Identification of heat-tolerant rice genotypes and their molecular characterisation using SSR markers
DOI:
https://doi.org/10.14719/pst.1639Keywords:
Heat stress, Microsattelite markers, Polymorphism, Cluster analysisAbstract
The effect of high-temperature stress has a critical impact in causing reduced crop yield. The focus of the current investigation is the identification of heat-tolerant rice varieties that can alleviate the effects of stress. Among the ten genotypes evaluated across various parameters such as leaf area, dry weight, photosynthetic rate, stomatal conductance and spikelet fertility, N-22 showed superior characteristics for the grain filling parameters along with CR-Dhan 307. The variety CR-Dhan 307 with significantly higher mean pollen viability (80.23%), spikelet fertility (81.18%) and 1000 grain weight (25.45 gm) can be utilized as a heat-tolerant variety. Other genotypes Ptb-7 and CR-Dhan 202 seemed to have tolerance traits beneficial at the vegetative stage. The genotype Rajalakshmi can be characterised as heat susceptible as it had significantly lower values for all parameters. Polymorphic analysis was carried out to validate SSR markers associated with heat tolerance. The polymorphic information content (PIC) was found to be the highest for RM236 and RM6100. The SSR marker RM6100 has been validated in the current investigation to be associated with heat tolerance. As the PIC value is an indication of the ability of the marker in indicating genetic diversity, the PIC values of the 11 polymorphic markers is useful for identify heat-tolerant genotypes. The genetic diversity analysis was carried out using DendroUPGMA to establish the relationship between the genotypes. The genotypes Ptb-7 and CR-Dhan 204 were thus found to be closely related to the heat-tolerant check variety, N-22 indicating genetically related traits for tolerance to heat.
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Yun-Ying CA, Hua DU, Li-Nian YA, Zhi-Qing WA, Shao-Chuan ZH, Jian-Chang YA. Effect of heat stress during meiosis on grain yield of rice cultivars differing in heat tolerance and its physiological mechanism. Acta Agronomica Sinica. 2008 Dec 1;34(12):2134-42.https://doi.org/10.1016/S1875-2780(09)60022-5
Tanaka K, Onishi R, Miyazaki M, Ishibashi Y, Yuasa T, Iwaya-Inoue M. Changes in NMR relaxation of rice grains, kernel quality and physicochemical properties in response to a high temperature after flowering in heat-tolerant and heat-sensitive rice cultivars. Plant Production Science. 2009;12(2):185-92.https://doi.org/10.1626/pps.12.185
Beena R. Research paradigm and inference of studies on high temperature stress in rice (Oryza sativa L.). In: Advances in Plant Physiology, An International Treatise Series, Editor. Hemantaranjan A, Scientific Publishers. 2013.14: 497-11.
Beena R, Vighneswaran V, Sindumole P, Narayankutty MC, SR Voleti. Impact of high temperature stress during reproductive and grain filling stage in rice. Oryza, An International Journal on Rice. 2018a.55(1): 126-33.https://doi.org/10.5958/2249-5266.2018.00015.2
Beena R, Veena V, Narayankutty MC. Evaluation of rice genotypes for acquired thermo-tolerance using Temperature Induction Response technique. Oryza-An International Journal on Rice.2018b 55(2):285-91.https://doi.org/10.5958/2249-5266.2018.00035.8
Singh K, McClean CJ, Büker P, Hartley SE, Hill JK. Mapping regional risks from climate change for rainfed rice cultivation in India. Agricultural systems. 2017 Sep 1;156:76-84https://doi.org/10.1016/j.agsy.2017.05.009
IPCC. Pachauri RK, Allen MR, Barros VR, Broome J, Cramer W, Christ R et al. Climate change 2014: synthesis report. Contribution of Working Groups I, II and III to the fifth assessment report of the Intergovernmental Panel on Climate Change. 2014.
Ceccarelli S, Grando S, Maatougui M, Michael M, Slash M, Haghparast R et al. Plant breeding and climate changes. The Journal of Agricultural Science. 2010 Dec;148(6):627-37.https://doi.org/10.1017/S0021859610000651
Driedonks N, Rieu I, Vriezen WH. Breeding for plant heat tolerance at vegetative and reproductive stages. Plant Reproduction. 2016 Jun;29(1):67-79.https://doi.org/10.1007/s00497-016-0275-9
Younis A, Ramzan F, Ramzan Y, Zulfiqar F, Ahsan M, Lim KB. Molecular markers improve abiotic stress tolerance in crops: a review. Plants. 2020 Oct;9(10):1374https://doi.org/10.3390/plants9101374
Gao L, Jia J, Kong X. A SNP-based molecular barcode for characterization of common wheat. PloS one. 2016 Mar 17;11(3):e0150947.https://doi.org/10.1371/journal.pone.0150947
Prasanth VV, Babu MS, Basava RK, Tripura Venkata VG, Mangrauthia SK, Voleti SR, Neelamraju S. Trait and marker associations in Oryza nivara and O. rufipogon derived rice lines under two different heat stress conditions. Frontiers in Plant Science. 2017 Oct 26;8:1819.https://doi.org/10.3389/fpls.2017.01819
Alexander D, Rajan S, Rajamony L, Ushakumari K, Kurien S. The adhoc Package of Practices recommendations for organic farming. Organic farming. 2009 Jun.
