Codon usage analysis of Acidithiobacillus ferrooxidans Extreme GC-preference on third base
The patterns of codon uasge and amino acid composition Acidithiobacillus ferrooxidans (A. ferrooxidans) ATCC23270, which is an acidiophilic chemolithotrophic Gram-negative eubacteria and the first genome regarding with AMD community and bioleaching application sequenced, are conducted by use of its complete genome sequence downloaded from NCBI. At first, the overall codon usage is provided which shows the strong biased towards GC in the third codon position even its moderately high genome GC content (0. 587 7). Further, the correspondence analysis of codon usage shows that axis 1 is also significantly correlated with GC38 and GC ( r = 0. 876 9 and 0. 725 5, respectively, p < 0. 000 1) , which indicated that nucleotide compositional mutation bias is the major factor in shaping its genome during the evaluation. Among the presumed highly expressed sequences, 22 optimal codons and 4 rare codons were determined based on multivariable statistical analysis. All identified optimal codons are exclusively GC ending codons while four rare codons use A as the third base. The result also shows that the codon usage of A. ferrooxidans is significantly different from E. coil although both microbes have similar amino acid usage. As for the termination codons, codon UGA is used as the most preferable termination codon compared with UAA is used most for E. coli.
codon usage Acidithiobacillus ferrooxidans optimal codons bioleaching GC content
Hong Peng Anh Nguyen Xueduan Liu Yu Yang Yuehua Hu
School of Chemical Engineering, The University of Queensland, 4072, Brisbane,.Australia School of Minerals Processing and Bioengineering, Central South University, 410083, Changsha, China
国际会议
The 19th International Biohydrometallurgy Symposium(第19届国际生物湿法冶金大会 IBS2011)
长沙
英文
327-335
2011-09-18（万方平台首次上网日期，不代表论文的发表时间）