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Please use this identifier to cite or link to this item: https://doi.org/10.21256/zhaw-4023
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dc.contributor.authorGarcia, Victor-
dc.contributor.authorZoller, Stefan-
dc.contributor.authorAnisimova, Maria-
dc.date.accessioned2018-10-11T14:51:26Z-
dc.date.available2018-10-11T14:51:26Z-
dc.date.issued2018-10-04-
dc.identifier.urihttps://digitalcollection.zhaw.ch/handle/11475/11719-
dc.description.abstractExperimental evidence shows that synonymous mutations can have important consequences on genetic fitness. Many organisms display codon usage bias (CUB), where synonymous codons that are translated into the same amino acid appear with distinct frequency. Within genomes, CUB is thought to arise from selection for translational efficiency and accuracy, termed the translational efficiency hypothesis (TEH). Indeed, CUB indices correlate with protein expression levels, which is widely interpreted as evidence for translational selection. However, these tests neglect -1 programmed ribosomal frameshifting (-1 PRF), an important translational disruption effect found across all organisms of the tree of life. Genes that contain -1 PRF signals should cost more to express than genes without. Thus, CUB indices that do not consider -1 PRF may overestimate genes’ true adaptation to translational efficiency and accuracy constraints. Here, we first investigate whether -1 PRF signals do indeed carry such translational cost. We then propose two corrections for CUB indices for genes containing -1 PRF signals. We retest the TEH in Saccharomyces cerevisiae under these corrections. We find that the correlation between corrected CUB index and protein expression remains intact for most levels of uniform -1 PRF efficiencies, and tends to increase when these efficiencies decline with protein expression. We conclude that the TEH is strengthened and that -1 PRF events constitute a promising and useful tool to examine the relationships between CUB and selection for translation efficiency and accuracy.de_CH
dc.language.isoende_CH
dc.publisherZHAW Zürcher Hochschule für Angewandte Wissenschaftende_CH
dc.rightsLicence according to publishing contractde_CH
dc.subjectCodon usage biasde_CH
dc.subjectProgrammed ribosomal frameshiftingde_CH
dc.subjectmRNA translationde_CH
dc.subjectGeneticsde_CH
dc.subject.ddc572: Biochemiede_CH
dc.titleProgrammed ribosomal frameshifting and codon usage biasde_CH
dc.typeKonferenz: Posterde_CH
dcterms.typeTextde_CH
zhaw.departementLife Sciences und Facility Managementde_CH
zhaw.organisationalunitInstitut für Computational Life Sciences (ICLS)de_CH
dc.identifier.doi10.21256/zhaw-4023-
zhaw.conference.detailsLife in Numbers 4, Wädenswil, 4 October 2018de_CH
zhaw.funding.euNode_CH
zhaw.originated.zhawYesde_CH
zhaw.parentwork.editorHirsch, Sven-
zhaw.publication.statuspublishedVersionde_CH
zhaw.publication.reviewKeine Begutachtungde_CH
zhaw.title.proceedingsLife in Numbers 4.0de_CH
zhaw.webfeedApplied Mathematical Biologyde_CH
zhaw.webfeedComputational Genomicsde_CH
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Garcia, V., Zoller, S., & Anisimova, M. (2018). Programmed ribosomal frameshifting and codon usage bias [Conference poster]. In S. Hirsch (Ed.), Life in Numbers 4.0. ZHAW Zürcher Hochschule für Angewandte Wissenschaften. https://doi.org/10.21256/zhaw-4023
Garcia, V., Zoller, S. and Anisimova, M. (2018) ‘Programmed ribosomal frameshifting and codon usage bias’, in S. Hirsch (ed.) Life in Numbers 4.0. ZHAW Zürcher Hochschule für Angewandte Wissenschaften. Available at: https://doi.org/10.21256/zhaw-4023.
V. Garcia, S. Zoller, and M. Anisimova, “Programmed ribosomal frameshifting and codon usage bias,” in Life in Numbers 4.0, Oct. 2018. doi: 10.21256/zhaw-4023.
GARCIA, Victor, Stefan ZOLLER und Maria ANISIMOVA, 2018. Programmed ribosomal frameshifting and codon usage bias. In: Sven HIRSCH (Hrsg.), Life in Numbers 4.0. Conference poster. ZHAW Zürcher Hochschule für Angewandte Wissenschaften. 4 Oktober 2018
Garcia, Victor, Stefan Zoller, and Maria Anisimova. 2018. “Programmed Ribosomal Frameshifting and Codon Usage Bias.” Conference poster. In Life in Numbers 4.0, edited by Sven Hirsch. ZHAW Zürcher Hochschule für Angewandte Wissenschaften. https://doi.org/10.21256/zhaw-4023.
Garcia, Victor, et al. “Programmed Ribosomal Frameshifting and Codon Usage Bias.” Life in Numbers 4.0, edited by Sven Hirsch, ZHAW Zürcher Hochschule für Angewandte Wissenschaften, 2018, https://doi.org/10.21256/zhaw-4023.


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