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Spectral Analysis of Guanine and Cytosine Fluctuations of Mouse Genomic DNA | | Wentian Li
; Dirk Holste
; | | Date: |
3 Nov 2004 | | Journal: | Fluctuation and Noise Letters, 4(3):L453-L464 (2004) | | Subject: | Genomics; Biomolecules | q-bio.GN q-bio.BM | | Abstract: | We study global fluctuations of the guanine and cytosine base content (GC%) in mouse genomic DNA using spectral analyses. Power spectra S(f) of GC% fluctuations in all nineteen autosomal and two sex chromosomes are observed to have the universal functional form S(f) sim 1/f^alpha (alpha approx 1) over several orders of magnitude in the frequency range 10^-7< f < 10^-5 cycle/base, corresponding to long-ranging GC% correlations at distances between 100 kb and 10 Mb. S(f) for higher frequencies (f > 10^-5 cycle/base) shows a flattened power-law function with alpha < 1 across all twenty-one chromosomes. The substitution of about 38% interspersed repeats does not affect the functional form of S(f), indicating that these are not predominantly responsible for the long-ranged multi-scale GC% fluctuations in mammalian genomes. Several biological implications of the large-scale GC% fluctuation are discussed, including neutral evolutionary history by DNA duplication, chromosomal bands, spatial distribution of transcription units (genes), replication timing, and recombination hot spots. | | Source: | arXiv, q-bio.GN/0411017 | | Services: | Forum | Review | PDF | Favorites | |
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