342 results found
    1. Genetics and Genomics

    Codon usage biases co-evolve with transcription termination machinery to suppress premature cleavage and polyadenylation

    Zhipeng Zhou et al.
    Genetic and bioinformatic analyses uncover an unexpected role for codon usage biases in regulating gene expression at the transcriptional level by suppressing premature transcription termination.
    1. Genetics and Genomics

    Recombination, meiotic expression and human codon usage

    Fanny Pouyet et al.
    Variation in codon usage among functional categories of human genes is not due to selection for translation efficiency, but to differences in intragenic recombination rate, linked to variation in meiotic transcription level.
    1. Microbiology and Infectious Disease

    Codon usage bias controls mRNA and protein abundance in trypanosomatids

    Laura Jeacock et al.
    Global relative mRNA and protein abundance in trypanosomatids can be effectively estimated at transcriptomic and proteomic scales based on protein-coding sequences alone.
    1. Biochemistry and Chemical Biology

    Measurement of average decoding rates of the 61 sense codons in vivo

    Justin Gardin et al.
    The translation rates of each yeast codon have been measured in both the A and P sites of the ribosome.
    1. Microbiology and Infectious Disease

    RNA virus attenuation by codon pair deoptimisation is an artefact of increases in CpG/UpA dinucleotide frequencies

    Fiona Tulloch et al.
    Attenuating candidate live virus vaccines by incorporating unfavoured codon pairs to reduce translation efficiency is actually mediated though changes in frequencies of CpG and UpA dinucleotides, which make viruses more visible to the innate immune system.
    1. Ecology

    Genomic adaptations in information processing underpin trophic strategy in a whole-ecosystem nutrient enrichment experiment

    Jordan G Okie et al.
    Trait-based metagenomic analysis of an ecosystem fertilization experiment shows that genomic traits that affect the costs and rates of biochemical information-processing mediate community assembly.
    1. Chromosomes and Gene Expression

    GC content shapes mRNA storage and decay in human cells

    Maïté Courel et al.
    The GC content of human mRNAs is key to P-body localization and protein yield, and has a major impact on their post-transcriptional control.
    1. Computational and Systems Biology
    2. Microbiology and Infectious Disease

    Operon mRNAs are organized into ORF-centric structures that predict translation efficiency

    David H Burkhardt et al.
    Operonic mRNAs in bacteria are comprised of ORF (open reading frame)-wide units of secondary structure, which are intrinsically distinct between adjacent ORFs and encode a rough blueprint for ORF-specific translation efficiency.
    1. Genetics and Genomics

    Codon optimization underpins generalist parasitism in fungi

    Thomas Badet et al.
    Codon optimization through biased synonymous substitutions is a characteristic feature of the genomes of generalist fungal parasites and is associated with the colonization of multiple hosts.
    1. Computational and Systems Biology
    2. Evolutionary Biology

    Point of View: Biological causal links on physiological and evolutionary time scales

    Amit Karmon, Yitzhak Pilpel
    Increasing awareness that many causal links in biology might be bi-directional could overcome biases and improve scientific reasoning.

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