title: Whole genome analysis of non-optimal codon usage in secretory signal sequences of Streptomyces coelicolor.
abstract: Non-optimal (rare) codons have been suggested to reduce translation rate and facilitate secretion in Escherichia coli. In this study, the complete genome analysis of non-optimal codon usage in secretory signal sequences and non-secretory sequences of Streptomyces coelicolor was performed. The result showed that there was a higher proportion of non-optimal codons in secretory signal sequences than in non-secretory sequences. The increased tendency was more obvious when tested with the experimental data of secretory proteins from proteomics analysis. Some non-optimal codons for Arg (AGA, CGU and CGA), Ile (AUA) and Lys (AAA) were significantly over presented in the secretary signal sequences. It may reveal that a balanced non-optimal codon usage was necessary for protein secretion and expression in Streptomyces.
authors.affiliation: Zhejiang University, College of Life, Hangzhou, PR China.
authors.forename: Yu-Dong
authors.initials: YD
authors.lastname: Li
authors.forename: Yong-Quan
authors.initials: YQ
authors.lastname: Li
authors.forename: Jian-shu
authors.initials: JS
authors.lastname: Chen
authors.forename: Hui-jun
authors.initials: HJ
authors.lastname: Dong
authors.forename: Wen-Jun
authors.initials: WJ
authors.lastname: Guan
authors.forename: Hong
authors.initials: H
authors.lastname: Zhou
mesh_terms: D001483:Base Sequence; D003062:Codon / Q000235:genetics*; D019295:Computational Biology; D016680:Genome, Bacterial / Q000235:genetics*; D021382:Protein Sorting Signals / Q000235:genetics*; D048372:Streptomyces coelicolor / Q000235:genetics* / Q000378:metabolism*
chemical_list: D003062:Codon; D021382:Protein Sorting Signals