scholarly journals Phylogenetic analysis of complete genome sequences of hepatitis B virus from an Afro-Colombian community: presence of HBV F3/A1 recombinant strain

2012 ◽  
Vol 9 (1) ◽  
Author(s):  
Mónica V Alvarado-Mora ◽  
Camila M Romano ◽  
Michele S Gomes-Gouvêa ◽  
Maria F Gutierrez ◽  
Flair J Carrilho ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Hepatitis B Virus ◽  
Hepatitis B ◽  
Complete Genome ◽  
Recombinant Strain ◽  
Genome Sequences ◽  
B Virus ◽  
Community Presence

Phylogenetic analysis of hepatitis B virus genotype F complete genome sequences from Chilean patients with chronic infection

2011 ◽  
Vol 83 (9) ◽  
pp. 1530-1536 ◽  
Author(s):  
Mauricio Venegas ◽  
Mónica V. Alvarado-Mora ◽  
Rodrigo A. Villanueva ◽  
João R. Rebello Pinho ◽  
Flair J. Carrilho ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Hepatitis B Virus ◽  
Hepatitis B ◽  
Chronic Infection ◽  
Complete Genome ◽  
Genome Sequences ◽  
Virus Genotype ◽  
B Virus ◽  
Genotype F

scholarly journals In Silico Analysis of Hepatitis B Virus Genotype D Subgenotype D1 Circulating in Pakistan, China, and India

2019 ◽  
Vol 15 ◽  
pp. 117693431986133 ◽  
Author(s):  
Muneeb Bahar ◽  
Muhammad Tariq Pervez ◽  
Akhtar Ali ◽  
Masroor Ellahi Babar
Keyword(s):  
Hepatitis B Virus ◽  
Hepatitis B ◽  
Complete Genome ◽  
Nucleotide Sequences ◽  
Genome Sequences ◽  
X Protein ◽  
Hbv Genotype ◽  
China And India ◽  
P Gene ◽  
B Virus

The focus of this study was the computational analysis of hepatitis B virus (HBV) genotype D subgenotype D1 in Pakistan, China, and India. In total, 54 complete genome sequences of HBV genotype D subgenotype D1 were downloaded from National Center for Biotechnology Information (NCBI). Of these, 6 complete genome sequences were from Pakistan, 14 were from China, and 34 were from India. Sequence alignment showed less than 4% divergence in these sequences. C and X genes showed divergence of less than 3%. Comparison over the S gene showed more than 97% similarity among the nucleotide sequences of genotype D subgenotype D1. The identity and similarity matrix of 54 nucleotide sequences of HBV genotype D subgenotype D1 from Pakistan, China, and India revealed more than 93% identity and 93% similarity. Phylogenetic analysis highlighted that complete genome isolates of HBV circulating in Pakistan had the closest evolutionary relationship with its neighboring countries China and India. China’s (HQ833466) and Pakistan’s (AB583680.1) isolates shared the same ancestor. Gene structure analysis showed that “P” gene exons were the longest, about three-fourth of the genome size, whereas gene “S” had the second longest coding regions with 2 exons and 1 intron. However, “C” and “X” genes had 1 smallest exon. X proteins had proven role in spreading of the HBV infection diseases. For HBx analysis, 1 X protein sequence of HBV genotype D subgenotype D1 belonging to each country was obtained. Homology models of the 3 X proteins generated using SWISS-MODEL revealed GMQE (Global Model Quality Estimation) = 0.1. Global and local quality estimate scores including Z-scores for Qualitative Model Energy Analysis (QMEAN) C-beta, all-atom, solvation, and torsion energy scores were similar indicating good quality, accuracy, and reliability of the predicted models. Three-dimensional (3D) visualization showed similar structures and Ramachandran plots showed a high percentage of protein residues into the favorable region for X protein models.

Complete genome sequence and phylogenetic analysis of hepatitis B virus isolated from turkish patients with chronic HBV infection

2005 ◽  
Vol 76 (4) ◽  
pp. 476-481 ◽  
Author(s):  
Gülendam Bozdayi ◽  
A. Resat Türkyilmaz ◽  
Ramazan Idilman ◽  
Ersin Karatayli ◽  
Seyyal Rota ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Hepatitis B Virus ◽  
Hepatitis B ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Chronic Hbv Infection ◽  
B Virus ◽  
Chronic Hbv ◽  
Turkish Patients

scholarly journals Complete-genome analysis of hepatitis B virus from wild-born chimpanzees in central Africa demonstrates a strain-specific geographical cluster

2007 ◽  
Vol 88 (10) ◽  
pp. 2679-2685 ◽  
Author(s):  
Maria Makuwa ◽  
Sandrine Souquière ◽  
Olivier Bourry ◽  
Pierre Rouquet ◽  
Paul Telfer ◽  
...  
Keyword(s):  
Hepatitis B Virus ◽  
Hepatitis B ◽  
Complete Genome ◽  
Geographical Origin ◽  
Hepatitis B Surface Antigen ◽  
Central Africa ◽  
High Plasma ◽  
B Virus ◽  
Geographical Cluster ◽  
Loads Analysis

