Skip to main content

Advertisement

SpringerLink
Log in

Identification of differentially expressed genes under heat stress conditions in rice (Oryza sativa L.)

  • Original Article
  • Published:
Molecular Biology Reports Aims and scope Submit manuscript

Abstract

Rice production in recent years is highly affected by rapidly increasing temperatures in the tropical and sub-tropical countries, which threatens the sustainable production in near future. Hence, understanding the heat tolerance mechanism and evolving tolerant varieties is an immense need in the staple crop rice. An experiment has been conducted to identify differentially expressed genes in rice under heat stress conditions by employing a diverse set of 32 rice genotypes that includes reported heat tolerant genotypes Nagina 22 (N22) and Dular. Screening of the genotypes at field conditions during Summer-2018 for reproductive stage heat tolerance (wherein the mean minimum (29.8 °C) and maximum (38.4 °C) temperatures surpassed optimum temperatures (25 °C night/30 °C day) required for rice flowering and grain filling stages) and lab conditions employing thermal induction response (TIR) technique to know the genotype’s acquired thermal tolerance revealed that the genotype FR13A (indica landrace) showed highest overall performance for multitude of traits viz., 95.29% of spikelet fertility (SF-%) at field level and 100% seedling survival percentage (SSP) at sub-lethal temperatures under laboratory conditions. The relative performance (under TIR) across all the three traits viz., relative shoot length (RSL) (4.91), relative root length (RRL) (equal to the control) and relative seedling dry weight (RSDW) (6.94) over control is high when compared to the other genotypes under study. However, the highly susceptible genotype PUSA1121 performed with 43.59 of SF%, 73.33% SSP, − 43.59 of RSL, − 36.02 of RRL over control. Hence, these contrasting genotypes were used for molecular analysis for identification of differentially expressed genes by employing 29 heat related gene specific primers. Five genes viz., OsGSK1, TT1, HSP70-OsEnS-45, OsHSP74.8 and OsHSP70 have shown differential expression between the two genotypes. Hence, the genotype FR13A, an ‘indica’ genotype, can be utilized in heat tolerance breeding programmes as donor parent in addition to the reported ‘aus’ genotypes, N22 and Dular. To our knowledge this is the first indica genotype identified for heat tolerance. The HSP70s, TT1 and OsGSK1 that proved with differential expression might be used for identification of gene specific InDels and thereby to develop functional markers that help in the marker assisted introgression breeding to develop heat tolerant varieties that can sustain production under dramatically changing climatic conditions.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Fig. 1
Fig. 2

Similar content being viewed by others

References

  1. Ali F, Waters DLE, Ovenden B, Bundock P, Carolyn A, Raymond T, J, and Rose. (2018) Australian rice varieties vary in grain yield response to heat stress during reproductive and grain filling stages. J Agro Crop Sci 2018:1–9

    Google Scholar 

  2. Arpitha SB (2017) Selective line genotyping for identification of markers associated with heat tolerance in rice (Oryza Sativa L.). MSC. (Ag) Thesis submitted to ANGRAU.

  3. Arshad MS, Farooq M, Asch F, Krishna JSV, Prasad PVV, Siddique KHM (2017) Thermal stress impacts reproductive development and grain yield in rice. Plant Physiol Biochem 115:57–72

    Article  CAS  Google Scholar 

  4. Beena R, Vighneswaran V, Narayankutty MC (2018) Evaluation of rice genotypes for acquired thermo-tolerance using temperature induction response (TIR) technique. Oryza 55(2):285–291

    Article  Google Scholar 

  5. Cao YY, Duan H, Yang LN, Wang ZQ, Liu LJ, Yang JC (2011) Effect of high temperature during heading and early filling on grain yield and physiological characteristics in indica rice. Acta Agron Sin 35:512–521

    Google Scholar 

  6. Das P, Lakra N, Nutan KK, Pareek SLS, Pareek A (2019) A unique bZIP transcription factor imparting multiple stress tolerance in Rice. Rice 12:58

    Article  Google Scholar 

  7. Goswami A, Banerjee R, Raha S (2010) Mechanisms of plant adaptation/memory in rice seedlings under arsenic and heat stress: expression of heat-shock protein gene HSP70. AoB PLANTS 2010:plq023

    Article  Google Scholar 

  8. Gui-lian Z, Li-yun C, Shun-tang Z, Hua Z, Guo-hua L (2009) Effects of high temperature stress on microscopic and ultrastructural characteristics of mesophyll cells in flag leaves of rice. Rice Sci 16(1):65–71

    Article  Google Scholar 

  9. Harihar S, Srividhya S, Vijayalakshmi C, Boominathan P (2014) Temperature induction response technique—a physiological approach to identify thermotolerant genotypes in rice. Int J Agric Sci 10:230–232

