Genome-wide chromatin binding of transcriptional corepressor Topless-related 1 in Arabidopsis

DOI

Timely and specific regulation of gene expression is critical for plant responses to environmental and developmental cues. Transcriptional coregulators have emerged as important factors in gene expression control, although they lack DNA-binding domains and the mechanisms by which they are recruited to and function at the chromatin are poorly understood. Plant Topless-related 1 (TPR1), belonging to a family of transcriptional corepressors found across eukaryotes, contributes to immunity signaling in Arabidopsis thaliana and wild tobacco. We performed chromatin immunoprecipitation and sequencing (ChIP-seq) on an Arabidopsis TPR1-GFP expressing transgenic line to characterize genome-wide TPR1-chromatin associations. The analysis revealed ~1400 genes bound by TPR1, with the majority of binding sites located at gene upstream regions. Among the TPR1 bound genes, we find not only regulators of immunity but also genes controlling growth and development. To support further analysis of TPR1-chromatin complexes and other transcriptional corepressors in plants, we provide two ways to access the processed ChIP-seq data and enable their broader use by the research community. This collection contains 1) input-normalized ChIP-seq data in the bigwig format (TAIR10) that can be used to visualize TPR1-GFP association with chromatin in the IGV browser; 2) alignment bam and respective bai index files that should be used as input for R scripts to produce metaplots for TPR1 association with genes of interest; the respective R scripts and a guide how to use are provided in Github repository https://github.com/rittersporn/Griebel_TPR1_bioRxiv_Apr2020

Identifier
DOI https://doi.org/10.17617/3.O5L8IU
Metadata Access https://edmond.mpg.de/api/datasets/export?exporter=dataverse_json&persistentId=doi:10.17617/3.O5L8IU
Provenance
Creator Griebel, Thomas; Lapin, Dmitry; Kracher, Barbara; Parker, Jane E.
Publisher Edmond
Publication Year 2020
OpenAccess true
Contact lapin(at)mpipz.mpg.de
Representation
Language English
Resource Type Dataset
Version 1
Discipline Other