ArticleProceedings of the National Academy of Sciences of the United States of America2005
DksA potentiates direct activation of amino acid promoters by ppGpp.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 195 papers.
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Who cites it
195 citing papers in PubMed, 336 citations in OpenAlex.
- DksA inhibitors against intracellular and persistentScience advances · 2026Article
- Symbionts with eroded genomes adjust gene expression according to host life-stage and environment.EMBO reports · 2025Article
- Virulence Regulation inMicroorganisms · 2025Review
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- Incoherent feedback from coupled amino acids and ribosome pools generates damped oscillations in growing E. coli.Nature communications · 2025Article
- Signaling inComputational and structural biotechnology journal · 2025Review
- Generation of Barcode-Tagged Vibrio fischeri Deletion Strains and Barcode Sequencing (BarSeq) for Multiplex Strain Competitions.Current protocols · 2024Article
- Regulation of the transcription factor CdnL promotes adaptation to nutrient stress inPNAS nexus · 2024Article
- "Metabolic burden" explained: stress symptoms and its related responses induced by (over)expression of (heterologous) proteins in Escherichia coli.Microbial cell factories · 2024Review
- (p)ppGpp modifies RNAP function to confer β-lactam resistance in a peptidoglycan-independent manner.Nature microbiology · 2024Article
- (p)ppGpp is required for virulence ofInfection and immunity · 2024Article
- The stringent response regulates the poly-β-hydroxybutyrate (PHB) synthesis in Azotobacter vinelandii.PloS one · 2024Article
- Emergence of metabolic coupling to the heterotrophISME communications · 2024Article
- Article
- DksA, ppGpp, and RegAB Regulate Nitrate Respiration in Paracoccus denitrificans.Journal of bacteriology · 2023Article
- Transcriptomic Analysis Reveals Key Roles of (p)ppGpp and DksA in Regulating Metabolism and Chemotaxis inInternational journal of molecular sciences · 2023Article
- Rescue ofeLife · 2023Article
- Review
- GTPase Era at the heart of ribosome assembly.Frontiers in molecular biosciences · 2023Review
- Similar and Divergent Roles of Stringent Regulator (p)ppGpp and DksA on Pleiotropic Phenotype of Yersinia enterocolitica.Microbiology spectrum · 2022Article
135 more citing papers are in PubMed but not listed here.
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3 authors at 1 institution in 1 country.
Funding
Abstract
Amino acid starvation in Escherichia coli results in a spectrum of changes in gene expression, including inhibition of rRNA and tRNA promoters and activation of certain promoters for amino acid biosynthesis and transport. The unusual nucleotide ppGpp plays an important role in both negative and positive regulation. Previously, we and others suggested that positive effects of ppGpp might be indirect, resulting from the inhibition of rRNA transcription and, thus, liberation of RNA polymerase for binding to other promoters. Recently, we showed that DksA binds to RNA polymerase and greatly enhances direct effects of ppGpp on the negative control of rRNA promoters. This conclusion prompted us to reevaluate whether ppGpp might also have a direct role in positive control. We show here that ppGpp greatly increases the rate of transcription initiation from amino acid promoters in a purified system but only when DksA is present. Activation occurs by stimulation of the rate of an isomerization step on the pathway to open complex formation. Consistent with the model that ppGpp/DksA stimulates amino acid promoters both directly and indirectly in vivo, cells lacking dksA fail to activate transcription from the hisG promoter after amino acid starvation. Our results illustrate how transcription factors can positively regulate transcription initiation without binding DNA, demonstrate that dksA directly affects promoters in addition to those for rRNA, and suggest that some of the pleiotropic effects previously associated with dksA might be ascribable to direct effects of dksA on promoters involved in a wide variety of cellular functions.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.