Limits...
Identification and mapping of stable QTL with main and epistasis effect on rice grain yield under upland drought stress.

Sandhu N, Singh A, Dixit S, Sta Cruz MT, Maturan PC, Jain RK, Kumar A - BMC Genet. (2014)

Bottom Line: The aim was to identify QTL for GY under RS that show a large and consistent effect for the trait.QTL analysis revealed major-effect GY QTL: qDTY1.2, qDTY2.2 and qDTY1.3, qDTY2.3 (DTY; Drought grain yield) under drought consistently over two seasons in Kali Aus/2*MTU1010 and Kali Aus/2*IR64 populations, respectively. qDTY1.2 and qDTY2.2 explained an additive effect of 288 kg ha-1 and 567 kg ha-1 in Kali Aus/2*MTU1010, whereas qDTY1.3 and qDTY2.3 explained an additive effect of 198 kg ha-1 and 147 kg ha-1 in Kali Aus/2*IR64 populations, respectively.Epistatic interaction was observed for DTF (days to flowering) between regions on chromosome 2 flanked by markers RM154-RM324 and RM263-RM573 and major epistatic QTL for GY showing interaction between genomic locations on chromosome 1 at marker interval RM488-RM315 and chromosome 2 at RM324-RM263 in 2012 DS and 2013 DS RS in Kali Aus/2*IR64 mapping populations.The QTL, qDTY1.2, qDTY1.3, qDTY2.2, and qDTY2.3, identified in this study can be used to improve GY of mega varieties MTU1010 and IR64 under different degrees of severity of drought stress through marker-aided backcrossing and provide farmers with improved varieties that effectively combine high yield potential with good yield under drought.

View Article: PubMed Central - HTML - PubMed

Affiliation: Plant Breeding, Genetics, and Biotechnology Division, International Rice Research Institute, DAPO Box 7777, Metro Manila, Philippines. a.kumar@irri.org.

ABSTRACT

Background: Drought is one of the most important abiotic stresses that cause drastic reduction in rice grain yield (GY) in rainfed environments. The identification and introgression of QTL leading to high GY under drought have been advocated to be the preferred breeding strategy to improve drought tolerance of popular rice varieties. Genetic control of GY under reproductive-stage drought stress (RS) was studied in two BC1F4 mapping populations derived from crosses of Kali Aus, a drought-tolerant aus cultivar, with high-yielding popular varieties MTU1010 and IR64. The aim was to identify QTL for GY under RS that show a large and consistent effect for the trait. Bulk segregant analysis (BSA) was used to identify significant markers putatively linked with high GY under drought.

Results: QTL analysis revealed major-effect GY QTL: qDTY1.2, qDTY2.2 and qDTY1.3, qDTY2.3 (DTY; Drought grain yield) under drought consistently over two seasons in Kali Aus/2*MTU1010 and Kali Aus/2*IR64 populations, respectively. qDTY1.2 and qDTY2.2 explained an additive effect of 288 kg ha-1 and 567 kg ha-1 in Kali Aus/2*MTU1010, whereas qDTY1.3 and qDTY2.3 explained an additive effect of 198 kg ha-1 and 147 kg ha-1 in Kali Aus/2*IR64 populations, respectively.Epistatic interaction was observed for DTF (days to flowering) between regions on chromosome 2 flanked by markers RM154-RM324 and RM263-RM573 and major epistatic QTL for GY showing interaction between genomic locations on chromosome 1 at marker interval RM488-RM315 and chromosome 2 at RM324-RM263 in 2012 DS and 2013 DS RS in Kali Aus/2*IR64 mapping populations.

Conclusion: The QTL, qDTY1.2, qDTY1.3, qDTY2.2, and qDTY2.3, identified in this study can be used to improve GY of mega varieties MTU1010 and IR64 under different degrees of severity of drought stress through marker-aided backcrossing and provide farmers with improved varieties that effectively combine high yield potential with good yield under drought. The observed epistatic interaction for GY and DTF will contribute to our understanding of the genetic basis of agronomically important traits and enhance predictive ability at an individualized level in agriculture.

