Strong Strand Composition Bias in the Genome of Ehrlichia canis Revealed by Multiple Methods.

ABSTRACT: Genes located on the two replicating strands are found to have two separate base/codon usages in Ehrlichia canis genome. Although strand-specific codon usage is not the first observation, for the first time we have applied multiple methods to the analysis of strand composition bias. By combining multiple methods, comprehensive and interesting results are obtained. Among three types of correspondence analysis (COA), absolute codon usages between genes on the two replicating strands are more distinct than relative synonymous codon usage (RSCU) and base usages are more sensitive than both types of codon usages. PR2-plots show that replication-induced bias is much higher than transcription/translation associated bias in the genome. By using the Z curve method, two common genomic characters, i.

SUBMITTER: Wei W 

PROVIDER: S-EPMC3023944 | biostudies-literature | 2010 Oct

REPOSITORIES: biostudies-literature