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A role for circular code properties in translation

View ORCID ProfileSimone Giannerini, View ORCID ProfileAlberto Danielli, View ORCID ProfileDiego Luis Gonzalez, View ORCID ProfileGreta Goracci
doi: https://doi.org/10.1101/2020.09.28.317016
Simone Giannerini
aDepartment of Statistical Sciences, University of Bologna, Bologna, 40126, Italy
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  • For correspondence: simone.giannerini@unibo.it
Alberto Danielli
bDepartment of Pharmacy and Biotechnology, University of Bologna, Bologna, 40126, Italy
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Diego Luis Gonzalez
aDepartment of Statistical Sciences, University of Bologna, Bologna, 40126, Italy
cInstitute for Microelectronics and Microsystems - Bologna Unit, CNR, Bologna, 40129, Italy
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Greta Goracci
aDepartment of Statistical Sciences, University of Bologna, Bologna, 40126, Italy
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Abstract

Circular codes represent a form of coding allowing detection/correction of frameshift errors. Building on recent theoretical advances on circular codes, we provide evidence that protein coding sequences exhibit in-frame circular code marks, that are absent in introns and are intimately linked to the keto-amino transformation of codon bases. These properties strongly correlate with translation speed, codon influence and protein expression levels. Strikingly, circular code marks are absent at the beginning of coding sequences, but stably occur 40 codons after the initiator codon, hinting at the translation elongation process. Finally, we use the lens of circular codes to show that codon influence on translation correlates with the strong-weak dichotomy of the first two bases of the codon. The results provide promising universal tools for sequence indicators and sequence optimization for bioinformatics and biotechnological applications, and can shed light on the molecular mechanisms behind the decoding process.

Competing Interest Statement

The authors have declared no competing interest.

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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission.
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Posted September 30, 2020.
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A role for circular code properties in translation
Simone Giannerini, Alberto Danielli, Diego Luis Gonzalez, Greta Goracci
bioRxiv 2020.09.28.317016; doi: https://doi.org/10.1101/2020.09.28.317016
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A role for circular code properties in translation
Simone Giannerini, Alberto Danielli, Diego Luis Gonzalez, Greta Goracci
bioRxiv 2020.09.28.317016; doi: https://doi.org/10.1101/2020.09.28.317016

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