    Google Scholar 

  10. Hasanuzzaman M, Nahar K, Alam M, Roychowdhury R, Fujita M (2013) Physiological, biochemical, and molecular mechanisms of heat stress tolerance in plants. Int J Mol Sci 14(5):9643–9684

    Article  Google Scholar 

  11. Hemantaranjan A, Nishant Bhanu A, Singh MN, Yadav DK, Patel PK, Singh R, Katiyaret E (2014) Heat stress responses and thermotolerance. Plants Agric Res 1(3):62–70

    Google Scholar 

  12. Henning LM, Pegoraro C, Maia LC, Venske E, Rombaldi CV, Olieviera A (2015) Expression profile of rice Hsp genes under anoxic stress. Genet Mol Res. https://doi.org/10.4238/gmr.15027954

    Article  Google Scholar 

  13. Hikosaka K, Ishikawa K, Borjigidai A, Muller O, Onoda Y (2006) Temperature acclimation of photosynthesis: mechanisms involved in the changes in temperature dependence of photosynthetic rate. J Exp Bot 57:291–302

    Article  CAS  Google Scholar 

  14. Huang B, Xu C (2008) Identification and characterization of proteins associated with plant tolerance to heat stress. J Integr Plant Biol 50(10):1230–1237

    Article  CAS  Google Scholar 

  15. Jagadish SVK, Muthurajan R, Oane R, Wheeler TR, Heuer S, Bennett J, Craufurd PQ (2008) Physiological and proteomic approaches to dissect reproductive stage heat tolerance in rice (Oryza sativa L.). J Exp Bot 61:143–156

    Article  Google Scholar 

  16. Jain M, Nijhawan A, Tyagi AK, Khurana JP (2006) Validation of housekeeping genes as internal control for studying gene expression in rice by quantitative real-time PCR. Biochem Biophys Res Commun 345:646–651

    Article  CAS  Google Scholar 

  17. John JB (2001) Identification of genetic diversity and mutations in higher plant acquired thermo tolerance. Int J Plant Biol 112(2):167–170

    Google Scholar 

  18. Koh S, Lee S, Kim M, Koh J, Lee S, An G, Choe S, Kim S (2007) T-DNA tagged knockout mutation of rice OsGSK1, an orthologue of Arabidopsis BIN2, with enhanced tolerance to various abiotic stresses. Plant Mol Biol 2007(65):453–466

    Article  Google Scholar 

  19. Kumar M, Kumar G, Srikanthbabu V, Udayakumar M (2006) Assessment of variability in acquired thermotolerance: potential option to study genotypic response and the relevance of stress genes. J Plant Physiol 164:111–125

    Article  Google Scholar 

  20. Kumar N, Nitin K, Shukla A, Shankhdhar SC, Shankhdhar D (2015) Impact of terminal heat stress on pollen viability and yield attributes of rice (Oryza sativa L.). Cereal Res Commun 43(4):616–626

    Article  CAS  Google Scholar 

  21. Li XM, Chao DY, Wu Y, Lin HX (2015) Natural alleles of a proteasome α2 subunit gene contribute to thermotolerance and adaptation of African rice. Nat Genet. https://doi.org/10.1038/ng.3305

    Article  PubMed  PubMed Central  Google Scholar 

  22. MacRae. (2007) Extraction of plant RNA. Methods Mol Biol 353:15–24

    PubMed  Google Scholar 

  23. Maestri E, Klueva N, Perrotta C, Gulli M, Nguyen HT, Marmiroli N (2015) Molecular genetics of heat tolerance and heat shock proteins in cereals. Plant Mol Biol 48:667–681

    Article  Google Scholar 

  24. Masuduzzaman ASM, Ahmad HU, Haque M, Ahmed MME (2016) Evaluation of rice lines tolerant to heat during flowering stage. J Rice Res 4:170

    Google Scholar 

  25. Nakagawa, H., Horie, T and Matsui, T. 2003. Effects of climate change on rice production and adaptive technologies. In rice science: innovations and impact for livelihood. In: Proceedings of the IRR Conference, Beijing, China, 16–19 September 2002 (Edt by T. W. Mew, D. S. Brar, S. Peng, D. Dawe & B. Hardy), Manila, Philippines: IRRI. 635–658 pp.

