On the efficiency of the genetic code after frameshift mutations

PeerJ
Regine Geyer, Amir Madany Mamlouk

Abstract

Statistical and biochemical studies of the standard genetic code (SGC) have found evidence that the impact of mistranslations is minimized in a way that erroneous codes are either synonymous or code for an amino acid with similar polarity as the originally coded amino acid. It could be quantified that the SGC is optimized to protect this specific chemical property as good as possible. In recent work, it has been speculated that the multilevel optimization of the genetic code stands in the wider context of overlapping codes. This work tries to follow the systematic approach on mistranslations and to extend those analyses to the general effect of frameshift mutations on the polarity conservation of amino acids. We generated one million random codes and compared their average polarity change over all triplets and the whole set of possible frameshift mutations. While the natural code-just as for the point mutations-appears to be competitively robust against frameshift mutations as well, we found that both optimizations appear to be independent of each other. For both, better codes can be found, but it becomes significantly more difficult to find candidates that optimize all of these features-just like the SGC does. We conclude that...Continue Reading

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Citations

Apr 7, 2019·Journal of Molecular Evolution·Jacques Demongeot, Hervé Seligmann
Mar 5, 2020·Proceedings of the National Academy of Sciences of the United States of America·Lukas BartonekBojan Zagrovic
Jan 8, 2020·Journal of Molecular Evolution·Jacques Demongeot, Hervé Seligmann
Sep 13, 2019·Nucleic Acids Research·Jonathan CallesDrew Endy
Apr 1, 2020·BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology·Jacques Demongeot, Hervé Seligmann
Feb 11, 2021·Bio Systems·Julie D ThompsonChristian J Michel
Apr 7, 2020·Bio Systems·Gopal DilaJulie D Thompson
May 28, 2021·Molecular Biology and Evolution·Haiqing Xu, Jianzhi Zhang
Aug 11, 2021·Molecular Biology and Evolution·Hana Rozhoňová, Joshua L Payne
Aug 13, 2021·Molecular Biology and Evolution·Haiqing Xu, Jianzhi Zhang

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