Local Changes in Chromatin Accessibility and Transcriptional Networks Underlying the Nitrate Response in Arabidopsis Roots

Alvarez J.M.; Moyano T.C.; Zhang T.; Gras D.E.; Herrera F.J.; Araus V.; O'Brien J.A.; Carrillo L.; Medina J.; Vicente-Carbajosa J.; Jiang J.; Gutiérrez R.A.

Abstract

Transcriptional regulation, determined by the chromatin structure and regulatory elements interacting at promoter regions, is a key step in plant responses to environmental cues. Nitrate (NO3-) is a nutrient signal that regulates the expression of hundreds of genes in Arabidopsis thaliana. Here, we integrate m RNA sequencing, genome-wide RNA polymerase II (RNPII), chromatin immunoprecipitation sequencing, and DNase sequencing datasets to establish the relationship between RNPII occupancy and chromatin accessibility in response to NO3- treatments in Arabidopsis roots. Genomic footprinting allowed us to identify in vivo regulatory elements controlling gene expression in response to NO3- treatments. NO3--modulated transcription factor (TF) footprints are important for a rapid increase in RNPII occupancy and transcript accumulation over time. We mapped key TF regulatory interactions and functionally validated the role of NAP, an NAC-domain containing TF, as a new regulatory factor in NO3- transport. Taken together, our study provides a comprehensive view of transcriptional networks in response to a nutrient signal in Arabidopsis roots.

Más información

Título según WOS: Local Changes in Chromatin Accessibility and Transcriptional Networks Underlying the Nitrate Response in Arabidopsis Roots
Título según SCOPUS: Local Changes in Chromatin Accessibility and Transcriptional Networks Underlying the Nitrate Response in Arabidopsis Roots
Título de la Revista: MOLECULAR PLANT
Volumen: 12
Número: 12
Editorial: Cell Press
Fecha de publicación: 2019
Página de inicio: 1545
Página final: 1560
Idioma: English
DOI:

10.1016/j.molp.2019.09.002

Notas: ISI, SCOPUS