Gopinath PP, Parsad R, Joseph B, Adarsh VS. grapesAgri1: Collection of Shiny Apps for Data Analysis in Agriculture. Journal of Open Source Software. 2021 Jul 18;6(63):3437.https://doi.org/10.21105/joss.03437
Yoshida S. Routine procedure for growing rice plants in culture solution. Laboratory manual for physiological studies of rice. 1976:61-66.
Murray MG, Thompson WF. Rapid isolation of high molecular weight plant DNA. Nucleic acids research. 1980 Oct 10;8(19):4321-26.https://doi.org/10.1093/nar/8.19.4321
Fahad S, Hussain S, Saud S, Hassan S, Ihsan Z, Shah AN et al. Exogenously applied plant growth regulators enhance the morpho-physiological growth and yield of rice under high temperature. Frontiers in Plant Science. 2016 Aug 30;7:1250https://doi.org/10.3389/fpls.2016.01250
Xie XJ, Shen SH, Li YX, Zhao XY, Li BB, Xu DF. Effect of photosynthetic characteristic and dry matter accumulation of rice under high temperature at heading stage. African Journal of Agricultural Research. 2011 Apr 4;6(7):1931-40.
Arai-Sanoh Y, Ishimaru T, Ohsumi A, Kondo M. Effects of soil temperature on growth and root function in rice. Plant Production Science. 2010 Jan 1;13(3):235-42.https://doi.org/10.1626/pps.13.235
Jumaa SH, Redona ED, Walker T, Gao W, Reddy KR. Developing screening tools for early-season high-and low-temperature stress tolerance in rice. SABRAO Journal of Breeding & Genetics. 2019 Mar 1;51(1).
Gupta NK, Agarwal S, Agarwal VP, Nathawat NS, Gupta S, Singh G. Effect of short-term heat stress on growth, physiology and antioxidative defence system in wheat seedlings. Acta Physiologiae Plantarum. 2013 Jun;35(6):1837-42.https://doi.org/10.1007/s11738-013-1221-1
Rivero RM, Ruiz JM, Romero L. Oxidative metabolism in tomato plants subjected to heat stress. The Journal of Horticultural Science and Biotechnology. 2004 Jan 1;79(4):560-64.https://doi.org/10.1080/14620316.2004.11511805
Qu Y, Sakoda K, Fukayama H, Kondo E, Suzuki Y, Makino A, Terashima I, Yamori W. Overexpression of both Rubisco and Rubisco activase rescues rice photosynthesis and biomass under heat stress. Plant, Cell & Environment. 2021 Mar 21.https://doi.org/10.1111/pce.14051
Shi P, Zhu Y, Tang L, Chen J, Sun T, Cao W, Tian Y. Differential effects of temperature and duration of heat stress during anthesis and grain filling stages in rice. Environmental and Experimental Botany. 2016 Dec 1;132:28-41.https://doi.org/10.1016/j.envexpbot.2016.08.006
Reshma M, Beena R, Viji M, Manju R, Roy S. Validation of temperature induction response technique on combined effect of drought and heat stress in rice (Oryza sativa L.). Journal of Crop and Weed. 2021;17(2):119-28.https://doi.org/10.22271/09746315.2021.v17.i2.1461
Zhang CX, Fu GF, Yang XQ, Yang YJ, Zhao X, Chen TT, Zhang XF, Jin QY, Tao LX. Heat stress effects are stronger on spikelets than on flag leaves in rice due to differences in dissipation capacity. Journal of Agronomy and Crop Science. 2016 Oct;202(5):394-408.https://doi.org/10.1111/jac.12138
Rahman HU. Genetic analysis of stomatal conductance in upland cotton (Gossypium hirsutum L.) under contrasting temperature regimes. The Journal of Agricultural Science. 2005 Jun;143(2-3):161-68.https://doi.org/10.1017/S0021859605005186
Raghunath MP, Beena R. Manipulation of flowering time to mitigate high temperature stress in rice (Oryza sativa L.). Indian Journal of Agricultural Research. 1983;1:4.
