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Genome-wide mapping of DNase I hypersensitive sites revealed differential chromatin accessibility and regulatory DNA elements under drought stress in rice cultivars.
Rajkumar, Mohan Singh; Tembhare, Kunal; Garg, Rohini; Jain, Mukesh.
Afiliación
  • Rajkumar MS; School of Computational and Integrative Sciences, Jawaharlal Nehru University, New Delhi, 110067, India.
  • Tembhare K; School of Computational and Integrative Sciences, Jawaharlal Nehru University, New Delhi, 110067, India.
  • Garg R; Department of Life Sciences, School of Natural Sciences, Shiv Nadar University, Gautam Buddha Nagar, Uttar Pradesh, 201314, India.
  • Jain M; School of Computational and Integrative Sciences, Jawaharlal Nehru University, New Delhi, 110067, India.
Plant J ; 119(4): 2063-2079, 2024 Aug.
Article en En | MEDLINE | ID: mdl-38859561
ABSTRACT
Drought stress (DS) is one of the major constraints limiting yield in crop plants including rice. Gene regulation under DS is largely governed by accessibility of the transcription factors (TFs) to their cognate cis-regulatory elements (CREs). In this study, we used DNase I hypersensitive assays followed by sequencing to identify the accessible chromatin regions under DS in a drought-sensitive (IR64) and a drought-tolerant (N22) rice cultivar. Our results indicated that DNase I hypersensitive sites (DHSs) were highly enriched at transcription start sites (TSSs) and numerous DHSs were detected in the promoter regions. DHSs were concurrent with epigenetic marks and the genes harboring DHSs in their TSS and promoter regions were highly expressed. In addition, DS induced changes in DHSs (∆DHSs) in TSS and promoter regions were positively correlated with upregulation of several genes involved in drought/abiotic stress response, those encoding TFs and located within drought-associated quantitative trait loci, much preferentially in the drought-tolerant cultivar. The CREs representing the binding sites of TFs involved in DS response were detected within the ∆DHSs, suggesting differential accessibility of TFs to their cognate sites under DS in different rice cultivars, which may be further deployed for enhancing drought tolerance in rice.
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Texto completo: 1 Bases de datos: MEDLINE Asunto principal: Oryza / Estrés Fisiológico / Cromatina / Regulación de la Expresión Génica de las Plantas / Desoxirribonucleasa I / Sequías Idioma: En Revista: Plant J Asunto de la revista: BIOLOGIA MOLECULAR / BOTANICA Año: 2024 Tipo del documento: Article País de afiliación: India

Texto completo: 1 Bases de datos: MEDLINE Asunto principal: Oryza / Estrés Fisiológico / Cromatina / Regulación de la Expresión Génica de las Plantas / Desoxirribonucleasa I / Sequías Idioma: En Revista: Plant J Asunto de la revista: BIOLOGIA MOLECULAR / BOTANICA Año: 2024 Tipo del documento: Article País de afiliación: India