ArticleNucleic acids research2010
A novel nucleoid protein of Escherichia coli induced under anaerobiotic growth conditions.
Article in Nucleic acids research, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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Who cites it
27 citing papers in PubMed, 55 citations in OpenAlex.
- Structural Studies on the M. tuberculosis Nucleoid-associated-Protein, NapA, Indicates DNA Bridging Mechanism.Journal of molecular biology · 2025Article
- Bacterial nucleoid is a riddle wrapped in a mystery inside an enigma.Journal of bacteriology · 2024Review
- Transcription Factor SrsR (YgfI) Is a Novel Regulator for the Stress-Response Genes in Stationary Phase inInternational journal of molecular sciences · 2022Article
- A unified resource for transcriptional regulation in Escherichia coli K-12 incorporating high-throughput-generated binding data into RegulonDB version 10.0.BMC biology · 2018Article
- The Production of Curli Amyloid Fibers Is Deeply Integrated into the Biology of Escherichia coli.Biomolecules · 2017Article
- Uncharacterized Bacterial Structures Revealed by Electron Cryotomography.Journal of bacteriology · 2017Article
- Morphology of the archaellar motor and associated cytoplasmic cone inEMBO reports · 2017Article
- Strategies for manipulation of oxygen utilization by the electron transfer chain in microbes for metabolic engineering purposes.Journal of industrial microbiology & biotechnology · 2017Review
- DNA Replication Control Is Linked to Genomic Positioning of Control Regions in Escherichia coli.PLoS genetics · 2016Article
- Transcription profile of Escherichia coli: genomic SELEX search for regulatory targets of transcription factors.Nucleic acids research · 2016Article
- Regulation of Bacterial DNA Packaging in Early Stationary Phase by Competitive DNA Binding of Dps and IHF.Scientific reports · 2015Article
- Collaborative protein filaments.The EMBO journal · 2015Review
- Intracellular concentrations of 65 species of transcription factors with known regulatory functions in Escherichia coli.Journal of bacteriology · 2014Article
- Article
- The whole set of constitutive promoters recognized by RNA polymerase RpoD holoenzyme of Escherichia coli.PloS one · 2014Article
- Identification of the set of genes, including nonannotated morA, under the direct control of ModE in Escherichia coli.Journal of bacteriology · 2013Article
- Genome-scale analysis of escherichia coli FNR reveals complex features of transcription factor binding.PLoS genetics · 2013Article
- Proteomic survey of the Streptomyces coelicolor nucleoid.Journal of proteomics · 2013Article
- The nucleoid-associated protein Dan organizes chromosomal DNA through rigid nucleoprotein filament formation in E. coli during anoxia.Nucleic acids research · 2013Article
- A novel regulator RcdA of the csgD gene encoding the master regulator of biofilm formation in Escherichia coli.MicrobiologyOpen · 2012Article
Corrections and comments
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Authors and funding
4 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
A systematic search was performed for DNA-binding sequences of YgiP, an uncharacterized transcription factor of Escherichia coli, by using the Genomic SELEX. A total of 688 YgiP-binding loci were identified after genome-wide profiling of SELEX fragments with a high-density microarray (SELEX-chip). Gel shift and DNase-I footprinting assays indicated that YgiP binds to multiple sites along DNA probes with a consensus GTTNATT sequence. Atomic force microscope observation indicated that at low concentrations, YgiP associates at various sites on DNA probes, but at high concentrations, YgiP covers the entire DNA surface supposedly through protein-protein contact. The intracellular concentration of YgiP is very low in growing E. coli cells under aerobic conditions, but increases more than 100-fold to the level as high as the major nucleoid proteins under anaerobic conditions. An E. coli mutant lacking ygiP showed retarded growth under anaerobic conditions. High abundance and large number of binding sites together indicate that YgiP is a nucleoid-associated protein with both architectural and regulatory roles as the nucleoid proteins Fis and IHF. We then propose that YgiP is a novel nucleoid protein of E. coli under anaerobiosis and propose to rename it Dan (DNA-binding protein under anaerobic conditions).
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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.