Cargando…

Genome-scale Analysis of Escherichia coli FNR Reveals Complex Features of Transcription Factor Binding

FNR is a well-studied global regulator of anaerobiosis, which is widely conserved across bacteria. Despite the importance of FNR and anaerobiosis in microbial lifestyles, the factors that influence its function on a genome-wide scale are poorly understood. Here, we report a functional genomic analys...

Descripción completa

Detalles Bibliográficos
Autores principales:	Myers, Kevin S., Yan, Huihuang, Ong, Irene M., Chung, Dongjun, Liang, Kun, Tran, Frances, Keleş, Sündüz, Landick, Robert, Kiley, Patricia J.
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Public Library of Science 2013
Materias:	Research Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3688515/ https://www.ncbi.nlm.nih.gov/pubmed/23818864 http://dx.doi.org/10.1371/journal.pgen.1003565

Ejemplares similares

dPeak: High Resolution Identification of Transcription Factor Binding Sites from PET and SET ChIP-Seq Data
por: Chung, Dongjun, et al.
Publicado: (2013)

Transcription factor distribution in Escherichia coli: studies with FNR protein
por: Grainger, David C., et al.
Publicado: (2007)

Data exploration, quality control and statistical analysis of ChIP-exo/nexus experiments
por: Welch, Rene, et al.
Publicado: (2017)

The small FNR regulon of Neisseria gonorrhoeae: comparison with the larger Escherichia coli FNR regulon and interaction with the NarQ-NarP regulon
por: Whitehead, Rebekah N, et al.
Publicado: (2007)

Post-Transcriptional Regulation of RseA by Small RNAs RyhB and FnrS in Escherichia coli
por: London, Laricca Y., et al.
Publicado: (2021)

FNR Regulates the Expression of Important Virulence Factors Contributing to the Pathogenicity of Avian Pathogenic Escherichia coli
por: Barbieri, Nicolle L., et al.
Publicado: (2017)

The global anaerobic metabolism regulator fnr is necessary for the degradation of food dyes and drugs by Escherichia coli
por: Pieper, Lindsey M., et al.
Publicado: (2023)

Resistance to topoisomerase cleavage complex induced lethality in Escherichia coli via titration of transcription regulators PurR and FNR
por: Liu, I-Fen, et al.
Publicado: (2011)

Impact of Anaerobiosis on Expression of the Iron-Responsive Fur and RyhB Regulons
por: Beauchene, Nicole A., et al.
Publicado: (2015)

A variant of the Escherichia coli anaerobic transcription factor FNR exhibiting diminished promoter activation function enhances ionizing radiation resistance
por: Bruckbauer, Steven T., et al.
Publicado: (2019)

Discovering Transcription Factor Binding Sites in Highly Repetitive Regions of Genomes with Multi-Read Analysis of ChIP-Seq Data
por: Chung, Dongjun, et al.
Publicado: (2011)

Identification and Unusual Properties of the Master Regulator FNR in the Extreme Acidophile Acidithiobacillus ferrooxidans
por: Osorio, Héctor, et al.
Publicado: (2019)

Oxygen and nitrate-dependent regulation of dmsABC operon expression in Escherichia coli: sites for Fnr and NarL protein interactions
por: Bearson, Shawn MD, et al.
Publicado: (2002)

Analysis of the FnrL regulon in Rhodobacter capsulatus reveals limited regulon overlap with orthologues from Rhodobacter sphaeroides and Escherichia coli
por: Kumka, Joseph E., et al.
Publicado: (2015)

SURF: integrative analysis of a compendium of RNA-seq and CLIP-seq datasets highlights complex governing of alternative transcriptional regulation by RNA-binding proteins
por: Chen, Fan, et al.
Publicado: (2020)

Phycobilisomes Harbor FNR(L) in Cyanobacteria
por: Liu, Haijun, et al.
Publicado: (2019)

Debiased personalized gene coexpression networks for population-scale scRNA-seq data
por: Lu, Shan, et al.
Publicado: (2023)

Dozer: Debiased personalized gene co-expression networks for population-scale scRNA-seq data
por: Lu, Shan, et al.
Publicado: (2023)

