Role of premature stop codons in bacterial evolution.

Journal of Bacteriology
Tit-Yee WongJong-Kang Liu

Abstract

When the stop codons TGA, TAA, and TAG are found in the second and third reading frames of a protein-encoding gene, they are considered premature stop codons (PSC). Deinococcus radiodurans disproportionately favored TGA more than the other two triplets as a PSC. The TGA triplet was also found more often in noncoding regions and as a stop codon, though the bias was less pronounced. We investigated this phenomenon in 72 bacterial species with widely differing chromosomal GC contents. Although TGA and TAG were compositionally similar, we found a great variation in use of TGA but a very limited range of use of TAG. The frequency of use of TGA in the gene sequences generally increased with the GC content of the chromosome, while the frequency of use of TAG, like that of TAA, was inversely proportional to the GC content of the chromosome. The patterns of use of TAA, TGA and TAG as real stop codons were less biased and less influenced by the GC content of the chromosome. Bacteria with higher chromosomal GC contents often contained fewer PSC trimers in their genes. Phylogenetically related bacteria often exhibited similar PSC ratios. In addition, metabolically versatile bacteria have significantly fewer PSC trimers in their genes. The ...Continue Reading

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Citations

Sep 15, 2012·Biology Direct·Inna S PovolotskayaPeter K Vlasov
Jun 2, 2012·Microbial Informatics and Experimentation·Lijing XuTit-Yee Wong
Jun 19, 2015·Journal of Environmental Science and Health. Part C, Environmental Carcinogenesis & Ecotoxicology Reviews·Tit-Yee Wong, Steve D Schwartzbach
Dec 3, 2014·Current Opinion in Microbiology·Ian Goodhead, Alistair C Darby
Jul 11, 2020·Journal of Environmental Science and Health. Part C, Toxicology and Carcinogenesis·Prabin ShresthaTit-Yee Wong
Dec 3, 2016·Journal of Environmental Science and Health. Part C, Environmental Carcinogenesis & Ecotoxicology Reviews·Tit-Yee Wong, Jimmy Kuo

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