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Phylogenetic analysis of two new complete genomes of the hepatitis E virus (HEV) genotype 3 from Thailand.
Mol Biol Rep. 2020 Nov; 47(11):8657-8668.MB

Abstract

Hepatitis E virus (HEV) is a causative agent of acute viral hepatitis globally. Evolutionary phylogeny classifies the HEV into eight genotypes that correlate with the viral transmission. Only four genotypes have been proven to be responsible for transmission in humans. However, there has been no report on the genomics and genotyping of HEV in Thailand during the past ten years. Here, we identified the genotype distributions of the Thai isolates of HEV and we sequenced two HEV genomes. We screened for 18 Thai isolates of HEV from Siriraj Hospital in Bangkok, from 2014-2016. The HEV genomes were sequenced from the serum and feces of a patient. The results showed that all Thai isolates of HEV were identified as genotype 3 (HEV-3). The ORF2 and genome phylogenies suggested two subgenotypes, called 3.1 and 3.2. The Thai isolates of HEV were frequently found in the subgenotype 3.1. The genome sequences of the two Thai isolates of HEV from the serum and fecal samples of the same patient showed 91% nucleotide similarity with the HEV genotype 3. Comparisons between the HEV genome and the ORF2 phylogenies illustrated that the ORF2 tree can be used to identify HEV genotypes, but it has less phylogenetic power for the HEV evolution. The two new genome sequences of HEV-3 from Thailand could contribute valuable information to the HEV genome study. (226 words).

Authors+Show Affiliations

Department of Microbiology, Faculty of Medicine Siriraj Hospital, Mahidol University, Bangkok, Thailand.Division of Bioinformatics and Data Management for Research, Faculty of Medicine Siriraj Hospital, Mahidol University, Bangkok, Thailand.Department of Microbiology, Faculty of Medicine Siriraj Hospital, Mahidol University, Bangkok, Thailand.Division of Gastroenterology, Department of Medicine, Faculty of Medicine Siriraj Hospital, Mahidol University, Bangkok, Thailand.Division of Gastroenterology, Department of Medicine, Faculty of Medicine Siriraj Hospital, Mahidol University, Bangkok, Thailand.Department of Immunology, Faculty of Medicine Siriraj Hospital, Mahidol University, Bangkok, Thailand. patimaporn.won@mahidol.ac.th.

Pub Type(s)

Journal Article

Language

eng

PubMed ID

33058031

Citation

Chanmanee, Tipsuda, et al. "Phylogenetic Analysis of Two New Complete Genomes of the Hepatitis E Virus (HEV) Genotype 3 From Thailand." Molecular Biology Reports, vol. 47, no. 11, 2020, pp. 8657-8668.
Chanmanee T, Ajawatanawong P, Louisirirotchanakul S, et al. Phylogenetic analysis of two new complete genomes of the hepatitis E virus (HEV) genotype 3 from Thailand. Mol Biol Rep. 2020;47(11):8657-8668.
Chanmanee, T., Ajawatanawong, P., Louisirirotchanakul, S., Chotiyaputta, W., Chainuvati, S., & Wongprompitak, P. (2020). Phylogenetic analysis of two new complete genomes of the hepatitis E virus (HEV) genotype 3 from Thailand. Molecular Biology Reports, 47(11), 8657-8668. https://doi.org/10.1007/s11033-020-05908-3
Chanmanee T, et al. Phylogenetic Analysis of Two New Complete Genomes of the Hepatitis E Virus (HEV) Genotype 3 From Thailand. Mol Biol Rep. 2020;47(11):8657-8668. PubMed PMID: 33058031.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Phylogenetic analysis of two new complete genomes of the hepatitis E virus (HEV) genotype 3 from Thailand. AU - Chanmanee,Tipsuda, AU - Ajawatanawong,Pravech, AU - Louisirirotchanakul,Suda, AU - Chotiyaputta,Watcharasak, AU - Chainuvati,Siwaporn, AU - Wongprompitak,Patimaporn, Y1 - 2020/10/14/ PY - 2019/11/11/received PY - 2020/10/08/accepted PY - 2020/10/16/pubmed PY - 2021/6/3/medline PY - 2020/10/15/entrez KW - Complete genome sequence KW - HEV genotype KW - HEV genotype 3 KW - Hepatitis E virus KW - Phylogeny SP - 8657 EP - 8668 JF - Molecular biology reports JO - Mol Biol Rep VL - 47 IS - 11 N2 - Hepatitis E virus (HEV) is a causative agent of acute viral hepatitis globally. Evolutionary phylogeny classifies the HEV into eight genotypes that correlate with the viral transmission. Only four genotypes have been proven to be responsible for transmission in humans. However, there has been no report on the genomics and genotyping of HEV in Thailand during the past ten years. Here, we identified the genotype distributions of the Thai isolates of HEV and we sequenced two HEV genomes. We screened for 18 Thai isolates of HEV from Siriraj Hospital in Bangkok, from 2014-2016. The HEV genomes were sequenced from the serum and feces of a patient. The results showed that all Thai isolates of HEV were identified as genotype 3 (HEV-3). The ORF2 and genome phylogenies suggested two subgenotypes, called 3.1 and 3.2. The Thai isolates of HEV were frequently found in the subgenotype 3.1. The genome sequences of the two Thai isolates of HEV from the serum and fecal samples of the same patient showed 91% nucleotide similarity with the HEV genotype 3. Comparisons between the HEV genome and the ORF2 phylogenies illustrated that the ORF2 tree can be used to identify HEV genotypes, but it has less phylogenetic power for the HEV evolution. The two new genome sequences of HEV-3 from Thailand could contribute valuable information to the HEV genome study. (226 words). SN - 1573-4978 UR - https://www.unboundmedicine.com/medline/citation/33058031/Phylogenetic_analysis_of_two_new_complete_genomes_of_the_hepatitis_E_virus__HEV__genotype_3_from_Thailand_ L2 - https://doi.org/10.1007/s11033-020-05908-3 DB - PRIME DP - Unbound Medicine ER -