Literature DB >> 15904043

Solvable sequence evolution models and genomic correlations.

Philipp W Messer1, Peter F Arndt, Michael Lässig.   

Abstract

We study a minimal model for genome evolution whose elementary processes are single site mutation, duplication and deletion of sequence regions, and insertion of random segments. These processes are found to generate long-range correlations in the composition of letters as long as the sequence length is growing; i.e., the combined rates of duplications and insertions are higher than the deletion rate. For constant sequence length, on the other hand, all initial correlations decay exponentially. These results are obtained analytically and by simulations. They are compared with the long-range correlations observed in genomic DNA, and the implications for genome evolution are discussed.

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Year:  2005        PMID: 15904043     DOI: 10.1103/PhysRevLett.94.138103

Source DB:  PubMed          Journal:  Phys Rev Lett        ISSN: 0031-9007            Impact factor:   9.161


  7 in total

1.  Quasispecies theory for multiple-peak fitness landscapes.

Authors:  David B Saakian; E Muñoz; Chin-Kun Hu; M W Deem
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2006-04-11

2.  Scale-invariant structure of strongly conserved sequence in genomic intersections and alignments.

Authors:  William Salerno; Paul Havlak; Jonathan Miller
Journal:  Proc Natl Acad Sci U S A       Date:  2006-08-21       Impact factor: 11.205

3.  Universal global imprints of genome growth and evolution--equivalent length and cumulative mutation density.

Authors:  Hong-Da Chen; Wen-Lang Fan; Sing-Guan Kong; Hoong-Chien Lee
Journal:  PLoS One       Date:  2010-04-14       Impact factor: 3.240

4.  Algebraic distribution of segmental duplication lengths in whole-genome sequence self-alignments.

Authors:  Kun Gao; Jonathan Miller
Journal:  PLoS One       Date:  2011-07-14       Impact factor: 3.240

5.  CorGen--measuring and generating long-range correlations for DNA sequence analysis.

Authors:  Philipp W Messer; Peter F Arndt
Journal:  Nucleic Acids Res       Date:  2006-07-01       Impact factor: 16.971

6.  Complex multifractal nature in Mycobacterium tuberculosis genome.

Authors:  Saurav Mandal; Tanmoy Roychowdhury; Keilash Chirom; Alok Bhattacharya; R K Brojen Singh
Journal:  Sci Rep       Date:  2017-04-25       Impact factor: 4.379

7.  Inverse symmetry in complete genomes and whole-genome inverse duplication.

Authors:  Sing-Guan Kong; Wen-Lang Fan; Hong-Da Chen; Zi-Ting Hsu; Nengji Zhou; Bo Zheng; Hoong-Chien Lee
Journal:  PLoS One       Date:  2009-11-09       Impact factor: 3.240

  7 in total

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