In order to determine whether geographical or species clustering accounts for the distribution of hepatitis B virus (HBV) in subspecies of chimpanzees in Africa, four complete chimpanzee HBV (ChHBV) genome sequences were obtained from eight hepatitis B surface antigen-positive wild-born chimpanzees from Cameroon, Republic of Congo and Gabon. The serological profiles of these chimpanzees corresponded to the acute or chronic highly replicative phase of HBV infection, as confirmed by high plasma HBV loads. Analysis of the sequence alignment of 256 aa (S region) from the eight HBV-infected chimpanzees allowed us to determine the HBV amino acid patterns specific to each chimpanzee subspecies and to their geographical origin. Phylogenetic analysis of both the S region and the complete genome confirmed this distinctive clustering of eight novel ChHBV strains within Pan troglodytes. The strong phylogenetic associations of ChHBV sequences with both chimpanzee subspecies and their geographical origin were therefore confirmed.

scholarly journals Characterization of hepatitis B virus genotypes among Yucpa Indians in Venezuela

2001 ◽  
Vol 82 (2) ◽  
pp. 359-365 ◽  
Author(s):  
Tatsunori Nakano ◽  
Ling Lu ◽  
Xiaolei Hu ◽  
Masashi Mizokami ◽  
Etsuro Orito ◽  
...  
Keyword(s):  
Hepatitis B Virus ◽  
Hepatitis B ◽  
Complete Genome ◽  
Deletion Mutants ◽  
Reading Frame ◽  
B Virus ◽  
Virus Genotypes ◽  
Core Reading ◽  
Genotype F

The complete genome sequences of hepatitis B virus (HBV) from 12 HBV-infected Yucpa Indians of Venezuela, a group with highly endemic HBV, were amplified and sequenced. The 12 isolates were closely related to each other, with 98·6–100% nucleotide identity. A phylogenetic tree based on the complete genome indicated clearly that they were genotype F. Three individuals had evidence of infection with two different HBV deletion mutants. In two individuals, a three amino acid deletion was identified just prior to the ‘a’ determinant loop of the S region. A third individual was infected with virus that contained a complete core reading frame and a population that contained a deletion in the middle of the core region. These results indicate that genotype F HBV is present in the Venezuelan Yucpa Amerindians and the complete genome sequence allowed the identification of two unique deletion mutants in a limited set of samples.

scholarly journals Analysis of the complete genome of hepatitis B virus subgenotype C2 isolate NHB17965 from a HBV infected patient

F1000Research ◽  
2018 ◽  
Vol 7 ◽  
pp. 1023 ◽  
Author(s):  
Modhusudon Shaha ◽  
Palash Kumar Sarker ◽  
Md. Saddam Hossain ◽  
Keshob Chandra Das ◽  
Munira Jahan ◽  
...  
Keyword(s):  
Hepatitis B Virus ◽  
Hepatitis B ◽  
Complete Genome ◽  
Infected Patient ◽  
Surface Proteins ◽  
Wild Type ◽  
Small Surface ◽  
Chronic Hepatitis B Virus ◽  
B Virus ◽  
Complete Genome Analysis

The burden of chronic hepatitis B virus (HBV) infections is increasingly detected nowadays. Herein, we report a complete genome of HBV subgenotype C2 (HBV/C2) from a HBV infected patient. Complete genome analysis revealed that the isolated strain was a non-recombinant wild type and had several regular substitutions in the reverse transcriptase domain and small surface proteins of HBV. This study may help clinicians and scientists gain in-depth knowledge on the current substitutions of HBV/C2 genome and to identify potential therapies against HBV infections.

scholarly journals Utility of oral fluid samples to determine hepatitis B virus genotypes, mutations and phylogenetic analysis

2021 ◽  
Author(s):  
Livia Villar ◽  
Barbara Lago ◽  
Cristianne Bezerra ◽  
Ana Mendonça ◽  
Leticia Nabuco ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Hepatitis B Virus ◽  
Hepatitis B ◽  
Oral Fluid ◽  
B Virus ◽  
Virus Genotypes

scholarly journals Application of Hepatitis B Virus Genotyping and Phylogenetic Analysis in Intrafamilial Transmission of Hepatitis B Virus

2005 ◽  
Vol 41 (11) ◽  
pp. 1576-1581 ◽  
Author(s):  
C.-L. Lin ◽  
J.-H. Kao ◽  
B.-F. Chen ◽  
P.-J. Chen ◽  
M.-Y. Lai ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Hepatitis B Virus ◽  
Hepatitis B ◽  
Intrafamilial Transmission ◽  
B Virus
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