Association mapping and genetic dissection of drought-induced canopy temperature differences in rice

Giovanni Melandri, Ankush Prashar, Susan R Mccouch, Gerard Van Der Linden, Hamlyn G Jones, Niteen Kadam, Krishna Jagadish, Harro Bouwmeester (Lead / Corresponding author), Carolien Ruyter-Spira

    Research output: Contribution to journalArticle

    Abstract

    Drought-stressed plants display reduced stomatal conductance, which results in increased leaf temperature by limiting transpiration. In this study, thermal imaging was used to quantify the differences in canopy temperature under drought in a rice diversity panel consisting of 293 indica accessions. The population was grown under paddy field conditions and drought stress was imposed for 2 weeks at flowering. The canopy temperature of the accessions during stress negatively correlated with grain yield (r= -0.48) and positively with plant height (r=0.56). Temperature values were used to perform a genome-wide association (GWA) analysis using a 45K single nucleotide polynmorphism (SNP) map. A quantitative trait locus (QTL) for canopy temperature under drought was detected on chromosome 3 and fine-mapped using a high-density imputed SNP map. The candidate genes underlying the QTL point towards differences in the regulation of guard cell solute intake for stomatal opening as the possible source of temperature variation. Genetic variation for the significant markers of the QTL was present only within the tall, low-yielding landraces adapted to drought-prone environments. The absence of variation in the shorter genotypes, which showed lower leaf temperature and higher grain yield, suggests that breeding for high grain yield in rice under paddy conditions has reduced genetic variation for stomatal response under drought.

    Original languageEnglish
    Article numbererz527
    JournalJournal of Experimental Botany
    Early online date17 Dec 2019
    DOIs
    Publication statusE-pub ahead of print - 17 Dec 2019

    Fingerprint

    Droughts
    chromosome mapping
    Dissection
    drought
    canopy
    rice
    Temperature
    Quantitative Trait Loci
    temperature
    quantitative trait loci
    grain yield
    paddies
    Nucleotides
    nucleotides
    genetic variation
    Chromosomes, Human, Pair 3
    Genome-Wide Association Study
    guard cells
    Oryza
    landraces

    Cite this

    Melandri, G., Prashar, A., Mccouch, S. R., Van Der Linden, G., Jones, H. G., Kadam, N., ... Ruyter-Spira, C. (2019). Association mapping and genetic dissection of drought-induced canopy temperature differences in rice. Journal of Experimental Botany, [erz527]. https://doi.org/10.1093/jxb/erz527
    Melandri, Giovanni ; Prashar, Ankush ; Mccouch, Susan R ; Van Der Linden, Gerard ; Jones, Hamlyn G ; Kadam, Niteen ; Jagadish, Krishna ; Bouwmeester, Harro ; Ruyter-Spira, Carolien. / Association mapping and genetic dissection of drought-induced canopy temperature differences in rice. In: Journal of Experimental Botany. 2019.
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    title = "Association mapping and genetic dissection of drought-induced canopy temperature differences in rice",
    abstract = "Drought-stressed plants display reduced stomatal conductance, which results in increased leaf temperature by limiting transpiration. In this study, thermal imaging was used to quantify the differences in canopy temperature under drought in a rice diversity panel consisting of 293 indica accessions. The population was grown under paddy field conditions and drought stress was imposed for 2 weeks at flowering. The canopy temperature of the accessions during stress negatively correlated with grain yield (r= -0.48) and positively with plant height (r=0.56). Temperature values were used to perform a genome-wide association (GWA) analysis using a 45K single nucleotide polynmorphism (SNP) map. A quantitative trait locus (QTL) for canopy temperature under drought was detected on chromosome 3 and fine-mapped using a high-density imputed SNP map. The candidate genes underlying the QTL point towards differences in the regulation of guard cell solute intake for stomatal opening as the possible source of temperature variation. Genetic variation for the significant markers of the QTL was present only within the tall, low-yielding landraces adapted to drought-prone environments. The absence of variation in the shorter genotypes, which showed lower leaf temperature and higher grain yield, suggests that breeding for high grain yield in rice under paddy conditions has reduced genetic variation for stomatal response under drought.",
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    note = "This work is part of the ‘Growing Rice like Wheat’ research programme financially supported by an anonymous private donor, via Wageningen University Fund, for the first author’s PhD fellowship. We also acknowledge financial support from the Bill and Melinda Gates Foundation from the ‘Rapid Mobilization of Alleles for Rice Cultivar Improvement in Sub-Saharan Africa’ project at Cornell University for providing analytical and database support {\circledC} The Author(s) 2019. Published by Oxford University Press on behalf of the Society for Experimental Biology. All rights reserved. For permissions, please email: journals.permissions@oup.com.",
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    Melandri, G, Prashar, A, Mccouch, SR, Van Der Linden, G, Jones, HG, Kadam, N, Jagadish, K, Bouwmeester, H & Ruyter-Spira, C 2019, 'Association mapping and genetic dissection of drought-induced canopy temperature differences in rice', Journal of Experimental Botany. https://doi.org/10.1093/jxb/erz527

    Association mapping and genetic dissection of drought-induced canopy temperature differences in rice. / Melandri, Giovanni; Prashar, Ankush; Mccouch, Susan R; Van Der Linden, Gerard; Jones, Hamlyn G; Kadam, Niteen; Jagadish, Krishna; Bouwmeester, Harro (Lead / Corresponding author); Ruyter-Spira, Carolien.

    In: Journal of Experimental Botany, 17.12.2019.

    Research output: Contribution to journalArticle

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    AU - Melandri, Giovanni

    AU - Prashar, Ankush

    AU - Mccouch, Susan R

    AU - Van Der Linden, Gerard

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    AU - Kadam, Niteen

    AU - Jagadish, Krishna

    AU - Bouwmeester, Harro

    AU - Ruyter-Spira, Carolien

    N1 - This work is part of the ‘Growing Rice like Wheat’ research programme financially supported by an anonymous private donor, via Wageningen University Fund, for the first author’s PhD fellowship. We also acknowledge financial support from the Bill and Melinda Gates Foundation from the ‘Rapid Mobilization of Alleles for Rice Cultivar Improvement in Sub-Saharan Africa’ project at Cornell University for providing analytical and database support © The Author(s) 2019. Published by Oxford University Press on behalf of the Society for Experimental Biology. All rights reserved. For permissions, please email: journals.permissions@oup.com.

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    N2 - Drought-stressed plants display reduced stomatal conductance, which results in increased leaf temperature by limiting transpiration. In this study, thermal imaging was used to quantify the differences in canopy temperature under drought in a rice diversity panel consisting of 293 indica accessions. The population was grown under paddy field conditions and drought stress was imposed for 2 weeks at flowering. The canopy temperature of the accessions during stress negatively correlated with grain yield (r= -0.48) and positively with plant height (r=0.56). Temperature values were used to perform a genome-wide association (GWA) analysis using a 45K single nucleotide polynmorphism (SNP) map. A quantitative trait locus (QTL) for canopy temperature under drought was detected on chromosome 3 and fine-mapped using a high-density imputed SNP map. The candidate genes underlying the QTL point towards differences in the regulation of guard cell solute intake for stomatal opening as the possible source of temperature variation. Genetic variation for the significant markers of the QTL was present only within the tall, low-yielding landraces adapted to drought-prone environments. The absence of variation in the shorter genotypes, which showed lower leaf temperature and higher grain yield, suggests that breeding for high grain yield in rice under paddy conditions has reduced genetic variation for stomatal response under drought.

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