Genome-wide analyses of direct target genes of four rice NAC-domain transcription factors involved in drought tolerance

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dc.contributor.authorChung, Pil Joong-
dc.contributor.authorJung, Harin-
dc.contributor.authorChoi, Yang Do-
dc.contributor.authorKim, Ju-Kon-
dc.identifier.citationBMC Genomics, 19(1):40ko_KR
Plant stress responses and mechanisms determining tolerance are controlled by diverse sets of genes. Transcription factors (TFs) have been implicated in conferring drought tolerance under drought stress conditions, and the identification of their target genes can elucidate molecular regulatory networks that orchestrate tolerance mechanisms.

We generated transgenic rice plants overexpressing the 4 rice TFs, OsNAC5, 6, 9, and 10, under the control of the root-specific RCc3 promoter. We showed that they were tolerant to drought stress with reduced loss of grain yield under drought conditions compared with wild type plants. To understand the molecular mechanisms underlying this tolerance, we here performed chromatin immunoprecipitation (ChIP)-Seq and RNA-Seq analyses to identify the direct target genes of the OsNAC proteins using the RCc3:6MYC-OsNAC expressing roots. A total of 475 binding loci for the 4 OsNAC proteins were identified by cross-referencing their binding to promoter regions and the expression levels of the corresponding genes. The binding loci were distributed among the promoter regions of 391 target genes that were directly up-regulated by one of the OsNAC proteins in four RCc3:6MYC-OsNAC transgenic lines. Based on gene ontology (GO) analysis, the direct target genes were related to transmembrane/transporter activity, vesicle, plant hormones, carbohydrate metabolism, and TFs. The direct targets of each OsNAC range from 4.0–8.7% of the total number of up-regulated genes found in the RNA-Seq data sets. Thus, each OsNAC up-regulates a set of direct target genes that alter root system architecture in the RCc3:OsNAC plants to confer drought tolerance. Our results provide a valuable resource for functional dissection of the molecular mechanisms of drought tolerance.

Many of the target genes, including transmembrane/transporter, vesicle related, auxin/hormone related, carbohydrate metabolic processes, and transcription factor genes, that are up-regulated by OsNACs act as the cellular components which would alter the root architectures of RCc3:OsNACs for drought tolerance.
dc.description.sponsorshipThis work was supported by the Basic Science Research Program (NRF2013R1A6A3A04060627 to PJC) and by the Mid-career Researcher Program (NRF-2017R1A2B4007457 to J-KK) through the National Research Foundation of Korea, Ministry of Education. The funding body was not involved in the design of the study, analysis or interpretation of data, or writing the manuscriptko_KR
dc.publisherBioMed Centralko_KR
dc.subjectDrought toleranceko_KR
dc.subjectGenome-wide analysisko_KR
dc.subjectNAC transcription factorsko_KR
dc.subjectOryza sativako_KR
dc.titleGenome-wide analyses of direct target genes of four rice NAC-domain transcription factors involved in drought toleranceko_KR
dc.rights.holderThe Author(s).-
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Graduate School of International Agricultural Technology (국제농업기술대학원)Dept. of International Agricultural Technology (국제농업기술학과)Journal Papers (저널논문_국제농업기술학과)
College of Agriculture and Life Sciences (농업생명과학대학)Dept. of Agricultural Biotechnology (농생명공학부)Journal Papers (저널논문_농생명공학부)
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