Journal of Plant Research

, Volume 131, Issue 1, pp 191–202 | Cite as

Effects of acute salt stress on modulation of gene expression in a Malaysian salt-tolerant indigenous rice variety, Bajong

  • Brandon Pei Hui Yeo
  • Mrinal Bhave
  • Siaw San Hwang
Regular Paper

Abstract

The small genome size of rice relative to wheat and barley, together with its salt sensitivity, make it an ideal candidate for studies of salt stress response. Transcriptomics has emerged as a powerful technique to study salinity responses in many crop species. By identifying a large number of differentially expressed genes (DEGs) simultaneously after the stress induction, it can provide crucial insight into the immediate responses towards the stressor. In this study, a Malaysian salt-tolerant indigenous rice variety named Bajong and one commercial rice variety named MR219 were investigated for their performance in plant growth and ion accumulation properties after salt stress treatment. Bajong was further investigated for the changes in leaf’s transcriptome after 6 h of stress treatment using 100 mM NaCl. Based on the results obtained, Bajong is found to be significantly more salt tolerant than MR219, showing better growth and a lower sodium ion accumulation after the stress treatment. Additionally, Bajong was analysed by transcriptomic sequencing, generating a total of 130 millions reads. The reads were assembled into de novo transcriptome and each transcript was annotated using several pre-existing databases. The transcriptomes of control and salt-stressed samples were then compared, leading to the discovery of 4096 DEGs. Based on the functional annotation results obtained, the enrichment factor of each functional group in DEGs was calculated in relation to the total reads obtained. It was found that the group with the highest gene modulation was involved in the secondary metabolite biosynthesis of plants, with approximately 2.5% increase in relation to the total reads obtained. This suggests an extensive transcriptional reprogramming of the secondary metabolic pathways after stress induction, which could be directly responsible for the salt tolerance capability of Bajong.

Keywords

mRNA-seq Wild rice variety Antioxidant content Salt stress Plant phytochemicals 

Abbreviations

COG

Clusters of orthologous groups

DEGs

Differentially expressed genes

DPPH

Di(phenyl)-(2,4,6-trinitrophenyl) iminoazanium

GMO

Genetically modified organism

GO

Gene ontology

KEGG

Kyoto encyclopedia of gene and genome

LEA

Late embryogenesis abundant

ROS

Reactive oxygen species

RWC

Relative water content

SOS

Salt overly sensitive

TFC

Total flavonoid content

TPC

Total phenolic content

Notes

Acknowledgements

We greatly thank Swinburne University of Technology Sarawak Campus for providing the Strategic Research Grant (StraRG 2-5605).

Compliance with ethical standards

Conflict of interest

The authors declare that there is no conflict of interest.

Supplementary material

10265_2017_977_MOESM1_ESM.xlsx (49 kb)
Supplementary material 1 (XLSX 50 KB)

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Copyright information

© The Botanical Society of Japan and Springer Japan KK 2017

Authors and Affiliations

  • Brandon Pei Hui Yeo
    • 1
  • Mrinal Bhave
    • 2
  • Siaw San Hwang
    • 1
  1. 1.Faculty of Engineering, Computing and ScienceSwinburne University of Technology Sarawak CampusKuchingMalaysia
  2. 2.Faculty of Science, Engineering and TechnologySwinburne University of TechnologyHawthornAustralia

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