Dwivedi SK, Basu S, Kumar S, Kumar G, Prakash V, Kumar S et al. Heat stress induced impairment of starch mobilisation regulates pollen viability and grain yield in wheat: Study in Eastern Indo-Gangetic Plains. Field Crops Research. 2017 May 1;206:106-14.https://doi.org/10.1016/j.fcr.2017.03.006
Firon N, Shaked R, Peet MM, Pharr DM, Zamski E, Rosenfeld K et al. Pollen grains of heat tolerant tomato cultivars retain higher carbohydrate concentration under heat stress conditions. Scientia Horticulturae. 2006 Jul 21;109(3):212-17.https://doi.org/10.1016/j.scienta.2006.03.007
Stephen K, Beena R, Manju RV, Viji MM and Roy Stepehn. Mechanism of sugar signaling in plants. Acta Scientific Agriculture. 2021 Jan 22; 5(2): 45-51.https://doi.org/10.31080/ASAG.2020.05.0948
Cheabu S, Moung-Ngam P, Arikit S, Vanavichit A, Malumpong C. Effects of heat stress at vegetative and reproductive stages on spikelet fertility. Rice Science. 2018 Jul 1;25(4):218-26.https://doi.org/10.1016/j.rsci.2018.06.005
Kumar N, Kumar N, Shukla A, Shankhdhar SC, Shankhdhar D. Impact of terminal heat stress on pollen viability and yield attributes of rice (Oryza sativa L.). Cereal Research Communications. 2015 Dec;43(4):616-26.https://doi.org/10.1556/0806.43.2015.023
Chiluwal A, Bheemanahalli R, Kanaganahalli V, Boyle D, Perumal R, Pokharel M et al. Deterioration of ovary plays a key role in heat stress-induced spikelet sterility in sorghum. Plant, Cell and Environment. 2020 Feb;43(2):448-62.https://doi.org/10.1111/pce.13673
Beena R, Veena V, Jaslam MP, Nithya N, Adarsh VS. Germplasm innovation for high-temperature tolerance from traditional rice accessions of Kerala using genetic variability, genetic advance, path coefficient analysis and principal component analysis. Journal of Crop Science and Biotechnology. 2021 Jun 15:1-2.https://doi.org/10.1007/s12892-021-00103-7
Liu Q, Wu X, Ma J, Li T, Zhou X, Guo T. Effects of high air temperature on rice grain quality and yield under field condition. Agronomy Journal. 2013; 105(2):446-54.https://doi.org/10.2134/agronj2012.0164
Weber JL, May PE. Abundant class of human DNA polymorphisms which can be typed using the polymerase chain reaction. American Journal of Human Genetics. 1989 Mar;44(3):388.
Reed PW, Davies JL, Copeman JB, Bennett ST, Palmer SM, Pritchard LE et al. Chromosome-specific microsatellite sets for fluorescence-based, semi-automated genome mapping. Nature genetics. 1994 Jul;7(3):390-95.https://doi.org/10.1038/ng0794-390
Maroof MS, Yang GP, Zhang Q, Gravois KA. Correlation between molecular marker distance and hybrid performance in US southern long grain rice. Crop Science. 1997 Jan;37(1):145-50.https://doi.org/10.2135/cropsci1997.0011183X003700010025x
Mackill DJ, Zhang Z, Redona ED, Colowit PM. Level of polymorphism and genetic mapping of AFLP markers in rice. Genome. 1996 Oct 1;39(5):969-77.https://doi.org/10.1139/g96-121
Gupta PK, Varshney RK, Sharma PC, Ramesh B. Molecular markers and their applications in wheat breeding. Plant Breeding. 1999 Oct;118(5):369-90.https://doi.org/10.1046/j.1439-0523.1999.00401.x
Liu L, Liu G, Gong Y, Dai W, Wang Y, Yu F, Ren Y. Evaluation of genetic purity of F1 hybrid seeds in cabbage with RAPD, ISSR, SRAP and SSR markers. Hort Science. 2007 Jun 1;42(3):724-27.https://doi.org/10.21273/HORTSCI.42.3.724
Xiao Y, Pan Y, Luo L, Zhang G, Deng H, Dai L et al. Quantitative trait loci associated with seed set under high temperature stress at the flowering stage in rice (Oryza sativa L.). Euphytica. 2011 Apr;178(3):331-38.https://doi.org/10.1007/s10681-010-0300-2
Liu HC, Liao HT, Charng YY. The role of class A1 heat shock factors (HSFA1s) in response to heat and other stresses in Arabidopsis. Plant, Cell and Environment. 2011 May;34(5):738-51.https://doi.org/10.1111/j.1365-3040.2011.02278.x
Mittler R. Abiotic stress, the field environment and stress combination. Trends in Plant Science. 2006 Jan 1;11(1):15-19.https://doi.org/10.1016/j.tplants.2005.11.002
Garcia-Vallvé S, Puigbo PE. DendroUPGMA: a dendrogram construction utility. Universitat Rovira i Virgili. 2009.
Amrutha V, Shanija S, Beena R, Sarada S, Sajitha RT, Roy S, Manju RV, Viji MM. High temperature induced changes in quality and yield parameters of tomato (Solanum lycopersicum L.) and similarity coefficients among genotypes using SSR markers. Heliyon. 2021.https://doi.org/10.1016/j.heliyon.2021.e05988
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