A5002899166- RNA Research and Splicing
- RNA and protein synthesis mechanisms
- RNA modifications and cancer
- Mosquito-borne diseases and control
- Genomics and Phylogenetic Studies
- Insect symbiosis and bacterial influences
- RNA regulation and disease
- Viral Infections and Vectors
- Genomics and Chromatin Dynamics
- Plant Virus Research Studies
- Plant Molecular Biology Research
Stowers Institute for Medical Research
2017-2024
mRNA translation decodes nucleotide into amino acid sequences. However, has also been shown to affect stability depending on codon composition in model organisms, although universality of this mechanism remains unclear. Here, using three independent approaches measure exogenous and endogenous decay, we define which codons are associated with stable or unstable mRNAs human cells. We demonstrate that the regulatory information affecting is encoded not nucleotides. Stabilizing tend be higher...
Abstract Messenger RNA (mRNA) stability substantially impacts steady-state gene expression levels in a cell. mRNA is strongly affected by codon composition translation-dependent manner across species, through mechanism termed optimality. We have developed iCodon ( www.iCodon.org ), an algorithm for customizing the introduction of synonymous substitutions into coding sequence. optimized four vertebrate transcriptomes: mouse, human, frog, and fish. Users can predict any sequence based on its...
Abstract Background The regulation of messenger RNA (mRNA) stability has a profound impact on gene expression dynamics during embryogenesis. For example, in animals, maternally deposited mRNAs are degraded after fertilization to enable new developmental trajectories. Regulatory sequences 3′ untranslated regions (3′UTRs) have long been considered the central determinants mRNA stability. However, recent work indicates that coding sequence also possesses regulatory information. Specifically,...
Abstract Zika virus (ZIKV) is an emerging mosquito-borne flavivirus that causes severe outbreaks in human populations. ZIKV infection leads to the accumulation of small non-coding viral RNAs (known as sfRNAs) are crucial for evasion antiviral responses and pathogenesis. However, mechanistic understanding how sfRNAs function remains incomplete. Here, we use recombinant ZIKVs ribosome profiling infected cells show block translation genes. Mechanistically, demonstrate specific RNA structures...
Abstract Messenger RNA (mRNA) stability substantially impacts steady-state gene expression levels in a cell. mRNA stability, turn, is strongly affected by codon composition translation-dependent manner across species, through mechanism termed optimality. We have developed iCodon ( www.iCodon.org ), an algorithm for customizing the introduction of synonymous substitutions into coding sequence. optimized four vertebrate transcriptomes: mouse, human, frog, and fish. Users can predict any...
Abstract Codon optimality refers to the effect codon composition has on messenger RNA (mRNA) stability and translation level implies that synonymous codons are not silent from a regulatory point of view. Here, we investigated adaptation virus genomes host code using mosquito-borne dengue (DENV) as model. We defined which associated with unstable stable (non-optimal optimal codons, respectively) mRNAs in mosquito cells showed DENV preferentially uses non-optimal avoids either human or cells....