Literature DB >> 16584749

Error propagation across levels of organization: from chemical stability of ribosomal RNA to developmental stability.

Hervé Seligmann1.   

Abstract

My hypothesis integrates molecular and whole-organism levels of development. A physico-chemical property of nucleotides (their dipole moment), confers structural thermostability on double-stranded sequences, and decreases chemical stability of single-stranded sequences. According to this approach, low ribosomal RNA stability should decrease the precision of protein synthesis and whole-organism developmental stability. Indeed, substitution frequencies in pseudogenes are proportional to the subtraction of the dipole moment of the substituting nucleotide from that of the substituted one, and developmental instability, estimated by morphological fluctuating asymmetry (FA), correlates with mammal 12s rRNA base content of loop (but not stem) regions. In lizards, fit to the single-strand rationale of sequence chemical stability decreases with the level of poikilothermy of the investigated lizard family, suggesting interactions between changes in body temperature, ribosomal structure and developmental instability. Results confirm the hypothesis (less than for 12s rRNA) in: third codon positions of cytochrome B, probably because, unlike rRNAs, specific mRNAs affect only the protein they code; and 16s rRNA, apparently because its base composition is more affected by genome-wide mutational biases than that of 12s rRNA.

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Year:  2006        PMID: 16584749     DOI: 10.1016/j.jtbi.2006.02.004

Source DB:  PubMed          Journal:  J Theor Biol        ISSN: 0022-5193            Impact factor:   2.691


  7 in total

1.  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

2.  Genetic Code Optimization for Cotranslational Protein Folding: Codon Directional Asymmetry Correlates with Antiparallel Betasheets, tRNA Synthetase Classes.

Authors:  Hervé Seligmann; Ganesh Warthi
Journal:  Comput Struct Biotechnol J       Date:  2017-08-12       Impact factor: 7.271

3.  PHEMTO: protein pH-dependent electric moment tools.

Authors:  Alexander A Kantardjiev; Boris P Atanasov
Journal:  Nucleic Acids Res       Date:  2009-05-06       Impact factor: 16.971

4.  Coding constraints modulate chemically spontaneous mutational replication gradients in mitochondrial genomes.

Authors:  Hervé Seligmann
Journal:  Curr Genomics       Date:  2012-03       Impact factor: 2.236

5.  A server and database for dipole moments of proteins.

Authors:  Clifford E Felder; Jaime Prilusky; Israel Silman; Joel L Sussman
Journal:  Nucleic Acids Res       Date:  2007-05-25       Impact factor: 16.971

6.  Protein Sequences Recapitulate Genetic Code Evolution.

Authors:  Hervé Seligmann
Journal:  Comput Struct Biotechnol J       Date:  2018-05-30       Impact factor: 7.271

7.  The primordial tRNA acceptor stem code from theoretical minimal RNA ring clusters.

Authors:  Jacques Demongeot; Hervé Seligmann
Journal:  BMC Genet       Date:  2020-01-23       Impact factor: 2.797

  7 in total

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