A role for circular code properties in translation

Abstract Circular codes represent a form of coding allowing detection/correction of frame-shift 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 lin...

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Autores principales:	Simone Giannerini, Diego Luis Gonzalez, Greta Goracci, Alberto Danielli
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/33783baa977e4292a4988ef669d59c80
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spelling	oai:doaj.org-article:33783baa977e4292a4988ef669d59c802021-12-02T13:41:34ZA role for circular code properties in translation10.1038/s41598-021-87534-y2045-2322https://doaj.org/article/33783baa977e4292a4988ef669d59c802021-04-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-87534-yhttps://doaj.org/toc/2045-2322Abstract Circular codes represent a form of coding allowing detection/correction of frame-shift 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 synthesis 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 can lead to defining new 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.Simone GianneriniDiego Luis GonzalezGreta GoracciAlberto DanielliNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-15 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Simone Giannerini Diego Luis Gonzalez Greta Goracci Alberto Danielli A role for circular code properties in translation
description	Abstract Circular codes represent a form of coding allowing detection/correction of frame-shift 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 synthesis 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 can lead to defining new 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.
format	article
author	Simone Giannerini Diego Luis Gonzalez Greta Goracci Alberto Danielli
author_facet	Simone Giannerini Diego Luis Gonzalez Greta Goracci Alberto Danielli
author_sort	Simone Giannerini
title	A role for circular code properties in translation
title_short	A role for circular code properties in translation
title_full	A role for circular code properties in translation
title_fullStr	A role for circular code properties in translation
title_full_unstemmed	A role for circular code properties in translation
title_sort	role for circular code properties in translation
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/33783baa977e4292a4988ef669d59c80
work_keys_str_mv	AT simonegiannerini aroleforcircularcodepropertiesintranslation AT diegoluisgonzalez aroleforcircularcodepropertiesintranslation AT gretagoracci aroleforcircularcodepropertiesintranslation AT albertodanielli aroleforcircularcodepropertiesintranslation AT simonegiannerini roleforcircularcodepropertiesintranslation AT diegoluisgonzalez roleforcircularcodepropertiesintranslation AT gretagoracci roleforcircularcodepropertiesintranslation AT albertodanielli roleforcircularcodepropertiesintranslation
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A role for circular code properties in translation

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