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Related in: MedlinePlus

F-static curve indicating consistent QTL for grain yield (qDTY1.3and qDTY2.3) of Kali Aus/2*IR64 mapping population under stress 2012, stress 2013, and combined stress conditions (Red line) and under non-stress 2012, non-stress 2013, and combined non-stress conditions (Black line) located on chromosome 1 and 2. Genetic distance (cM) between two markers is exhibited on X-axis while horizontal line corresponds for critical F-value (P < 0.01).
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Figure 3: F-static curve indicating consistent QTL for grain yield (qDTY1.3and qDTY2.3) of Kali Aus/2*IR64 mapping population under stress 2012, stress 2013, and combined stress conditions (Red line) and under non-stress 2012, non-stress 2013, and combined non-stress conditions (Black line) located on chromosome 1 and 2. Genetic distance (cM) between two markers is exhibited on X-axis while horizontal line corresponds for critical F-value (P < 0.01).

Mentions: Significant and consistent-effect QTL qDTY1.3 and qDTY2.3 for GY were identified at chromosomes 1 and 2 flanked by markers RM488–RM315 and RM263–RM573 positioned at 109.4 cM and 104.4 cM (Table 5, Figure 3) with additive effect of 14 and 10% of trial mean under RS condition in 2012 DS, respectively; 18 and 11% under RS condition, respectively, in 2013 DS; and 15 and 11% of trial mean in combined stress, respectively. qDTY1.3 contributed 16, 12, and 19% increase in GY under 2012 DS RS condition; 18, 22, and 27% under 2013 DS RS condition, for RM315 and RM488, individually and combined, respectively, which can be attributed to the Kali Aus allele, the drought-tolerant parent (Table 6). For qDTY2.3, the homozygotes for RM573 and RM263 exhibited a GY improvement of 15, 6, and 18% for RS condition of 2012 DS and 24, 28, and 35% under 2013 DS RS condition, individually and combined, respectively. qDTY1.3 and qDTY2.3, combined, exhibited a GY improvement of 19 and 31% in 2012 DS and 2013 DS, respectively (Table 6).


Identification and mapping of stable QTL with main and epistasis effect on rice grain yield under upland drought stress.

Sandhu N, Singh A, Dixit S, Sta Cruz MT, Maturan PC, Jain RK, Kumar A - BMC Genet. (2014)

F-static curve indicating consistent QTL for grain yield (qDTY1.3and qDTY2.3) of Kali Aus/2*IR64 mapping population under stress 2012, stress 2013, and combined stress conditions (Red line) and under non-stress 2012, non-stress 2013, and combined non-stress conditions (Black line) located on chromosome 1 and 2. Genetic distance (cM) between two markers is exhibited on X-axis while horizontal line corresponds for critical F-value (P < 0.01).
© Copyright Policy - open-access
Related In: Results  -  Collection

License 1 - License 2
Show All Figures
getmorefigures.php?uid=PMC4048250&req=5

Figure 3: F-static curve indicating consistent QTL for grain yield (qDTY1.3and qDTY2.3) of Kali Aus/2*IR64 mapping population under stress 2012, stress 2013, and combined stress conditions (Red line) and under non-stress 2012, non-stress 2013, and combined non-stress conditions (Black line) located on chromosome 1 and 2. Genetic distance (cM) between two markers is exhibited on X-axis while horizontal line corresponds for critical F-value (P < 0.01).
Mentions: Significant and consistent-effect QTL qDTY1.3 and qDTY2.3 for GY were identified at chromosomes 1 and 2 flanked by markers RM488–RM315 and RM263–RM573 positioned at 109.4 cM and 104.4 cM (Table 5, Figure 3) with additive effect of 14 and 10% of trial mean under RS condition in 2012 DS, respectively; 18 and 11% under RS condition, respectively, in 2013 DS; and 15 and 11% of trial mean in combined stress, respectively. qDTY1.3 contributed 16, 12, and 19% increase in GY under 2012 DS RS condition; 18, 22, and 27% under 2013 DS RS condition, for RM315 and RM488, individually and combined, respectively, which can be attributed to the Kali Aus allele, the drought-tolerant parent (Table 6). For qDTY2.3, the homozygotes for RM573 and RM263 exhibited a GY improvement of 15, 6, and 18% for RS condition of 2012 DS and 24, 28, and 35% under 2013 DS RS condition, individually and combined, respectively. qDTY1.3 and qDTY2.3, combined, exhibited a GY improvement of 19 and 31% in 2012 DS and 2013 DS, respectively (Table 6).

