Diversity of cis-regulatory elements associated with auxin response in Arabidopsis thaliana

P Cherenkov, D Novikova… - Journal of …, 2018 - academic.oup.com
The phytohormone auxin regulates virtually every developmental process in land plants.
This regulation is mediated via de-repression of DNA-binding auxin response factors …

The general transcription factors (GTFs) of RNA polymerase II and their roles in plant development and stress responses

S Sharma, S Kapoor, A Ansari… - Critical Reviews in …, 2024 - Taylor & Francis
In eukaryotes, general transcription factors (GTFs) enable recruitment of RNA polymerase II
(RNA Pol II) to core promoters to facilitate initiation of transcription. Extensive research in …

Genome-wide occupancy profile of the RNA polymerase III machinery in Saccharomyces cerevisiae reveals loci with incomplete transcription complexes

Z Moqtaderi, K Struhl - Molecular and cellular biology, 2004 - Am Soc Microbiol
We used chromatin immunoprecipitation, followed by microarray hybridization, to determine
the genome-wide distribution of the RNA polymerase (Pol) III transcription apparatus in the …

Plant_SNP_TATA_Z-Tester: A Web service that unequivocally estimates the impact of proximal promoter mutations on plant gene expression

D Rasskazov, I Chadaeva, E Sharypova… - International Journal of …, 2022 - mdpi.com
Synthetic targeted optimization of plant promoters is becoming a part of progress in
mainstream postgenomic agriculture along with hybridization of cultivated plants with wild …

CRISPRi-based circuits to control gene expression in plants

MA Khan, G Herring, JY Zhu, M Oliva, E Fourie… - Nature …, 2024 - nature.com
The construction of synthetic gene circuits in plants has been limited by a lack of orthogonal
and modular parts. Here, we implement a CRISPR (clustered regularly interspaced short …

CRISPRi-based circuits for genetic computation in plants

MA Khan, G Herring, M Oliva, E Fourie, JY Zhu… - BioRxiv, 2022 - biorxiv.org
Synthetic gene circuits can enable new cellular behaviours by integrating multiple input
signals into customisable genetic programs. However, gene circuit development in plants …

On the Role of TATA Boxes and TATA-Binding Protein in Arabidopsis thaliana

LK Savinkova, EB Sharypova, NA Kolchanov - Plants, 2023 - mdpi.com
For transcription initiation by RNA polymerase II (Pol II), all eukaryotes require assembly of
basal transcription machinery on the core promoter, a region located approximately in the …

Yeast NC2 associates with the RNA polymerase II preinitiation complex and selectively affects transcription in vivo

JV Geisberg, FC Holstege, RA Young… - Molecular and cellular …, 2001 - Taylor & Francis
NC2 (Dr1-Drap1 or Bur6-Ydr1) has been characterized in vitro as a general negative
regulator of RNA polymerase II (Pol II) transcription that interacts with TATA-binding protein …

A critical role of a plant-specific TFIIB-related protein, BRP1, in salicylic acid-mediated immune response

B Xu, B Fan, Z Chen - Frontiers in Plant Science, 2024 - frontiersin.org
An integral part of plant immunity is transcription reprogramming by concerted action of
specific transcription factors that activate or repress genes through recruitment or release of …

Specific chromatin changes mark lateral organ founder cells in the Arabidopsis inflorescence meristem

A Frerichs, J Engelhorn, J Altmüller… - Journal of …, 2019 - academic.oup.com
Fluorescence-activated cell sorting (FACS) and assay for transposase-accessible chromatin
with high-throughput sequencing (ATAC-seq) were combined to analyse the chromatin state …