A Genome-Wide Analysis of Promoter-Mediated Phenotypic Noise in Escherichia coli

作者: Olin K. Silander , Nela Nikolic , Alon Zaslaver , Anat Bren , Uri Kikoin

DOI: 10.1371/JOURNAL.PGEN.1002443

关键词: Conserved sequenceGenomePromoterGeneticsGene predictionGeneGenome evolutionPhenotypeBiologyGene expressionGenetics(clinical)Cancer researchEcology, Evolution, Behavior and SystematicsMolecular biology

摘要: Gene expression is subject to random perturbations that lead fluctuations in the rate of protein production. As a consequence, for any given protein, genetically identical organisms living constant environment will contain different amounts particular resulting phenotypes. This phenomenon known as “phenotypic noise.” In bacterial systems, previous studies have shown that, specific genes, both transcriptional and translational processes affect phenotypic noise. Here, we focus on how promoter regions genes noise ask whether levels promoter-mediated are correlated with genes' functional attributes, using data over 60% all promoters Escherichia coli. We find essential high degree evolutionary conservation confer low also level cannot be attributed time spent genome E. contrast results eukaryotes, no association between gene plasticity. These consistent hypothesis bacteria, natural selection can act reduce some this controlled through sequence region alone.

参考文章(66)
U. Alon, M. G. Surette, N. Barkai, S. Leibler, Robustness in bacterial chemotaxis Nature. ,vol. 397, pp. 168- 171 ,(1999) , 10.1038/16483
Scott A. Rifkin, Junhyong Kim, Kevin P. White, Evolution of gene expression in the Drosophila melanogaster subgroup Nature Genetics. ,vol. 33, pp. 138- 144 ,(2003) , 10.1038/NG1086
Nizar N Batada, Laurence D Hurst, Evolution of chromosome organization driven by selection for reduced gene expression noise Nature Genetics. ,vol. 39, pp. 945- 949 ,(2007) , 10.1038/NG2071
H. H. McAdams, A. Arkin, Stochastic mechanisms in gene expression Proceedings of the National Academy of Sciences of the United States of America. ,vol. 94, pp. 814- 819 ,(1997) , 10.1073/PNAS.94.3.814
E. Levine, T. Hwa, Stochastic fluctuations in metabolic pathways. Proceedings of the National Academy of Sciences of the United States of America. ,vol. 104, pp. 9224- 9229 ,(2007) , 10.1073/PNAS.0610987104
Christopher V. Rao, Denise M. Wolf, Adam P. Arkin, Control, exploitation and tolerance of intracellular noise Nature. ,vol. 420, pp. 231- 237 ,(2002) , 10.1038/NATURE01258
John R. S. Newman, Sina Ghaemmaghami, Jan Ihmels, David K. Breslow, Matthew Noble, Joseph L. DeRisi, Jonathan S. Weissman, Single-cell proteomic analysis of S. cerevisiae reveals the architecture of biological noise Nature. ,vol. 441, pp. 840- 846 ,(2006) , 10.1038/NATURE04785