The context-dependent influence of promoter sequence motifs on transcription initiation kinetics and regulation

D Jensen, EA Galburt - Journal of bacteriology, 2021 - Am Soc Microbiol
The fitness of an individual bacterial cell is highly dependent upon the temporal tuning of
gene expression levels when subjected to different environmental cues. Kinetic regulation of …

Structural basis for intrinsic transcription termination

L You, EO Omollo, C Yu, RA Mooney, J Shi, L Shen… - Nature, 2023 - nature.com
Efficient and accurate termination is required for gene transcription in all living organisms,.
Cellular RNA polymerases in both bacteria and eukaryotes can terminate their transcription …

Head-on and co-directional RNA polymerase collisions orchestrate bidirectional transcription termination

L Wang, JW Watters, X Ju, G Lu, S Liu - Molecular cell, 2023 - cell.com
Genomic DNA is a crowded track where motor proteins frequently collide. It remains
underexplored whether these collisions carry physiological function. In this work, we …

Rho-dependent transcription termination proceeds via three routes

E Song, H Uhm, PR Munasingha, S Hwang… - Nature …, 2022 - nature.com
Rho is a general transcription termination factor in bacteria, but many aspects of its
mechanism of action are unclear. Diverse models have been proposed for the initial …

RNA polymerase collisions and their role in transcription

L Wang - Transcription, 2024 - Taylor & Francis
ABSTRACT RNA polymerases are the central enzymes of gene expression and function
frequently in either a head-on or co-directional manner on the busy DNA track. Whether and …

Translocating RNA polymerase generates R-loops at DNA double-strand breaks without any additional factors

G Lim, S Hwang, K Yu, JY Kang, C Kang… - Nucleic Acids …, 2023 - academic.oup.com
The R-loops forming around DNA double-strand breaks (DSBs) within actively transcribed
genes play a critical role in the DSB repair process. However, the mechanisms underlying R …

[HTML][HTML] Structural insights into RNA-mediated transcription regulation in bacteria

S Dey, C Batisse, J Shukla, MW Webster, M Takacs… - Molecular Cell, 2022 - cell.com
RNA can regulate its own synthesis without auxiliary proteins. For example, U-rich RNA
sequences signal RNA polymerase (RNAP) to pause transcription and are required for …

Transcriptional pause extension benefits the stand-by rather than catch-up Rho-dependent termination

E Song, S Hwang, PR Munasingha… - Nucleic Acids …, 2023 - academic.oup.com
Transcriptional pause is essential for all types of termination. In this single-molecule study
on bacterial Rho factor-dependent terminators, we confirm that the three Rho-dependent …

Dynamic competition between a ligand and transcription factor NusA governs riboswitch-mediated transcription regulation

A Chauvier, P Ajmera, R Yadav… - Proceedings of the …, 2021 - National Acad Sciences
Cotranscriptional RNA folding is widely assumed to influence the timely control of gene
expression, but our understanding remains limited. In bacteria, the fluoride (F−)-sensing …

The δ subunit and NTPase HelD institute a two-pronged mechanism for RNA polymerase recycling

HH Pei, T Hilal, ZA Chen, YH Huang, Y Gao… - Nature …, 2020 - nature.com
Cellular RNA polymerases (RNAPs) can become trapped on DNA or RNA, threatening
genome stability and limiting free enzyme pools, but how RNAP recycling into active states …