B3-Indonesia, B4-Vietnam, B6-North America, B7-Indonesia and B9-Southeast Asia. Fractional significant mutation sites of the strains that were established were observed in the BCP/Pre-C regions. We calculated the genetic divergence time from the most recent common ancestor of HBV/B pedigree. The reference sequences established in the study provide reference standards for studies on molecular characterization, virology and pathogenesis of HBV/B.

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Published

2020-12-25

How to Cite

1.
Jin X, Cai Q, Zhang Z, Sheng J. Establishment of reference sequences of hepatitis B virus genotype B subgenotypes. Arch Biol Sci [Internet]. 2020Dec.25 [cited 2022Aug.7];72(4):483-90. Available from: https://www.serbiosoc.org.rs/arch/index.php/abs/article/view/5724

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