Codon usage analysis of prokaryotic mechanosensation genes

Liu, Guang B. and Chen, Rong and Martinac, Boris and Zhao, Kong-Nan (2006) Codon usage analysis of prokaryotic mechanosensation genes. In: Bioinformatics Australia 2006, 21 - 22 Nov 2006, Sydney, Australia.

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Abstract

[Abstract]: In the present study, we examined GC nucleotide composition, relative synonymous codon usage (RSCU), effective number of codons (ENC), codon adaptation index (CAI) and gene length for 308 prokaryotic mechanosensitive ion channel (MSC) genes from six evolutionary groups: Euryarchaeota, Actinobacteria, Alphaproteobacteria, Betaproteobacteria, Firmicutes, and Gammaproteobacteria. Results showed that 1). a wide variation of overrepresentation of nucleotides exists in the MSC genes; 2). codon usage bias varies considerably among the MSC genes; 3). both nucleotide constraint and gene length play an important role in shaping codon usage of the bacterial MSC genes and 4). synonymous codon usage of prokaryotic MSC genes is phylogenetically conserved. Knowledge of codon usage in prokaryotic MSC genes may benefit for the study of the MSC genes in eukaryotes in which few MSC genes have been identified and functionally analysed.


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Item Type: Conference or Workshop Item (Commonwealth Reporting Category E) (Poster)
Refereed: No
Item Status: Live Archive
Additional Information: Poster presentation. Abstract only available. No evidence of copyright restrictions on web site.
Depositing User: Ms Debbie White
Faculty / Department / School: Historic - Faculty of Sciences - Department of Biological and Physical Sciences
Date Deposited: 11 Oct 2007 00:47
Last Modified: 02 Jul 2013 22:38
Uncontrolled Keywords: codon usage analysis, prokaryotic mechanosensation genes
Fields of Research (FOR2008): 10 Technology > 1002 Environmental Biotechnology > 100299 Environmental Biotechnology not elsewhere classified
10 Technology > 1004 Medical Biotechnology > 100403 Medical Molecular Engineering of Nucleic Acids and Proteins
10 Technology > 1004 Medical Biotechnology > 100499 Medical Biotechnology not elsewhere classified
URI: http://eprints.usq.edu.au/id/eprint/1552

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