Selection for ancient periodic motifs that do not impart DNA bending
Autoři:
Aletheia Atzinger aff001; Jeffrey G. Lawrence aff001
Působiště autorů:
University of Pittsburgh, Department of Biological Sciences, Pittsburgh, United States of America
aff001
Vyšlo v časopise:
Selection for ancient periodic motifs that do not impart DNA bending. PLoS Genet 16(10): e32767. doi:10.1371/journal.pgen.1009042
Kategorie:
Research Article
doi:
https://doi.org/10.1371/journal.pgen.1009042
Souhrn
A ~10–11 bp periodicity in dinucleotides imparting DNA bending, with shorter periods found in organisms with positively-supercoiled DNA and longer periods found in organisms with negatively-supercoiled DNA, was previously suggested to assist in DNA compaction. However, when measured with more robust methods, variation in the observed periods between organisms with different growth temperatures is not consistent with that hypothesis. We demonstrate that dinucleotide periodicity does not arise solely by mutational biases but is under selection. We found variation between genomes in both the period and the suite of dinucleotides that are periodic. Whereas organisms with similar growth temperatures have highly variable periods, differences in periods increase with phylogenetic distance between organisms. In addition, while the suites of dinucleotides under selection for periodicity become more dissimilar among more distantly-related organisms, there is a core set of dinucleotides that are strongly periodic among genomes in all domains of life. Notably, this core set of periodic motifs are not involved in DNA bending. These data indicate that dinucleotide periodicity is an ancient genomic architecture which may play a role in shaping the evolution of genes and genomes.
Klíčová slova:
Archaea – Bacterial genomics – Curve fitting – Distribution curves – Genome analysis – Genomics – Paleogenetics – Autocorrelation
Zdroje
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