ArticleNucleic acids research2005
Comparative genomics analysis of NtcA regulons in cyanobacteria: regulation of nitrogen assimilation and its coupling to photosynthesis.
Article in Nucleic acids research, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 54 papers.
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Who cites it
54 citing papers in PubMed, 119 citations in OpenAlex.
- Mutual interference of phosphorus starvation and diazotrophy in the cyanobacteria Nostoc sp. PCC 7120.Protoplasma · 2026Article
- Structures of the cyanobacterial nitrogen regulators NtcA and PipX complexed to DNA shed light on DNA binding by NtcA and implicate PipX in the recruitment of RNA polymerase.Nucleic acids research · 2025Article
- Transcriptomic Analysis Reveals the Effect of Urea on Metabolism ofLife (Basel, Switzerland) · 2024Article
- Potential virus-mediated nitrogen cycling in oxygen-depleted oceanic waters.The ISME journal · 2021Article
- Rapid Transcriptional Reprogramming Triggered by Alteration of the Carbon/Nitrogen Balance Has an Impact on Energy Metabolism inLife (Basel, Switzerland) · 2020Article
- Regulatory Diversity and Functional Analysis of Two-Component Systems in CyanobacteriumFrontiers in microbiology · 2020Article
- Logicome Profiler: Exhaustive detection of statistically significant logic relationships from comparative omics data.PloS one · 2020Article
- Phytoplankton transcriptomic and physiological responses to fixed nitrogen in the California current system.PloS one · 2020Article
- Article
- Identification of the direct regulon of NtcA during early acclimation to nitrogen starvation in the cyanobacterium Synechocystis sp. PCC 6803.Nucleic acids research · 2017Article
- Nitrogen cost minimization is promoted by structural changes in the transcriptome of N-deprived Prochlorococcus cells.The ISME journal · 2017Article
- Impairment of ntcA gene revealed its role in regulating iron homeostasis, ROS production and cellular phenotype under iron deficiency in cyanobacterium Anabaena sp. PCC 7120.World journal of microbiology & biotechnology · 2017Article
- Effects of global transcription factor NtcA on photosynthetic production of ethylene in recombinantBiotechnology for biofuels · 2017Article
- Comprehensive investigation of tobacco leaves during natural early senescence via multi-platform metabolomics analyses.Scientific reports · 2016Article
- Regulation of Three Nitrogenase Gene Clusters in the Cyanobacterium Anabaena variabilis ATCC 29413.Life (Basel, Switzerland) · 2014Review
- The regulation of HanA during heterocyst development in cyanobacterium Anabaena sp. PCC 7120.World journal of microbiology & biotechnology · 2014Article
- Review
- Article
- PipX, the coactivator of NtcA, is a global regulator in cyanobacteria.Proceedings of the National Academy of Sciences of the United States of America · 2014Article
- ChIP analysis unravels an exceptionally wide distribution of DNA binding sites for the NtcA transcription factor in a heterocyst-forming cyanobacterium.BMC genomics · 2014Article
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We have developed a new method for prediction of cis-regulatory binding sites and applied it to predicting NtcA regulated genes in cyanobacteria. The algorithm rigorously utilizes concurrence information of multiple binding sites in the upstream region of a gene and that in the upstream regions of its orthologues in related genomes. A probabilistic model was developed for the evaluation of prediction reliability so that the prediction false positive rate could be well controlled. Using this method, we have predicted multiple new members of the NtcA regulons in nine sequenced cyanobacterial genomes, and showed that the false positive rates of the predictions have been reduced on an average of 40-fold compared to the conventional methods. A detailed analysis of the predictions in each genome showed that a significant portion of our predictions are consistent with previously published results about individual genes. Intriguingly, NtcA promoters are found for many genes involved in various stages of photosynthesis. Although photosynthesis is known to be tightly coordinated with nitrogen assimilation, very little is known about the underlying mechanism. We postulate for the fist time that these genes serve as the regulatory points to orchestrate these two important processes in a cyanobacterial cell.
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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.