ArticleJournal of bacteriology2008
Comprehensive assessment of the regulons controlled by the FixLJ-FixK2-FixK1 cascade in Bradyrhizobium japonicum.
Article in Journal of bacteriology, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 61 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
The trial behind it
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
61 citing papers in PubMed, 119 citations in OpenAlex.
- Article
- Unveiling the Functions of Two RpoNs inInternational journal of molecular sciences · 2026Article
- Self-growth suppression inISME communications · 2025Article
- Self-growth suppression inbioRxiv : the preprint server for biology · 2024Article
- Soybean-mediated suppression of BjaI/BjaRApplied and environmental microbiology · 2024Article
- Pleiotropic Effects of PhaR Regulator inInternational journal of molecular sciences · 2024Article
- Surface Plasmon Resonance as a Tool to Elucidate the Molecular Determinants of Key Transcriptional Regulators Controlling Rhizobial Lifestyles.Methods in molecular biology (Clifton, N.J.) · 2024Article
- Independent Component Analysis Reveals the Transcriptional Regulatory Modules inInternational journal of molecular sciences · 2023Article
- Comparative phylotranscriptomics reveals ancestral and derived root nodule symbiosis programmes.Nature plants · 2023Article
- The copper-responsive regulator CsoR is indirectly involved in Bradyrhizobium diazoefficiens denitrification.FEMS microbiology letters · 2023Article
- Article
- Nitric Oxide, Nitric Oxide Formers and Their Physiological Impacts in Bacteria.International journal of molecular sciences · 2022Review
- Hopanoids Confer Robustness to Physicochemical Variability in the Niche of the Plant Symbiont Bradyrhizobium diazoefficiens.Journal of bacteriology · 2022Article
- Fine-Tuning Modulation of Oxidation-Mediated Posttranslational Control ofInternational journal of molecular sciences · 2022Article
- Effect of Copper on Expression of Functional Genes and Proteins Associated withInternational journal of molecular sciences · 2022Article
- Regulation of the Emissions of the Greenhouse Gas Nitrous Oxide by the Soybean EndosymbiontInternational journal of molecular sciences · 2022Article
- Computationally Reconstructed Interactome ofInternational journal of molecular sciences · 2021Article
- Legume-rhizobium dance: an agricultural tool that could be improved?Microbial biotechnology · 2021Review
- Reprograming of sRNA target specificity by the leader peptide peTrpL in response to antibiotic exposure.Nucleic acids research · 2021Article
- Multiple sensors provide spatiotemporal oxygen regulation of gene expression in a Rhizobium-legume symbiosis.PLoS genetics · 2021Article
1 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Symbiotic N(2) fixation in Bradyrhizobium japonicum is controlled by a complex transcription factor network. Part of it is a hierarchically arranged cascade in which the two-component regulatory system FixLJ, in response to a moderate decrease in oxygen concentration, activates the fixK(2) gene. The FixK(2) protein then activates not only a number of genes essential for microoxic respiration in symbiosis (fixNOQP and fixGHIS) but also further regulatory genes (rpoN(1), nnrR, and fixK(1)). The results of transcriptome analyses described here have led to a comprehensive and expanded definition of the FixJ, FixK(2), and FixK(1) regulons, which, respectively, consist of 26, 204, and 29 genes specifically regulated in microoxically grown cells. Most of these genes are subject to positive control. Particular attention was addressed to the FixK(2)-dependent genes, which included a bioinformatics search for putative FixK(2) binding sites on DNA (FixK(2) boxes). Using an in vitro transcription assay with RNA polymerase holoenzyme and purified FixK(2) as the activator, we validated as direct targets eight new genes. Interestingly, the adjacent but divergently oriented fixK(1) and cycS genes shared the same FixK(2) box for the activation of transcription in both directions. This recognition site may also be a direct target for the FixK(1) protein, because activation of the cycS promoter required an intact fixK(1) gene and either microoxic or anoxic, denitrifying conditions. We present evidence that cycS codes for a c-type cytochrome which is important, but not essential, for nitrate respiration. Two other, unexpected results emerged from this study: (i) specifically FixK(1) seemed to exert a negative control on genes that are normally activated by the N(2) fixation-specific transcription factor NifA, and (ii) a larger number of genes are expressed in a FixK(2)-dependent manner in endosymbiotic bacteroids than in culture-grown cells, pointing to a possible symbiosis-specific control.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
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.