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

作　　者：Jose M.Alvarez Tomas C.Moyano Tao Zhang Diana E.Gras Francisco J.Herrera Viviana Araus Jose AQ'Brien Laura Carrillo Joaquin Medina Jesus Vicente-Carbajosa Jiming Jiang Rodrigo A.Gutierrez 

机构地区：[1]Pontificia Universidad Catolica de Chile,Santiago,Chile [2]Yangzhou University,Yangzhou,China [3]Instituto de Agrobiotecnologia del Litoral,CONICET,Santa Fe,Argentina [4]University of California,Berkeley,CA,USA [5]Trancura Biosciences,Inc.,San Francisco,CA 94158,USA [6]Centro de Biotecnología y Genómica de Plantas(CBGP,UPM-INIA),Universidad Politecnica de Madrid(UPM),Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria(INIA),Campus de Montegancedo,28223-Pozuelo de Alarcó,Madrid,Spain [7]Department of Horticulture,University of Wisconsin-Madison,Madison,WI 53706,USA [8]Department of Plant Biology and Horticulture,Michigan State University,MI 48824,USA

出　　处：《Molecular Plant》2019年第12期1545-1560,共16页分子植物（英文版）

基　　金：This work is funded by Institute Milenio iBio-Iniciativa Cientifica Milenio MINECON,Chile;by grants from the Fondo de Desarrollo de Areas Prioritarias(FONDAP)Center for Genome Regulation(15090007),Chile;Fondo Nacional de Desarrollo Cientifico y Tecnologico(FONDECYT)(1180759),Chile;to R.A.G.J.M.A.is supported by postdoctoral grant FONDECYT(3140336),Chile.J.J.is funded by grant MCB-1412948 from the National Science Foundation,United States;and J.M.by funding from the Instituto Nacional de Investigacion y Tecnologia Agraria y Alimentaria(INIA),Spain(RTA2015-00014-c02-01).We also want to acknowledge the"Severo Ochoa Program for Centers of Excellence in R&DM from the Agenda Estatal de Investigacion of Spain(SEV-2016-0672(2017-2021))for supporting the scientific services used in this work.

摘　　要：Transcriptional regulation,determined by the chromatin structure and regulatory elements interacting at pro-moter 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 mRNA sequencing,genome-wide RNA polymeraseⅡ(RNPⅡ),chromatin immunoprecipitation sequencing,and DNase Sequencing datasets to establish the relationship between RNPⅡoccupancy and chromatin accessibility in response to NO3-treatments in Arabidopsis roots.Genomic footprinting allowed us to identify in vivo regula-tory elements controlling gene expression in response to NO3-treatments.NO3--modulated transcription factor(TF)footprints are important for a rapid increase in RNPⅡoccupancy 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.

关 键 词：NITRATE TRANSCRIPTIONAL regulation FOOTPRINTING RNA polymeraseⅡ regulatory networks 

分 类 号：Q94[生物学—植物学]