Transcriptional regulation of main metabolic pathways of cyoA, cydB, fnr, and fur gene knockout Escherichia coli in C-limited and N-limited aerobic continuous cultures
por: Kumar, Rahul, et al.
Publicado: (2011)

Normalization of ChIP-seq data with control
por: Liang, Kun, et al.
Publicado: (2012)

Cooperative Actions of CRP-cAMP and FNR Increase the Fosfomycin Susceptibility of Enterohaemorrhagic Escherichia coli (EHEC) by Elevating the Expression of glpT and uhpT under Anaerobic Conditions
por: Kurabayashi, Kumiko, et al.
Publicado: (2017)

Exploring the Meta-regulon of the CRP/FNR Family of Global Transcriptional Regulators in a Partial-Nitritation Anammox Microbiome
por: Beach, Natalie K., et al.
Publicado: (2021)

RNA-seq analysis of the influence of anaerobiosis and FNR on Shigella flexneri
por: Vergara-Irigaray, Marta, et al.
Publicado: (2014)

PRAM: a novel pooling approach for discovering intergenic transcripts from large-scale RNA sequencing experiments
por: Liu, Peng, et al.
Publicado: (2020)

CSI-Tree: a regression tree approach for modeling binding properties of DNA-binding molecules based on cognate site identification (CSI) data
por: Keleş, Sündüz, et al.
Publicado: (2008)

RfaH Counter-Silences Inhibition of Transcript Elongation by H-NS–StpA Nucleoprotein Filaments in Pathogenic Escherichia coli
por: Hustmyer, Christine M., et al.
Publicado: (2022)

Molecular basis of halorespiration control by CprK, a CRP-FNR type transcriptional regulator
por: Levy, Colin, et al.
Publicado: (2008)

RedB, a Member of the CRP/FNR Family, Functions as a Transcriptional Redox Brake
por: Ke, Nijia, et al.
Publicado: (2022)

The physiological importance of photosynthetic ferredoxin NADP(+) oxidoreductase (FNR) isoforms in wheat
por: Moolna, Adam, et al.
Publicado: (2010)

TROL-FNR interaction reveals alternative pathways of electron partitioning in photosynthesis
por: Vojta, Lea, et al.
Publicado: (2015)

Tweaking Photosynthesis: FNR-TROL Interaction as Potential Target for Crop Fortification
por: Fulgosi, Hrvoje, et al.
Publicado: (2020)

Correction for Beach et al., “Exploring the Meta-regulon of the CRP/FNR Family of Global Transcriptional Regulators in a Partial-Nitritation Anammox Microbiome”
por: Beach, Natalie K., et al.
Publicado: (2022)

Hierarchical interactions between Fnr orthologs allows fine-tuning of transcription in response to oxygen in Herbaspirillum seropedicae
por: Batista, Marcelo Bueno, et al.
Publicado: (2018)

Heterologous expression of the gene for chlorite dismutase from Ideonella dechloratans is induced by an FNR‐type transcription factor
por: Rova, Maria, et al.
Publicado: (2020)

Three Pseudomonas putida FNR Family Proteins with Different Sensitivities to O(2)
por: Ibrahim, Susan A., et al.
Publicado: (2015)

Data supporting the absence of FNR dynamic photosynthetic membrane recruitment in trol mutants
por: Vojta, Lea, et al.
Publicado: (2016)

Effect of Artemisinin on the Redox System of NADPH/FNR/Ferredoxin from Malaria Parasites
por: Kimata-Ariga, Yoko, et al.
Publicado: (2022)

Genome-Scale Transcription-Translation Mapping Reveals Features of Zymomonas mobilis Transcription Units and Promoters
por: Vera, Jessica M., et al.
Publicado: (2020)

Sparse partial least squares regression for simultaneous dimension reduction and variable selection
por: Chun, Hyonho, et al.
Publicado: (2010)

FreeHi-C simulates high fidelity Hi-C data for benchmarking and data augmentation
por: Zheng, Ye, et al.
Publicado: (2019)

Cannot write session to /tmp/vufind_sessions/sess_taqb7tgbujh8p72om0mm5qete2