Global epigenetic changes of histone modification under environmental stresses in rice root

  • Aqwin Polosoro
  • Wening Enggarini
  • Nobuko OhmidoEmail author
Original Article


Abiotic stresses are non-living factors with negative morphological and physiological effects on living organisms. Substantial evidence exists that gene expression changes during plant cell growth are regulated by chromatin reconfiguration and histone modification. Several types of histone modifications are dramatically transformed in stress-responsive gene regions under drought stress conditions. Environmental stresses also cause the root apical meristem (RAM) region to decelerate root growth. In this study, we investigated how quantitative changes in epigenetic markers in this region influence rice morphology and physiology. Both iron and salinity treatments changed the epigenetic landscape from euchromatic to heterochromatic according to heterochromatin (H3K9me2) and euchromatin (H3K4me) markers, especially in the proximal meristem region. Moreover, supplementation with external abscisic acid (ABA) was able to mimic the effect of environmental stresses on global epigenetic changes. In contrast, the addition of external auxin (IAA) to rice under saline conditions affected heterochromatin formation without influencing euchromatin transformation. Chromatin dynamics is therefore believed to be directly connected to plant growth regulator signaling. We discuss insights into the role of plant growth regulators: ABA and IAA, peroxide signaling, and their effects on the global epigenetic change of histone modification under abiotic stresses.


ABA IAA Root apical meristem Iron stress Salinity stress H3K9me2 H3K4me2 



Abscisic acid


Indole-3-acetic acid


Root apical meristem


Histone H3 dimethylation at lysine 9


Histone H3 dimethylation at lysine 4



This work was supported by the SmartD program (IAARD-Indonesian Ministry of Agriculture) to AP, and JSPS and CAS under the Japan-Czech Research Cooperative Program to NO. We thank Edanz Group ( for editing the English text of a draft of this manuscript.

Author contributions

NO conceived of the study, participated in its design and coordination, and drafted the manuscript. AP carried out collected experiments, assembly of data, performed statistical analysis studies, and drafted the manuscript. WE prepared the rice materials and assisted with data interpretation. All authors read and NO approved the final manuscript.

Supplementary material

10577_2019_9611_MOESM1_ESM.docx (10.8 mb)
ESM 1 (DOCX 11041 kb)


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Copyright information

© Springer Nature B.V. 2019

Authors and Affiliations

  • Aqwin Polosoro
    • 1
    • 2
  • Wening Enggarini
    • 1
  • Nobuko Ohmido
    • 2
    Email author
  1. 1.Indonesian Center for Agricultural Biotechnology and Genetic Resource Research and Development (ICABIOGRD)BogorIndonesia
  2. 2.Graduate School of Human Development and EnvironmentKobe UniversityKobeJapan

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