ArticleJournal of molecular biology2008
Genetic dissection of the consensus sequence for the class 2 and class 3 flagellar promoters.
Article in Journal of molecular biology, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
16 citing papers in PubMed, 20 citations in OpenAlex.
- The master regulator of IncA/C plasmids is recognized by the Salmonella Genomic island SGI1 as a signal for excision and conjugal transfer.Nucleic acids research · 2015Article
- Transfer activation of SXT/R391 integrative and conjugative elements: unraveling the SetCD regulon.Nucleic acids research · 2015Article
- FlgM as a secretion moiety for the development of an inducible type III secretion system.PloS one · 2013Article
- A global transcriptional switch between the attack and growth forms of Bdellovibrio bacteriovorus.PloS one · 2013Article
- The transcript from the σ(28)-dependent promoter is translationally inert in the expression of the σ(28)-encoding gene fliA in the fliAZ operon of Salmonella enterica serovar Typhimurium.Journal of bacteriology · 2011Article
- Article
- Refining the binding of the Escherichia coli flagellar master regulator, FlhD4C2, on a base-specific level.Journal of bacteriology · 2011Article
- The non-motile phenotype of Salmonella hha ydgT mutants is mediated through PefI-SrgD.BMC microbiology · 2011Article
- EAL domain protein YdiV acts as an anti-FlhD4C2 factor responsible for nutritional control of the flagellar regulon in Salmonella enterica Serovar Typhimurium.Journal of bacteriology · 2011Article
- Technologies and approaches to elucidate and model the virulence program of salmonella.Frontiers in microbiology · 2011Article
- DNA-binding properties of the Bacillus subtilis and Aeribacillus pallidus AC6 σ(D) proteins.Journal of bacteriology · 2011Article
- Multiple promoters contribute to swarming and the coordination of transcription with flagellar assembly in Salmonella.Journal of bacteriology · 2010Article
- Activation of sigma 28-dependent transcription in Escherichia coli by the cyclic AMP receptor protein requires an unusual promoter organization.Molecular microbiology · 2010Article
- Predicting strength and function for promoters of the Escherichia coli alternative sigma factor, sigmaE.Proceedings of the National Academy of Sciences of the United States of America · 2010Article
- Mutational analysis of Escherichia coli sigma28 and its target promoters reveals recognition of a composite -10 region, comprised of an 'extended -10' motif and a core -10 element.Molecular microbiology · 2009Article
- T-POP array identifies EcnR and PefI-SrgD as novel regulators of flagellar gene expression.Journal of bacteriology · 2009Article
Corrections and comments
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Authors and funding
2 authors at 2 institutions in 1 country.
Funding
Abstract
Computational searches for DNA binding sites often utilize consensus sequences. These search models make assumptions that the frequency of a base pair in an alignment relates to the base pair's importance in binding and presume that base pairs contribute independently to the overall interaction with the DNA-binding protein. These two assumptions have generally been found to be accurate for DNA binding sites. However, these assumptions are often not satisfied for promoters, which are involved in additional steps in transcription initiation after RNA polymerase has bound to the DNA. To test these assumptions for the flagellar regulatory hierarchy, class 2 and class 3 flagellar promoters were randomly mutagenized in Salmonella. Important positions were then saturated for mutagenesis and compared to scores calculated from the consensus sequence. Double mutants were constructed to determine how mutations combined for each promoter type. Mutations in the binding site for FlhD4C2, the activator of class 2 promoters, better satisfied the assumptions for the binding model than did mutations in the class 3 promoter, which is recognized by the sigma(28) transcription factor. These in vivo results indicate that the activator sites within flagellar promoters can be modeled using simple assumptions, but that the DNA sequences recognized by the flagellar sigma factor require more complex models.
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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.