Noise Propagation in Gene Regulation Networks Involving Interlinked Positive and Negative Feedback Loops

It is well known that noise is inevitable in gene regulatory networks due to the low-copy numbers of molecules and local environmental fluctuations. The prediction of noise effects is a key issue in ensuring reliable transmission of information. Interlinked positive and negative feedback loops are essential signal transduction motifs in biological networks. Positive feedback loops are generally believed to induce a switch-like behavior, whereas negative feedback loops are thought to suppress noise effects. Here, by using the signal sensitivity (susceptibility) and noise amplification to quantify noise propagation, we analyze an abstract model of the Myc/E2F/MiR-17-92 network that is composed of a coupling between the E2F/Myc positive feedback loop and the E2F/Myc/miR-17-92 negative feedback loop. The role of the feedback loop on noise effects is found to depend on the dynamic properties of the system. When the system is in monostability or bistability with high protein concentrations, noise is consistently suppressed. However, the negative feedback loop reduces this suppression ability (or improves the noise propagation) and enhances signal sensitivity. In the case of excitability, bistability, or monostability, noise is enhanced at low protein concentrations. The negative feedback loop reduces this noise enhancement as well as the signal sensitivity. In all cases, the positive feedback loop acts contrary to the negative feedback loop. We also found that increasing the time scale of the protein module or decreasing the noise autocorrelation time can enhance noise suppression; however, the systems sensitivity remains unchanged. Taken together, our results suggest that the negative/positive feedback mechanisms in coupled feedback loop dynamically buffer noise effects rather than only suppressing or amplifying the noise.     

IGF-1-Induced Enhancement of PRNP Expression Depends on the Negative Regulation of Transcription Factor FOXO3a

The conformational conversion of the cellular prion protein (PrP^C) into its β-sheet-rich scrapie isoform (PrP^Sc) causes fatal prion diseases, which are also called transmissible spongiform encephalopathies (TSEs). Recent studies suggest that the expression of PrP^C by the PRNP gene is crucial for the development of TSEs. Therefore, the identification of the exogenous and endogenous stimulating factors that regulate PRNP expression would help to understand the pathogenesis of TSEs. Here, we demonstrate that forkhead box O3a (FOXO3a) negatively regulates PRNP expression by binding to the PRNP promoter, which is negatively regulated by insulin-like growth factor 1 (IGF-1). Our results show that the IGF-1-induced enhancement of PRNP mRNA and protein levels is due to the activation of the PI3K-Akt signaling pathway. The activation of Akt then induces the phosphorylation of FOXO3a, leading to its translocation from the nucleus to the cytoplasm and preventing its binding to the PRNP promoter. Treatment with the PI3K-Akt inhibitor {"type":"entrez-nucleotide","attrs":{"text":"LY294002","term_id":"1257998346","term_text":"LY294002"}}LY294002 induces the nuclear retention of FOXO3a, which leads to a decrease in PRNP expression. We present a new IGF-1-PI3K-Akt-FOXO3a pathway, which influences PRNP expression. The results of this work are vital for understanding the function of PrP^C and for future therapeutic approaches to human TSEs.     

A Role for Transcription Factor STAT3 Signaling in Oncogene Smoothened-driven Carcinogenesis

