Complete genome sequence of the novel duck hepatitis B virus strain SCP01 from Sichuan Cherry Valley duck.

Qingqing Li,Mafeng Liu,Anchun Cheng,Dekang Zhu,Renyong Jia,Shun Chen,Mingshu Wang,Zhongqiong Yin,Siyang Liu,Bo Jing

doi:10.1186/s40064-016-2988-5

Abstract

BackgroundThe duck hepatitis B virus (DHBV) strain, designated SCP01, was isolated and identified from a Sichuan Cherry Valley duck in Southwestern China. To determine the origination and evolution of this isolated strain, we carried out complete genome sequencing of this strain.FindingsSequencing of the nucleotide sequence of DHBV strain SCP01 revealed a genome size of 3021 bp that contained three open reading frames, designated as C, S, and P, which were consistent with those of other duck hepatitis B viruses nucleotide sequences available in the GenBank of NCBI. Sequence comparisons based on the full-length genomic sequences showed that the DHBV SCP01 strain had the highest similarity (99.64 %) with the sequence of strain DHBV-XY, but had a lower similarity (90.04 %) with the sequence of strain DHBV CH5 isolated from Southwestern China. Phylogenetic analysis revealed that the DHBV-XY and DHBV SCP01 formed a branch that was clearly distinct from the other strains.ConclusionThis study show that the DHBV SCP01 strain from Sichuan belonged to “Western” isolates, while the DHBV CH5 from Sichuan belonged to “Chinese” isolates. These data will promote further research into the evolutionary biology, epidemiology and pathobiology of hepadnavirus infections. In addition, continuing duck hepatitis B virus surveillance in poultry is critical to understand the patterns of DHBV infection, and to find further animal infection models to study HBV infection.

Highlights

The duck hepatitis B virus (DHBV) strain, designated SCP01, was isolated and identified from a Sichuan Cherry Valley duck in Southwestern China
This study show that the DHBV SCP01 strain from Sichuan belonged to “Western” isolates, while the DHBV CH5 from Sichuan belonged to “Chinese” isolates
Continuing duck hepatitis B virus surveillance in poultry is critical to understand the patterns of DHBV infection, and to find further animal infection models to study HBV infection

Summary

Introduction

The duck hepatitis B virus (DHBV) strain, designated SCP01, was isolated and identified from a Sichuan Cherry Valley duck in Southwestern China. To determine the origination and evolution of this isolated strain, we carried out complete genome sequencing of this strain. Duck hepatitis B virus (DHBV), first discovered in Peking ducks in 1980 (Mason et al 1980), and subsequently reported in Germany and other countries throughout the world (Mattes et al 1990; Triyatni et al 2001; Mangisa et al 2004; Liu et al 2014), is a member of the genus Avihepadnavirus, family Hepadnaviridae. The genome of DHBV, a complete minus and incomplete plus strand, is circular and approximately 3.0 kb in length (Cova et al 2011). The genomic DNA is maintained in a circular.

Methods

Results

Conclusion