Literature DB >> 16838217

The coevolution of genes and genetic codes: Crick's frozen accident revisited.

Guy Sella1, David H Ardell.   

Abstract

The standard genetic code is the nearly universal system for the translation of genes into proteins. The code exhibits two salient structural characteristics: it possesses a distinct organization that makes it extremely robust to errors in replication and translation, and it is highly redundant. The origin of these properties has intrigued researchers since the code was first discovered. One suggestion, which is the subject of this review, is that the code's organization is the outcome of the coevolution of genes and genetic codes. In 1968, Francis Crick explored the possible implications of coevolution at different stages of code evolution. Although he argues that coevolution was likely to influence the evolution of the code, he concludes that it falls short of explaining the organization of the code we see today. The recent application of mathematical modeling to study the effects of errors on the course of coevolution, suggests a different conclusion. It shows that coevolution readily generates genetic codes that are highly redundant and similar in their error-correcting organization to the standard code. We review this recent work and suggest that further affirmation of the role of coevolution can be attained by investigating the extent to which the outcome of coevolution is robust to other influences that were present during the evolution of the code.

Mesh:

Year:  2006        PMID: 16838217     DOI: 10.1007/s00239-004-0176-7

Source DB:  PubMed          Journal:  J Mol Evol        ISSN: 0022-2844            Impact factor:   2.395


  43 in total

Review 1.  The case for an error minimizing standard genetic code.

Authors:  Stephen J Freeland; Tao Wu; Nick Keulmann
Journal:  Orig Life Evol Biosph       Date:  2003-10       Impact factor: 1.950

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

Authors:  D H Ardell
Journal:  J Mol Evol       Date:  1998-07       Impact factor: 2.395

3.  Complementary base pairing and the origin of substitution mutations.

Authors:  M D Topal; J R Fresco
Journal:  Nature       Date:  1976-09-23       Impact factor: 49.962

Review 4.  Errors and alternatives in reading the universal genetic code.

Authors:  J Parker
Journal:  Microbiol Rev       Date:  1989-09

5.  The phylogeny of tRNA sequences provides evidence for ambiguity reduction in the origin of the genetic code.

Authors:  W M Fitch; K Upper
Journal:  Cold Spring Harb Symp Quant Biol       Date:  1987

6.  The genetic code and error transmission.

Authors:  C Alff-Steinberger
Journal:  Proc Natl Acad Sci U S A       Date:  1969-10       Impact factor: 11.205

7.  The phylogeny of tRNAs seems to confirm the predictions of the coevolution theory of the origin of the genetic code.

Authors:  M Di Giulio
Journal:  Orig Life Evol Biosph       Date:  1995-12       Impact factor: 1.950

8.  The hypercycle. A principle of natural self-organization. Part A: Emergence of the hypercycle.

Authors:  M Eigen; P Schuster
Journal:  Naturwissenschaften       Date:  1977-11

9.  A comparison of the small ribosomal RNA genes from the mitochondrial DNA of the great apes and humans: sequence, structure, evolution, and phylogenetic implications.

Authors:  J E Hixson; W M Brown
Journal:  Mol Biol Evol       Date:  1986-01       Impact factor: 16.240

10.  Reassigning cysteine in the genetic code of Escherichia coli.

Authors:  V Döring; P Marlière
Journal:  Genetics       Date:  1998-10       Impact factor: 4.562

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  20 in total

1.  Unassigned codons, nonsense suppression, and anticodon modifications in the evolution of the genetic code.

Authors:  Peter T S van der Gulik; Wouter D Hoff
Journal:  J Mol Evol       Date:  2011-11-11       Impact factor: 2.395

2.  What can information-asymmetric games tell us about the context of Crick's 'frozen accident'?

Authors:  Justin Jee; Andrew Sundstrom; Steven E Massey; Bud Mishra
Journal:  J R Soc Interface       Date:  2013-08-28       Impact factor: 4.118

3.  Certain non-standard coding tables appear to be more robust to error than the standard genetic code.

Authors:  Mehmet Levent Kurnaz; Tugce Bilgin; Isil Aksan Kurnaz
Journal:  J Mol Evol       Date:  2009-12-10       Impact factor: 2.395

Review 4.  Optimization models and the structure of the genetic code.

Authors:  J L Jestin; A Kempf
Journal:  J Mol Evol       Date:  2009-10-20       Impact factor: 2.395

5.  The genetic code. Rewritten, revised, repurposed.

Authors:  Roy D Sleator
Journal:  Artif DNA PNA XNA       Date:  2014

6.  An alternative look at code evolution: using non-canonical codes to evaluate adaptive and historic models for the origin of the genetic code.

Authors:  David W Morgens; Andre R O Cavalcanti
Journal:  J Mol Evol       Date:  2013-01-24       Impact factor: 2.395

7.  Revisiting the physico-chemical hypothesis of code origin: an analysis based on code-sequence coevolution in a finite population.

Authors:  Ashutosh Vishwa Bandhu; Neha Aggarwal; Supratim Sengupta
Journal:  Orig Life Evol Biosph       Date:  2014-02-06       Impact factor: 1.950

8.  Bijective codon transformations show genetic code symmetries centered on cytosine's coding properties.

Authors:  Hervé Seligmann
Journal:  Theory Biosci       Date:  2017-11-16       Impact factor: 1.919

9.  A statistical analysis of the robustness of alternate genetic coding tables.

Authors:  Mehmet Levent Kurnaz; Isil Aksan Kurnaz
Journal:  Int J Mol Sci       Date:  2008-05-02       Impact factor: 6.208

10.  A four-column theory for the origin of the genetic code: tracing the evolutionary pathways that gave rise to an optimized code.

Authors:  Paul G Higgs
Journal:  Biol Direct       Date:  2009-04-24       Impact factor: 4.540

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