Composition of transcription machinery and its crosstalk with nucleoid-associated proteins and global transcription factors

G Muskhelishvili, P Sobetzko, S Mehandziska… - Biomolecules, 2021 - mdpi.com
The coordination of bacterial genomic transcription involves an intricate network of
interdependent genes encoding nucleoid-associated proteins (NAPs), DNA …

The nucleoid-associated protein IHF acts as a 'transcriptional domainin'protein coordinating the bacterial virulence traits with global transcription

S Reverchon, S Meyer, R Forquet… - Nucleic acids …, 2021 - academic.oup.com
Bacterial pathogenic growth requires a swift coordination of pathogenicity function with
various kinds of environmental stress encountered in the course of host infection. Among the …

Role of the discriminator sequence in the supercoiling sensitivity of bacterial promoters

R Forquet, M Pineau, W Nasser, S Reverchon… - Msystems, 2021 - Am Soc Microbiol
ABSTRACT DNA supercoiling acts as a global transcriptional regulator that contributes to
the rapid transcriptional response of bacteria to many environmental changes. Although a …

Spatiotemporal coupling of DNA supercoiling and genomic sequence organization—a timing chain for the bacterial growth cycle?

G Muskhelishvili, P Sobetzko, A Travers - Biomolecules, 2022 - mdpi.com
In this article we describe the bacterial growth cycle as a closed, self-reproducing, or
autopoietic circuit, reestablishing the physiological state of stationary cells initially inoculated …

DNA sequence-directed cooperation between nucleoid-associated proteins

A Japaridze, W Yang, C Dekker, W Nasser… - Iscience, 2021 - cell.com
Nucleoid-associated proteins (NAPs) are a class of highly abundant DNA-binding proteins
in bacteria and archaea. While both the composition and relative abundance of the NAPs …

Evaluation of Interplay of Gene Expression and Chromosome Structure in E. coli Growth: Regulatory Insights

K Syal - Current Microbiology, 2024 - Springer
We read the article entitled “Combined Study of Gene Expression and Chromosome Three-
Dimensional Structure in Escherichia coli During Growth Process” by Zhang et al. with great …

What is a supercoiling-sensitive gene? Insights from topoisomerase I inhibition in the Gram-negative bacterium Dickeya dadantii

M Pineau, S Martis B, R Forquet, J Baude… - Nucleic acids …, 2022 - academic.oup.com
DNA supercoiling is an essential mechanism of bacterial chromosome compaction, whose
level is mainly regulated by topoisomerase I and DNA gyrase. Inhibiting either of these …

Quantitative spatial analysis of bacterial transcriptome and chromosome structural data with GRATIOSA: application to twin-supercoiled domain distribution

M Pineau, R Forquet, S Reverchon, W Nasser… - bioRxiv, 2023 - biorxiv.org
While classical models of transcriptional regulation focus on transcription factors binding at
promoters, gene expression is also influenced by chromosome organization. Understanding …

Bacterial promoter opening underpins ubiquitous transcriptional regulation by DNA supercoiling

R Forquet, M Pineau, W Nasser, S Reverchon, S Meyer - bioRxiv, 2020 - biorxiv.org
DNA supercoiling acts as a basal transcriptional regulator, which contributes to the quick
and global transcriptional response of bacteria to many environmental changes. In spite of …

[PDF][PDF] The discriminator sequence is a primary determinant in the supercoiling response of bacterial promoters

R Forquet, M Pineau, W Nasser, S Reverchon… - bioRxiv, 2021 - scholar.archive.org
DNA supercoiling acts as a global transcriptional regulator, which contributes to the rapid
transcriptional response of bacteria to many environmental changes. Although a large …