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Viral codon usage and the virus-host interactions [PDF]

Frontiers in Microbiology
Codon usage pattern is a specific characteristic of each species as a result of evolution and interaction between genome composition and translational machinery.
Thanyaporn Sirihongthong, Thanyaporn Sirihongthong, Prasert Auewarakul, Prasert Auewarakul   +3 more
doaj   +2 more sources

Codon usage of human DNA viruses and its similarity to certain host genes [PDF]

Scientific Reports
Codon usages of DNA viruses had previously been shown to associate with their genome size. Codon usage of various human DNA viruses was compared to those of human genes to further understand viral codon usage and its roles in viral-host interaction ...
Thanyaporn Sirihongthong, Kunlakanya Jitobaom, Chompunuch Boonarkart, Kasim sheerazi, Prasert Auewarakul   +4 more
doaj   +2 more sources

Nuclear effects play an important role in determining codon usage-dependent human gene expression [PDF]

Nature Communications
Codon usage biases play a significant role in determining gene expression levels. Codon usage was thought to primarily influence translation-dependent processes.
Renu Garg, Pancheng Xie, Jiabin Duan, Huan Liu, Yi Liu   +4 more
doaj   +2 more sources

Strategies and Patterns of Codon Bias in Molluscum Contagiosum Virus

Pathogens, 2021
Trends associated with codon usage in molluscum contagiosum virus (MCV) and factors governing the evolution of codon usage have not been investigated so far.
Rahul Raveendran Nair, Manikandan Mohan, Gudepalya R. Rudramurthy, Reethu Vivekanandam, Panayampalli S. Satheshkumar   +4 more
doaj   +1 more source

Enterovirus A Shows Unique Patterns of Codon Usage Bias in Conventional Versus Unconventional Clade

Frontiers in Cellular and Infection Microbiology, 2022
Enterovirus A (EV-A) species cause hand, foot and mouth disease (HFMD), threatening the health of young children. Understanding the mutual codon usage pattern of the virus and its host(s) has fundamental and applied values.
Liyan Zeng, Ming Chen, Min Wang, Liuyao Zhu, Jingjing Yan, Xiaoyan Zhang, Jianqing Xu, Shuye Zhang   +7 more
doaj   +1 more source

Distinct signatures of codon and codon pair usage in 32 primary tumor types in the novel database CancerCoCoPUTs for cancer-specific codon usage

Genome Medicine, 2021
Background Gene expression is highly variable across tissues of multi-cellular organisms, influencing the codon usage of the tissue-specific transcriptome.
Douglas Meyer, Jacob Kames, Haim Bar, Anton A. Komar, Aikaterini Alexaki, Juan Ibla, Ryan C. Hunt, Luis V. Santana-Quintero, Anton Golikov, Michael DiCuccio, Chava Kimchi-Sarfaty   +10 more
doaj   +1 more source

Codon usage similarity between viral and some host genes suggests a codon-specific translational regulation

Heliyon, 2020
The codon usage pattern is a specific characteristic of each species; however, the codon usage of all of the genes in a genome is not uniform. Intriguingly, most viruses have codon usage patterns that are vastly different from the optimal codon usage of ...
Kunlakanya Jitobaom, Supinya Phakaratsakul, Thanyaporn Sirihongthong, Sasithorn Chotewutmontri, Prapat Suriyaphol, Ornpreya Suptawiwat, Prasert Auewarakul   +6 more
doaj   +1 more source

Comparative analysis of codon usage patterns of FUT2 from different species

Kuwait Journal of Science, 2022
Enterotoxigenic E. coli is an important zoonotic pathogen causing diarrhea in human and newborn animals. α - (1,2) fucosyltransferase 2 (FUT2) is closely associated with the formation of pathogenic receptors of Enterotoxigenic E. coli.
Chao Xu, Wenbin Bao, Shenglong Wu, Zhengchang Wu   +3 more
doaj   +1 more source

Distinct responses to rare codons in select Drosophila tissues

eLife, 2022
Codon usage bias has long been appreciated to influence protein production. Yet, relatively few studies have analyzed the impacts of codon usage on tissue-specific mRNA and protein expression.
Scott R Allen, Rebeccah K Stewart, Michael Rogers, Ivan Jimenez Ruiz, Erez Cohen, Alain Laederach, Christopher M Counter, Jessica K Sawyer, Donald T Fox   +8 more
doaj   +1 more source

SARS-CoV-2 Codon Usage Bias Downregulates Host Expressed Genes With Similar Codon Usage

Frontiers in Cell and Developmental Biology, 2020
Severe acute respiratory syndrome has spread quickly throughout the world and was declared a pandemic by the World Health Organization (WHO). The pathogenic agent is a new coronavirus (SARS-CoV-2) that infects pulmonary cells with great effectiveness. In
Andres Mariano Alonso, Andres Mariano Alonso, Luis Diambra, Luis Diambra   +3 more
doaj   +1 more source