Codon Usage Patterns in Corynebacterium glutamicum: Mutational Bias, Natural Selection and Amino Acid Conservation
Joint Authors
Bao, Qiyu
Wu, Jinyu
Yang, Huanming
Liu, Guiming
Source
International Journal of Genomics
Issue
Vol. 2010, Issue 2010 (31 Dec. 2010), pp.1-7, 7 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2010-03-23
Country of Publication
Egypt
No. of Pages
7
Main Subjects
Abstract EN
The alternative synonymous codons in Corynebacterium glutamicum, a well-known bacterium used in industry for the production of amino acid, have been investigated by multivariate analysis.
As C.
glutamicum is a GC-rich organism, G and C are expected to predominate at the third position of codons.
Indeed, overall codon usage analyses have indicated that C and/or G ending codons are predominant in this organism.
Through multivariate statistical analysis, apart from mutational selection, we identified three other trends of codon usage variation among the genes.
Firstly, the majority of highly expressed genes are scattered towards the positive end of the first axis, whereas the majority of lowly expressed genes are clustered towards the other end of the first axis.
Furthermore, the distinct difference in the two sets of genes was that the C ending codons are predominate in putatively highly expressed genes, suggesting that the C ending codons are translationally optimal in this organism.
Secondly, the majority of the putatively highly expressed genes have a tendency to locate on the leading strand, which indicates that replicational and transciptional selection might be invoked.
Thirdly, highly expressed genes are more conserved than lowly expressed genes by synonymous and nonsynonymous substitutions among orthologous genes fromthe genomes of C.
glutamicum and C.
diphtheriae.
We also analyzed other factors such as the length of genes and hydrophobicity that might influence codon usage and found their contributions to be weak.
American Psychological Association (APA)
Liu, Guiming& Wu, Jinyu& Yang, Huanming& Bao, Qiyu. 2010. Codon Usage Patterns in Corynebacterium glutamicum: Mutational Bias, Natural Selection and Amino Acid Conservation. International Journal of Genomics،Vol. 2010, no. 2010, pp.1-7.
https://search.emarefa.net/detail/BIM-1027159
Modern Language Association (MLA)
Liu, Guiming…[et al.]. Codon Usage Patterns in Corynebacterium glutamicum: Mutational Bias, Natural Selection and Amino Acid Conservation. International Journal of Genomics No. 2010 (2010), pp.1-7.
https://search.emarefa.net/detail/BIM-1027159
American Medical Association (AMA)
Liu, Guiming& Wu, Jinyu& Yang, Huanming& Bao, Qiyu. Codon Usage Patterns in Corynebacterium glutamicum: Mutational Bias, Natural Selection and Amino Acid Conservation. International Journal of Genomics. 2010. Vol. 2010, no. 2010, pp.1-7.
https://search.emarefa.net/detail/BIM-1027159
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-1027159