PMID: 9664691Jul 17, 1998Paper

On error minimization in a sequential origin of the standard genetic code

Journal of Molecular Evolution
David H Ardell

Abstract

Distances between amino acids were derived from the polar requirement measure of amino acid polarity and Benner and co-workers' (1994) 74-100 PAM matrix. These distances were used to examine the average effects of amino acid substitutions due to single-base errors in the standard genetic code and equally degenerate randomized variants of the standard code. Second-position transitions conserved all distances on average, an order of magnitude more than did second-position transversions. In contrast, first-position transitions and transversions were about equally conservative. In comparison with randomized codes, second-position transitions in the standard code significantly conserved mean square differences in polar requirement and mean Benner matrix-based distances, but mean absolute value differences in polar requirement were not significantly conserved. The discrepancy suggests that these commonly used distance measures may be insufficient for strict hypothesis testing without more information. The translational consequences of single-base errors were then examined in different codon contexts, and similarities between these contexts explored with a hierarchical cluster analysis. In one cluster of codon contexts corresponding t...Continue Reading

Citations

Jul 14, 2006·Journal of Molecular Evolution·Guy Sella, David H Ardell
Oct 16, 2008·Journal of Molecular Evolution·Steven E Massey
Oct 21, 2009·Journal of Molecular Evolution·J L Jestin, A Kempf
Dec 17, 2009·Journal of Molecular Evolution·Mehmet Levent KurnazIsil Aksan Kurnaz
May 22, 2013·Journal of Molecular Evolution·Tugce BilginAndreas Wagner
Jun 8, 2007·Origins of Life and Evolution of the Biosphere : the Journal of the International Society for the Study of the Origin of Life·Alexander Gutfraind, Achim Kempf
Jul 12, 2005·Bulletin of Mathematical Biology·Hani GoodarziNoorossadat Torabi
Jun 4, 2005·Journal of Theoretical Biology·Hamed Shateri NajafabadiNoorossadat Torabi
May 3, 2003·Journal of Theoretical Biology·V R Chechetkin
May 12, 2001·The Journal of Emergency Medicine·S S Hsu, G Groleau
Feb 9, 2000·Trends in Biochemical Sciences·M Di Giulio
Feb 9, 2000·Trends in Biochemical Sciences·S J FreelandL F Landweber
Apr 29, 2000·RNA·R D Knight, L F Landweber
Mar 31, 2000·Molecular Biology and Evolution·S J FreelandL D Hurst
Dec 24, 2002·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·David H Ardell, Guy Sella
Mar 28, 2009·International Journal of Molecular Sciences·Mehmet Levent KurnazIsil Aksan Kurnaz
Jun 27, 2014·PloS One·Witold R RudnickiPaweł Cudek
Feb 7, 2014·Origins of Life and Evolution of the Biosphere : the Journal of the International Society for the Study of the Origin of Life·Ashutosh Vishwa BandhuSupratim Sengupta
Nov 23, 2000·Proceedings of the National Academy of Sciences of the United States of America·T A RonnebergS J Freeland
Nov 20, 2015·Journal of Molecular Evolution·Anthony M PooleDavid Penny
Sep 9, 2009·Journal of Theoretical Biology·V R Chechetkin, V V Lobzin
Jul 24, 2013·Journal of Molecular Evolution·Harry BuhrmanLeen Stougie
Jan 2, 2009·IUBMB Life·Eugene V Koonin, Artem S Novozhilov
Mar 2, 2011·IEEE/ACM Transactions on Computational Biology and Bioinformatics·Harry BuhrmanLeen Stougie
Nov 6, 2004·Bio Systems·Hani GoodarziNoorossadat Torabi
Oct 31, 2006·Journal of Theoretical Biology·Noorossadat TorabiHamed Shateri Najafabadi
Jul 1, 2006·Journal of Theoretical Biology·V R Chechetkin
Oct 11, 2005·Gene·Hani GoodarziNoorossadat Torabi
Oct 20, 2010·Journal of Theoretical Biology·V R Chechetkin, V V Lobzin
Nov 15, 2017·Philosophical Transactions. Series A, Mathematical, Physical, and Engineering Sciences·Nigel GoldenfeldFarshid Jafarpour
Aug 19, 2018·Scientific Reports·Peter M C Harrison, Daniel Müllensiefen
Dec 14, 2018·BMC Evolutionary Biology·Małgorzata WnętrzakPaweł Mackiewicz
Mar 8, 2019·BMC Bioinformatics·Paweł BłaŻejPaweł Mackiewicz
Nov 18, 2017·Theory in Biosciences = Theorie in Den Biowissenschaften·Hervé Seligmann

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