Bottom Line: The aim was to identify QTL for GY under RS that show a large and consistent effect for the trait.QTL analysis revealed major-effect GY QTL: qDTY1.2, qDTY2.2 and qDTY1.3, qDTY2.3 (DTY; Drought grain yield) under drought consistently over two seasons in Kali Aus/2*MTU1010 and Kali Aus/2*IR64 populations, respectively. qDTY1.2 and qDTY2.2 explained an additive effect of 288 kg ha-1 and 567 kg ha-1 in Kali Aus/2*MTU1010, whereas qDTY1.3 and qDTY2.3 explained an additive effect of 198 kg ha-1 and 147 kg ha-1 in Kali Aus/2*IR64 populations, respectively.Epistatic interaction was observed for DTF (days to flowering) between regions on chromosome 2 flanked by markers RM154-RM324 and RM263-RM573 and major epistatic QTL for GY showing interaction between genomic locations on chromosome 1 at marker interval RM488-RM315 and chromosome 2 at RM324-RM263 in 2012 DS and 2013 DS RS in Kali Aus/2*IR64 mapping populations.The QTL, qDTY1.2, qDTY1.3, qDTY2.2, and qDTY2.3, identified in this study can be used to improve GY of mega varieties MTU1010 and IR64 under different degrees of severity of drought stress through marker-aided backcrossing and provide farmers with improved varieties that effectively combine high yield potential with good yield under drought.

View Article: PubMed Central - HTML - PubMed

Affiliation: Plant Breeding, Genetics, and Biotechnology Division, International Rice Research Institute, DAPO Box 7777, Metro Manila, Philippines. a.kumar@irri.org.

ABSTRACT

Background: Drought is one of the most important abiotic stresses that cause drastic reduction in rice grain yield (GY) in rainfed environments. The identification and introgression of QTL leading to high GY under drought have been advocated to be the preferred breeding strategy to improve drought tolerance of popular rice varieties. Genetic control of GY under reproductive-stage drought stress (RS) was studied in two BC1F4 mapping populations derived from crosses of Kali Aus, a drought-tolerant aus cultivar, with high-yielding popular varieties MTU1010 and IR64. The aim was to identify QTL for GY under RS that show a large and consistent effect for the trait. Bulk segregant analysis (BSA) was used to identify significant markers putatively linked with high GY under drought.

Results: QTL analysis revealed major-effect GY QTL: qDTY1.2, qDTY2.2 and qDTY1.3, qDTY2.3 (DTY; Drought grain yield) under drought consistently over two seasons in Kali Aus/2*MTU1010 and Kali Aus/2*IR64 populations, respectively. qDTY1.2 and qDTY2.2 explained an additive effect of 288 kg ha-1 and 567 kg ha-1 in Kali Aus/2*MTU1010, whereas qDTY1.3 and qDTY2.3 explained an additive effect of 198 kg ha-1 and 147 kg ha-1 in Kali Aus/2*IR64 populations, respectively.Epistatic interaction was observed for DTF (days to flowering) between regions on chromosome 2 flanked by markers RM154-RM324 and RM263-RM573 and major epistatic QTL for GY showing interaction between genomic locations on chromosome 1 at marker interval RM488-RM315 and chromosome 2 at RM324-RM263 in 2012 DS and 2013 DS RS in Kali Aus/2*IR64 mapping populations.

Conclusion: The QTL, qDTY1.2, qDTY1.3, qDTY2.2, and qDTY2.3, identified in this study can be used to improve GY of mega varieties MTU1010 and IR64 under different degrees of severity of drought stress through marker-aided backcrossing and provide farmers with improved varieties that effectively combine high yield potential with good yield under drought. The observed epistatic interaction for GY and DTF will contribute to our understanding of the genetic basis of agronomically important traits and enhance predictive ability at an individualized level in agriculture.

Show MeSH
Related in: MedlinePlus