ArticleVirology journal2016
Nucleotide composition of the Zika virus RNA genome and its codon usage.
Article in Virology journal, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 36 papers.
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Who cites it
36 citing papers in PubMed.
- Integrated Bioinformatics and Network Analysis Identifies Key Molecular Targets and Hub Genes in Zika Virus-induced Neuroinflammation.Journal of molecular neuroscience : MN · 2026Article
- Analysis of synonymous codon usage bias of Lassa virus.Virus research · 2025Article
- Targeting immunogenic proteins of Zika virus for the prediction of immunoinformatics-driven circular mRNA vaccine model.In silico pharmacology · 2025Article
- Dengue virus preferentially uses human and mosquito non-optimal codons.Molecular systems biology · 2024Article
- Codon usage bias of Venezuelan equine encephalitis virus and its host adaption.Virus research · 2023Article
- Article
- Analysis of codon usage patterns inChinese herbal medicines · 2023Article
- Redox Regulation and Metabolic Dependency of Zika Virus Replication: Inhibition by Nrf2-Antioxidant Response and NAD(H) Antimetabolites.Journal of virology · 2023Article
- Compositional biases in RNA viruses: Causes, consequences and applications.Wiley interdisciplinary reviews. RNA · 2022Review
- Evolution of codon usage inFrontiers in veterinary science · 2022Article
- Analysis of codon usage bias of lumpy skin disease virus causing livestock infection.Frontiers in veterinary science · 2022Article
- Silent codon positions in the A-rich HIV RNA genome that do not easily become A: Restrictions imposed by the RNA sequence and structure.Virus evolution · 2022Article
- An overview of Zika virus genotypes and their infectivity.Revista da Sociedade Brasileira de Medicina Tropical · 2022Review
- Codon Usage of Hepatitis E Viruses: A Comprehensive Analysis.Frontiers in microbiology · 2022Article
- Chikungunya and Zika Viruses: Co-Circulation and the Interplay between Viral Proteins and Host Factors.Pathogens (Basel, Switzerland) · 2021Review
- Article
- Mechanistic Target of Rapamycin Signaling Activation Antagonizes Autophagy To Facilitate Zika Virus Replication.Journal of virology · 2020Article
- Analysis of codon usage of severe acute respiratory syndrome corona virus 2 (SARS-CoV-2) and its adaptability in dog.Virus research · 2020Article
- Origin and evolution of emerging Liao ning Virus (genus Seadornavirus, family Reoviridae).Virology journal · 2020Article
- The characteristic of the synonymous codon usage and phylogenetic analysis of hepatitis B virus.Genes & genomics · 2020Article
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2 authors.
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No grant is acknowledged in the PubMed record.
Abstract
backgroundRNA viruses have genomes with a distinct nucleotide composition and codon usage. We present the global characteristics of the RNA genome of Zika virus (ZIKV), an emerging pathogen within the Flavivirus genus. ZIKV was first isolated in 1947 in Uganda, caused a widespread epidemic in South and Central America and the Caribbean in 2015 and has recently been associated with microcephaly in newborns.
methodsThe nearly 11 kb positive-stranded RNA genome of ZIKV was analyzed for its nucleotide composition, also in the context of the folded RNA molecule. Nucleotide trends were investigated along the genome length by skew analyses and we analyzed the codons used for translation of the ZIKV proteins.
resultsZIKV RNA has a biased nucleotide composition in being purine-rich and pyrimidine-poor. This preference for purines is a general characteristic of the mosquito-borne and tick-borne flaviviruses. The virus-specific nucleotide bias is further enriched in the unpaired, single-stranded regions of the structured ZIKV RNA genome, thus further imposing this ZIKV-specific signature. The codons used for translation of the ZIKV proteins is also unusual, but we show that it is the underlying bias in nucleotide composition of the viral RNA that largely dictates these codon preferences.
conclusionsThe ZIKV RNA genome has a biased nucleotide composition that dictates the codon usage of this flavivirus. We discuss the evolutionary scenarios and molecular mechanisms that may be responsible for these distinctive ZIKV RNA genome features.
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