Two common profiles exist for genomic oligonucleotide frequencies.

ABSTRACT:

Background

It was reported that there is a majority profile for trinucleotide frequencies among genomes. And further study has revealed that two common profiles, rather than one majority profile, exist for genomic trinucleotide frequencies. However, the origins of the common/majority profile remain elusive. Moreover, it is not clear whether the features of common profile may be extended to oligonucleotides other than trinucleotides.

Findings

We analyzed 571 prokaryotic genomes (chromosomes) and some selected eukaryotic nuclear genomes as well as other genetic systems to study their compositional features. We found that there are also two common profiles for genomic oligonucleotide frequencies: one is from low-GC content genomes, and the other is from high-GC content genomes.

SUBMITTER: Zhang SH 

PROVIDER: S-EPMC3532236 | biostudies-literature | 2012 Nov

REPOSITORIES: biostudies-literature