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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Simple Sequence Repeat (SSR) markers showing significant banding patterns between tail bulks (High – H, and Low – L), parents (Kali Aus – K, MTU1010 – M), (A-G) and (K - Kali Aus/donor parent; I – IR64/sensitive parent) (H-O).
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Figure 1: Simple Sequence Repeat (SSR) markers showing significant banding patterns between tail bulks (High – H, and Low – L), parents (Kali Aus – K, MTU1010 – M), (A-G) and (K - Kali Aus/donor parent; I – IR64/sensitive parent) (H-O).

Mentions: In the Kali Aus/2*MTU1010 mapping population, seven out of the 109 markers used were found significant in BSA. These markers were RM259 (29.18 cM) and RM315 (143.9 cM) on chromosome 1, RM211 (7.92 cM) and RM263 (101.4 cM) on chromosome 2, RM471 (73.8 cM) on chromosome 4, RM253 (21.27 cM) on chromosome 6, and RM234 (99.9 cM) on chromosome 7. These markers showed high-bulk bands and low-bulk bands similar to those of Kali Aus (tolerant, donor) and MTU1010 (sensitive, recipient), respectively (Figure 1). In the Kali Aus/2*IR64 mapping population, eight markers showed differential banding patterns in high and low bulks, which corresponded to those of the tolerant (Kali Aus) and sensitive (IR64) parents (Figure 1). The markers identified were RM259 on chromosome 1, RM573 and RM341 on chromosome 2, RM545 on chromosome 3, RM274 on chromosome 5, RM434 and RM105 on chromosome 9, and RM28089 on chromosome 12.


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)

Simple Sequence Repeat (SSR) markers showing significant banding patterns between tail bulks (High – H, and Low – L), parents (Kali Aus – K, MTU1010 – M), (A-G) and (K - Kali Aus/donor parent; I – IR64/sensitive parent) (H-O).
© Copyright Policy - open-access
Related In: Results  -  Collection

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

Figure 1: Simple Sequence Repeat (SSR) markers showing significant banding patterns between tail bulks (High – H, and Low – L), parents (Kali Aus – K, MTU1010 – M), (A-G) and (K - Kali Aus/donor parent; I – IR64/sensitive parent) (H-O).
Mentions: In the Kali Aus/2*MTU1010 mapping population, seven out of the 109 markers used were found significant in BSA. These markers were RM259 (29.18 cM) and RM315 (143.9 cM) on chromosome 1, RM211 (7.92 cM) and RM263 (101.4 cM) on chromosome 2, RM471 (73.8 cM) on chromosome 4, RM253 (21.27 cM) on chromosome 6, and RM234 (99.9 cM) on chromosome 7. These markers showed high-bulk bands and low-bulk bands similar to those of Kali Aus (tolerant, donor) and MTU1010 (sensitive, recipient), respectively (Figure 1). In the Kali Aus/2*IR64 mapping population, eight markers showed differential banding patterns in high and low bulks, which corresponded to those of the tolerant (Kali Aus) and sensitive (IR64) parents (Figure 1). The markers identified were RM259 on chromosome 1, RM573 and RM341 on chromosome 2, RM545 on chromosome 3, RM274 on chromosome 5, RM434 and RM105 on chromosome 9, and RM28089 on chromosome 12.

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