  26. Neelam KS, Preeti K, Anil G (2012) Functional analysis of Hsp70 superfamily proteins of rice (Oryza sativa). Cell Stress Chaperones 18(4):427–437

    Google Scholar 

  27. Prasad PVV, Boote KJ, Allen LH, Sheehy JE, Thomas JMG (2006) Species, ecotype and cultivar differences in spikelet fertility and harvest index of rice in response to high temperature stress. Field Crops Res 95:408–411

    Article  Google Scholar 

  28. Shah F, Huang J, Cui K, Nie L, Shah T, Chen C, Wang K (2011) Impact of high-temperature stress on rice plant and its traits related to tolerance. J Agric Sci 149:545–556

    Article  CAS  Google Scholar 

  29. Sudhakar P, Latha P, Ramesh babu P, Sujatha K, Raja Reddy K (2012) Identification of thermotolerant rice genotypes at seedling stage using TIR technique in pursuit of global warming. Indian J Plant Physiol 27:185–188

    Google Scholar 

  30. USDA World Agricultural Production (2019) https://www.fas.usda.gov/data/world-agricultural-production

  31. Vijayalakshmi D, Srividhya S, Vivitha P, Ravindran M (2015) Temperature induction response (TIR) as a rapid screening protocol to dissect the genetic variability in acquired thermotolerance in rice and to identify novel donors for high temperature stress tolerance. Indian J Plant Physiol 20:368–374

    Article  Google Scholar 

  32. Wahid A, Gelani S, Ashraf M, Foolad MR (2007) Heat tolerance in plants: an overview. Environ Exp Bot 61:199–223

    Article  Google Scholar 

  33. Wassmann R, Jagadish K, Sumfleth H, Pathak G, Howell A, Ismail R, Serraj E, Redona RK, Singh RK, Heuer S (2009) Regional vulnerability of climate change impacts on Asian rice production and scope for adaptation. Adv Agron 102:2009

    Google Scholar 

  34. Xie XJ, Shen SHH, Li YX, Zhao XY, Li BB, Xu DF (2011) Effect of photosynthetic characteristics and dry matter accumulation of rice under high temperature at heading stage. Afr J Agric Res 6(7):1931–1940

    Google Scholar 

  35. Zhang Y, Tang Q, Peng S, Zou Y, Chen S, Shi W, Qin J, Laza CR (2013) Effects of high night temperature on yield and agronomic traits of irrigated rice under field chamber system condition. Aust J Crop Sci 7(1):7–13

    Google Scholar 

  36. Zafar SA, Hameed A, Khan AS, Ashraf M (2017) Heat shock induced morpho-physiological response in indica rice (Oryza sativa L.) at early seedling stage. Pak J Bot 49(2):453–463

  37. Zafar SA, Zaidi SS, Gaba Y, Pareek SN, Dhankher PO, Li X, Mansoor S, Pareek A (2020) Engineering abiotic stress tolerance via CRISPR-Cas mediated genome editing. J Exp Bot 71:470–479

    Article  Google Scholar 

Download references

Acknowledgements

This research was supported by the Department of Biotechnology, Institute of Frontier Technology, Regional Agricultural Research Station, ANGRAU, Tirupati, A.P. We thank S.V. Agricultural College, Tirupati, ANGRAU for providing the field screening facility.

Author information

Authors and Affiliations

  1. Department of Genetics and Plant Breeding, S.V. Agricultural College, Acharya NG Ranga Agricultural University (ANGRAU), Tirupati, AP, 517502, India

    Mustaq Mohammed S. Wahab & P. Shanthi

  2. Department of Plant Breeding, Institute of Frontier Technology, RARS, Acharya NG Ranga Agricultural University (ANGRAU), Tirupati, AP, 517502, India

    Srividhya Akkareddy

  3. Department of Crop Physiology, Institute of Frontier Technology, RARS, ANGRAU, Tirupati, AP, 517502, India

    P. Latha

Authors
  1. Mustaq Mohammed S. Wahab
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Srividhya Akkareddy
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. P. Shanthi
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. P. Latha
    View author publications

    You can also search for this author in PubMed Google Scholar

Contributions

SVA planned the experiments. MMSW executed the experiments and recorded the phenotypic data and genotypic data. SVA and MMSW analyzed the data. LP and SP provided the required facility for laboratory screening. SVA and MMSW wrote the manuscript. All authors read and approved the final manuscript.

Corresponding author

Correspondence to Srividhya Akkareddy.

Ethics declarations

Conflict of interest

The authors declare that they have no conflict of interest.

Additional information

Publisher's Note

Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.

Electronic supplementary material

Rights and permissions

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Wahab, M.M.S., Akkareddy, S., Shanthi, P. et al. Identification of differentially expressed genes under heat stress conditions in rice (Oryza sativa L.). Mol Biol Rep 47, 1935–1948 (2020). https://doi.org/10.1007/s11033-020-05291-z

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s11033-020-05291-z

Keywords

Search

Navigation