Activation of the Hedgehog (Hh) pathway is known to drive development of basal cell carcinoma and medulloblastomas and to associate with many other types of cancer, but the exact molecular mechanisms underlying the carcinogenesis process remain elusive. We discovered that skin tumors derived from epidermal expression of oncogenic Smo, SmoM2, have elevated levels of IL-11, IL-11Rα, and STAT3 phosphorylation at Tyr⁷⁰⁵. The relevance of our data to human conditions was reflected by the fact that all human basal cell carcinomas examined have detectable STAT3 phosphorylation, mostly in keratinocytes. The functional relevance of STAT3 in Smo-mediated carcinogenesis was revealed by epidermal specific knockout of STAT3. We showed that removal of STAT3 from mouse epidermis dramatically reduced SmoM2-mediated cell proliferation, leading to a significant decrease in epidermal thickness and tumor development. We also observed a significant reduction of epidermal stem/progenitor cell population and cyclin D1 expression in mice with epidermis-specific knockout of STAT3. Our evidence indicates that STAT3 signaling activation may be mediated by the IL-11/IL-11Rα signaling axis. We showed that tumor development was reduced after induced expression of SmoM2 in IL-11Rα null mice. Similarly, neutralizing antibodies for IL-11 reduced the tumor size. In two Hh-responsive cell lines, ES14 and C3H10T1/2, we found that addition of Smo agonist purmorphamine is sufficient to induce STAT3 phosphorylation at Tyr⁷⁰⁵, but this effect was abolished after IL-11Rα down-regulation by shRNAs. Taken together, our results support an important role of the IL-11Rα/STAT3 signaling axis for Hh signaling-mediated signaling and carcinogenesis.     

组蛋白乙酰化/去乙酰化在真核基因转录调控中的作用

真核生物中 ,染色质的基本单位是核小体。核小体由H2 A ,H2 B ,H3 ,H4构成的核心组蛋白八聚体及缠绕于其上的DNA构成。最近的研究结果表明 ,核心组蛋白的乙酰化 去乙酰化过程是调控基因活性的一个关键步骤[1] 。而含有组蛋白去乙酰化酶活性的分子有两类 :一类是与酵母RPD3同源的分子 ,另一类是与RPD3不同源的分子。它们各有其不同的来源 ,存在于各自的复合物中 ,催化不完全相同的组蛋白或其他蛋白质去乙酰化 ;这些去乙酰化酶与基因转录的调控存在着密切的关系 ,主要是介导基因转录的抑制。     

人成纤维细胞转录因子Sp1Sp3对p16~(INK4a)基因的调控

p16 INK4a是一种细胞周期蛋白依赖激酶 (cdk)的抑制因子 ,它通过抑制cdk4与cdk6的活性 ,使视网膜母细胞瘤抑制蛋白Rb处于低磷酸化状态 ,从而使细胞阻滞于G1期 .对p16 INK4aATG上游 6 2 2bp片段进行序列分析发现 ,该区域富含GC ,其中有 5个GC盒 (分别命名为GC Ⅰ～GC Ⅴ ) .将上述片段插入到荧光素酶报告载体pGL3 Basic ,分别对 5个GC盒进行点突变后转染人胚肺二倍体成纤维细胞 (2BS)发现 ,Ⅰ、Ⅱ、Ⅳ位点的突变体显著下调p16 INK4a启动子的活性 ,而Ⅲ、Ⅴ位点突变体无明显作用 .电泳迁移率变动分析 (EMSA)证实 ,GC Ⅰ ,Ⅱ ,Ⅳ能与转录因子Sp1和Sp3结合 ,而且结合条带可被转录因子Sp1和Sp3的抗体所拮抗 .共转染Sp1有助于增加启动子的活性 ,而共转染Sp3则有较弱的抑制作用 ,证明p16 INK4a的转录受到Sp1与Sp3的调控 .     

Negative Dominant Mutations of the uidR Gene in ESCHERICHIA COLI: Genetic Proof for a Cooperative Regulation of uidA Expression

The uidA gene is the first gene involved in the hexuronide-hexuronate pathway in Escherichia coli K-12 and is under the dual control of the uidR and uxuR encoded repressors. Point mutations affecting the uidR regulatory gene were sought to investigate the regulation of uidA. When the uidR mutant allele was on a multicopy plasmid and the wild-type allele was on the chromosome, some of the mutant phenotypes were dominant to the wild-type phenotype, indicating that the active form of the UidR repressor is multimeric. We have demonstrated that expression of the mutant phenotype is dependent on gene dosage. The dominance of the uidR allele was also sensitive to the presence of the wild-type uxuR allele in the cell. This behavior probably results from UidR-UxuR repressor interactions. A mechanism is proposed: we suggest that the UidR and UxuR repressors interact after their binding to the operator site of uidA; the binding of one regulatory molecule may facilitate the binding of the other one in a cooperative process.