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The genetic divergences of codon usage shed new lights on transmission of hepatitis E virus from swine to human.
Infect Genet Evol. 2019 03; 68:23-29.IG

Abstract

Hepatitis E virus (HEV) is an important pathogen causing public health burden. Swine has been recognized as a main reservoir. Interestingly, genotype 1 HEV only infects human; whereas genotype 3 and 4 are zoonotic. However, there is a lack of in-depth understanding in respect to the transmission from swine to human. Codon usage patterns generally participate in viral survival and fitness towards its hosts. We have analyzed codon usage patterns of the three open reading frames (ORFs) for 243 full-length genomes of HEV genotypes 1, 3 and 4. The divergence of synonymous codon usage patterns is different in each ORF for genotypes 1, 3 and 4, but the genotype-specific codon usage bias in genotype 1 is stronger than those of genotypes 3 and 4. In respect to genotypes 3 and 4, compared with strains isolated from human, HEV isolated from swine shows appreciable variation in adaptation of codon usages to human or swine. These results may help to understand the transmission and host adaptation of HEV genotypes 3 and 4 from swine to human.

Authors+Show Affiliations

College of Veterinary Medicine, Gansu Agricultural University, Lanzhou, 730070, Gansu, China; Department of Gastroenterology and Hepatology, Erasmus MC-University Medical Center, Room Na-1011, s-Gravendijkwal 230, NL-3015 CE, Rotterdam, the Netherlands; State Key Laboratory of Veterinary Etiological Biology, Chinese Academy of Agricultural Sciences, Lanzhou Veterinary Research Institute, Lanzhou, 730046, Gansu, China.State Key Laboratory of Veterinary Etiological Biology, Chinese Academy of Agricultural Sciences, Lanzhou Veterinary Research Institute, Lanzhou, 730046, Gansu, China.State Key Laboratory of Veterinary Etiological Biology, Chinese Academy of Agricultural Sciences, Lanzhou Veterinary Research Institute, Lanzhou, 730046, Gansu, China.College of Veterinary Medicine, Gansu Agricultural University, Lanzhou, 730070, Gansu, China; State Key Laboratory of Veterinary Etiological Biology, Chinese Academy of Agricultural Sciences, Lanzhou Veterinary Research Institute, Lanzhou, 730046, Gansu, China.State Key Laboratory of Veterinary Etiological Biology, Chinese Academy of Agricultural Sciences, Lanzhou Veterinary Research Institute, Lanzhou, 730046, Gansu, China.College of Veterinary Medicine, Gansu Agricultural University, Lanzhou, 730070, Gansu, China. Electronic address: yhh0817@126.com.Department of Gastroenterology and Hepatology, Erasmus MC-University Medical Center, Room Na-1011, s-Gravendijkwal 230, NL-3015 CE, Rotterdam, the Netherlands. Electronic address: q.pan@erasmusmc.nl.

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

30517879

Citation

Zhou, Jian-Hua, et al. "The Genetic Divergences of Codon Usage Shed New Lights On Transmission of Hepatitis E Virus From Swine to Human." Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases, vol. 68, 2019, pp. 23-29.
Zhou JH, Li XR, Lan X, et al. The genetic divergences of codon usage shed new lights on transmission of hepatitis E virus from swine to human. Infect Genet Evol. 2019;68:23-29.
Zhou, J. H., Li, X. R., Lan, X., Han, S. Y., Wang, Y. N., Hu, Y., & Pan, Q. (2019). The genetic divergences of codon usage shed new lights on transmission of hepatitis E virus from swine to human. Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases, 68, 23-29. https://doi.org/10.1016/j.meegid.2018.11.024
Zhou JH, et al. The Genetic Divergences of Codon Usage Shed New Lights On Transmission of Hepatitis E Virus From Swine to Human. Infect Genet Evol. 2019;68:23-29. PubMed PMID: 30517879.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - The genetic divergences of codon usage shed new lights on transmission of hepatitis E virus from swine to human. AU - Zhou,Jian-Hua, AU - Li,Xue-Rui, AU - Lan,Xi, AU - Han,Sheng-Yi, AU - Wang,Yi-Ning, AU - Hu,Yonghao, AU - Pan,Qiuwei, Y1 - 2018/12/02/ PY - 2018/07/15/received PY - 2018/11/22/revised PY - 2018/11/30/accepted PY - 2018/12/6/pubmed PY - 2019/12/31/medline PY - 2018/12/6/entrez KW - Codon usage pattern KW - Hepatitis E virus KW - Host KW - Natural selection KW - Transmission SP - 23 EP - 29 JF - Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases JO - Infect Genet Evol VL - 68 N2 - Hepatitis E virus (HEV) is an important pathogen causing public health burden. Swine has been recognized as a main reservoir. Interestingly, genotype 1 HEV only infects human; whereas genotype 3 and 4 are zoonotic. However, there is a lack of in-depth understanding in respect to the transmission from swine to human. Codon usage patterns generally participate in viral survival and fitness towards its hosts. We have analyzed codon usage patterns of the three open reading frames (ORFs) for 243 full-length genomes of HEV genotypes 1, 3 and 4. The divergence of synonymous codon usage patterns is different in each ORF for genotypes 1, 3 and 4, but the genotype-specific codon usage bias in genotype 1 is stronger than those of genotypes 3 and 4. In respect to genotypes 3 and 4, compared with strains isolated from human, HEV isolated from swine shows appreciable variation in adaptation of codon usages to human or swine. These results may help to understand the transmission and host adaptation of HEV genotypes 3 and 4 from swine to human. SN - 1567-7257 UR - https://www.unboundmedicine.com/medline/citation/30517879/The_genetic_divergences_of_codon_usage_shed_new_lights_on_transmission_of_hepatitis_E_virus_from_swine_to_human_ L2 - https://linkinghub.elsevier.com/retrieve/pii/S1567-1348(18)30511-2 DB - PRIME DP - Unbound Medicine ER -