Although preliminary, these results indicate a potential correlation between DNA composition and amino acid compositional similarities of F-ORF sequences but they do not rule out the hypothesized protein-coding function of the F-ORF in mytilid mussels.
The association between DNA composition (mainly AT-repeat sequences), nucleosome landscape, and transcription levels observed in this study is similar to the effect of poly dA dT) tracts on nucleosome positioning and promoter activity in yeast [ 10, 38].
Further studies would show other properties of these strategic points where τ determines very specific balance between the DNA composition and mutational pressure.
The difference between the DNA composition in equilibrium with mutational pressure and a DNA sequence under both mutational and selection pressures allows for estimation of the effect of selection pressure exerted on the particular sequence.
The implications of such evolutionary established relations between the DNA composition and the turnover rates of nucleotides would have a great impact on the understanding of the genomes evolution itself.
However, the relationship between observed intensity and target DNA composition is not straightforward.
The correlation between OUV and PCH scores means that random walk like DNA composition is strongly associated with intra-genomic heterogeneity, as measured by the different Markov model based genomic signatures.
In each simulation, only one of the following model parameters was evaluated, including the lipid composition (6.2 16.2%), protein composition (37 47%), RNA composition (6.6 16.6%), DNA composition (0.1 1.0%), carbohydrate composition (26.9 36.9%), and NGAM value (1.26 3.78 mmol ATP/gDC Wh).
DNA composition and concentration has been shown to affect TRFLP profiles [23], and because DNA template composition and concentration necessarily varies between a bulk TRFLP analysis and twenty TRFLP analyses performed on the same DNA sample following fractionation, we would expect quantitative and qualitative differences in TRF detection.
Thus, genomic analyses of organisms undergoing evolutionary transition between different environments may give many important clues concerning how differences in DNA composition may arise in closely related organisms.
