A quantitative comparison of sRNA-based and protein-based gene regulation. Author Pankaj Mehta, Sidhartha Goyal, Ned Wingreen Publication Year 2008 Type Journal Article Abstract Small non-coding RNAs (sRNAs) have important functions as genetic regulators in prokaryotes. sRNAs act post-transcriptionally through complementary pairing with target mRNAs to regulate protein expression. We use a quantitative approach to compare and contrast sRNAs with conventional transcription factors (TFs) to better understand the advantages of each form of regulation. In particular, we calculate the steady-state behavior, noise properties, frequency-dependent gain (amplification), and dynamical response to large input signals of both forms of regulation. Although the mean steady-state behavior of sRNA-regulated proteins exhibits a distinctive tunable threshold linear behavior, our analysis shows that transcriptional bursting leads to significantly higher intrinsic noise in sRNA-based regulation than in TF-based regulation in a large range of expression levels and limits the ability of sRNAs to perform quantitative signaling. Nonetheless, we find that sRNAs are better than TFs at filtering noise in input signals. Additionally, we find that sRNAs allow cells to respond rapidly to large changes in input signals. These features suggest a 'niche' for sRNAs in allowing cells to transition quickly yet reliably between distinct states. This functional niche is consistent with the widespread appearance of sRNAs in stress response and quasi-developmental networks in prokaryotes. Keywords Gene Expression Regulation, Systems Biology, Proteins, Transcription Factors, RNA, Messenger, RNA, Small Interfering, Stress, Physiological, Prokaryotic Cells Journal Mol Syst Biol Volume 4 Pages 221 Alternate Journal Mol. Syst. Biol. Google ScholarBibTeXEndNote X3 XML