Bicodon bias can determine the role of synonymous SNPs in human diseases

BMC Genomics
Christina McCarthyLuis A Diambra

Abstract

For a long time synonymous single nucleotide polymorphisms were considered as silent mutations. However, nowadays it is well known that they can affect protein conformation and function, leading to altered disease susceptibilities, differential prognosis and/or drug responses, among other clinically relevant genetic traits. This occurs through different mechanisms: by disrupting the splicing signals of precursor mRNAs, affecting regulatory binding-sites of transcription factors and miRNAs, or by modifying the secondary structure of mRNAs. In this paper we considered 22 human genetic diseases or traits, linked to 35 synonymous single nucleotide polymorphisms in 27 different genes. We performed a local sequence context analysis in terms of the ribosomal pause propensity affected by synonymous single nucleotide polymorphisms. We found that synonymous mutations related to the above mentioned mechanisms presented small pause propensity changes, whereas synonymous mutations that were not related to those mechanisms presented large pause propensity changes. On the other hand, we did not observe large variations in the codon usage of codons associated with these mutations. Furthermore, we showed that the changes in the pause propensity...Continue Reading

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Related Concepts

Drug Response
Genetic Disorders Screening
Genes
Translational Attenuation
Macromolecular Alteration
Candidate Gene Identification
Protein Biosynthesis
Sense Codon
Codon Genus
Codon (Nucleotide Sequence)

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