Self-similar mitochondrial DNA |
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Authors: | Nestor N Oiwa James A Glazier |
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Institution: | 1. Institute of Physics, University of S?o Paulo, S?o Paulo, Brazil 2. Department of Physics, University of Notre Dame, Notre Dame, IN 3. Department of Physics and Biocomplexity Institute, Indiana University, Bloomington, IN
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Abstract: | We show that repeated sequences, like palindromes (local repetitions) and homologies between two different nucleotide sequences
(motifs along the genome), compose a self-similar (fractal) pattern in mitochondrial DNA. This self-similarity comes from
the looplike structures distributed along the genome. The looplike structures generate scaling laws in a pseudorandom DNA
walk constructed from the sequence, called a Lévy flight. We measure the scaling laws from the generalized fractal dimension
and singularity spectrum for mitochondrial DNA walks for 35 different species. In particular, we report characteristic loop
distributions for mammal mitochondrial genomes. |
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Keywords: | Fractal mitochondrial genome scaling laws Lévy flight DNA walk large-scale DNA analysis palindromes DNA loops 16S rRNA |
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