Multiple major QTL lead to stable yield performance of rice cultivars across varying drought intensities

BMC Genetics

Volumn 15, Issue , 2014, Pages

  Dixit, Shalabh ^a   Singh, Anshuman ^a   Sta Cruz, Ma T ^a   Maturan, Paul T ^a   Amante, Modesto ^a   Kumar, Arvind ^a  

^a INTERNATIONAL RICE RESEARCH INSTITUTE   (Philippines)

Author keywords

Drought; Grain yield; QTL; Rice; Stability

Indexed keywords

AGRICULTURAL IRRIGATION; BREEDING; CHROMOSOME MAPPING; DROUGHTS; ECOSYSTEM; GENOTYPE; MODELS, STATISTICAL; ORYZA SATIVA; PHENOTYPE; QUANTITATIVE TRAIT LOCI; SEEDS; STRESS, PHYSIOLOGICAL;

EID: 84893162902     PISSN: None     EISSN: 14712156     Source Type: Journal    
DOI: 10.1186/1471-2156-15-16     Document Type: Article

References (30)

1. Kumar V, Ladha JK. Direct seeding of rice: recent developments and future research needs. Adv Agron 2011, 111. DOI: 10.1016/B978-0-12-387689-8.00001-1.
2. Wassmann R, Jagadish SVK, Sumfleth K, Pathak H, Howell G, Ismail A, Serraj R, Redoña E, Singh RK, Heuer S. Regional vulnerability of climate change impacts on Asian rice production and scope for adaptation. Adv Agron 2009, 102:91-133.
3. Bates BC, Kundzewicz ZW, Wu S, Palutikof JP. Climate Change and Water. Technical Paper of the Intergovernmental Panel on Climate Change 2008, 210. Geneva: IPCC Secretariat, http://www.ipcc.ch/pdf/technical-papers/climate-change-water-en.pdf.
4. Molden D, Frenken K, Barker R, de Fraiture C, Mati B, Svendsen M, Sadoff C, Finlayson CM, Attapatu S, Giordano M, Inocencio A, Lannerstad M, Manning N, Molle F, Smedema B, Vallée D. Trends in water and agriculture development. In Water for food, water for life: A comprehensive assessment of water management in agriculture 2007, 57-89. Colombo, and London: Earthscan: International Water Management Institute.
5. Vikram P, Mallikarjuna Swamy BP, Dixit S, Ahmed HU, Sta Cruz MT, Singh AK, Kumar A. qDTY1.1, a major QTL for rice grain yield under reproductive-stage drought stress with a consistent effect in multiple elite genetic backgrounds. BMC Genet 2011, 12:89. 3234187, 22008150.
6. Kumar A, Bernier J, Verulkar S, Lafitte HR, Atlin GN. Breeding for drought tolerance: direct selection for yield, response to selection and use of drought-tolerant donors in upland and lowland-adapted populations. Field Crops Res 2008, 107:221-231.
7. Venuprasad R, Lafitte HR, Atlin GN. Response to direct selection for grain yield under drought stress in rice. Crop Sci 2007, 47:285-293.
8. Venuprasad R, Sta Cruz MT, Amante M, Magbanua R, Kumar A, Atlin GN. Response to two cycles of divergent selection for grain yield under drought stress in four rice breeding populations. Field Crops Res 2008, 107:232-244.
9. Bernier J, Kumar A, Venuprasad R, Spaner D, Atlin GN. A large-effect QTL for grain yield under reproductive-stage drought stress in upland rice. Crop Sci 2007, 47:507-516.
10. Venuprasad R, Dalid CO, Del Valle M, Zhao D, Espiritu M, Sta Cruz MT, Amante M, Kumar A, Atlin GN. Identification and characterization of large-effect quantitative trait loci for grain yield under lowland drought stress in rice using bulk-segregant analysis. Theor Appl Genet 2009, 120:177-190. 10.1007/s00122-009-1168-1, 19841886.
11. Venuprasad R, Bool ME, Quiatchon L, Atlin GN. A QTL for rice grain yield in aerobic environments with large effects in three genetic backgrounds. Theor Appl Genet 2012, 124:323-332. 10.1007/s00122-011-1707-4, 21938473.
12. Ghimire KH, Quiatchon LA, Vikram P, Mallikarjuna Swamy BP, Dixit S, Ahmed H, Hernandez JE, Borromeo TH, Kumar A. Identification and mapping of a QTL (qDTY1.1) with a consistent effect on grain yield under drought. Field Crops Res 2012, 131:88-96.
13. Mishra KK, Vikram P, Yadaw RB, Swamy BPM, Dixit S, Sta Cruz MT, Maturan P, Marker S, Kumar A. qDTY 12.1 : a locus with a consistent effect on grain yield under drought in rice. BMC Genet 2013, 14:12. 3616849, 23442150.
14. Yadav RB, Dixit S, Raman A, Mishra KK, Vikram P, Swamy BPM, Sta Cruz MT, Maturan PT, Pandey M, Kumar A. A QTL for high grain yield under lowland drought in the background of popular rice variety Sabitri from Nepal. Field Crops Res 2013, 144:281-287.
15. Bernier J, Kumar A, Venuprasad R, Spaner D, Verulkar S, Mandal NP, Sinha PK, Peeraju P, Dongre PR, Mahto RN, Atlin G. Characterization of the effect of a QTL for drought resistance in rice, qtl12.1, over a range of environments in the Philippines and eastern India. Euphytica 2009, 166:207-217.
16. Swamy BPM, Ahmed HU, Henry A, Mauleon R, Dixit S, Vikram P, Tilatto R, Verulkar SB, Perraju P, Mandal NP, Variar M, Robin S, Chandrababu R, Singh ON, Dwivedi JL, Das SP, Mishra KK, Yadaw RB, Aditya TL, Karmakar B, Satoh K, Moumeni A, Kikuchi S, Leung H, Kumar A. Genetic, physiological, and gene expression analyses reveal that multiple QTL enhance yield of rice mega- variety IR64 under drought. Plos One 2013, 8(5):e62795. 10.1371/journal.pone.0062795, 3648568, 23667521.
17. Vikram P, Swamy BPM, Dixit S, Ahmed HU, Sta Cruz MT, Singh AK, Ye G, Kumar A. Bulk segregant analysis: an effective approach for mapping drought grain yield QTLs in rice. Field Crops Res 2012, 134:185-192.
18. Wissuwa M, Yano M, Ae N. Mapping of QTLs for phosphorus deficiency tolerance in rice (Oryza sativa L.). Theor Appl Genet 1998, 97:777-783.
19. Yano M, Kojima S, Takahashi Y, Lin H, Sasaki T. Genetic control of flowering time in rice, a short-day plant. Plant Physiol 2001, 127:1425-1429. 10.1104/pp.010710, 1540174, 11743085.
20. Dasgupta T, Hossain SA, Meharg AA, Price AH. An arsenate tolerance gene on chromosome 6 of rice. New Phytol 2004, 163:45-49.
21. Dixit S, Mallikarjuna Swamy BP, Vikram P, Ahmed HU, Sta Cruz MT, Amante M, Atri D, Leung H, Kumar A. Fine mapping of QTLs for rice grain yield under drought reveals sub-QTLs conferring a response to variable drought severities. Theor Appl Genet 2012, 125:155-169. 10.1007/s00122-012-1823-9, 22361948.
22. Lafitte HR, Price AH, Courtois B. Yield response to water deficit in an upland rice mapping population: associations among traits and genetic markers. Theor Appl Genet 2004, 109:1237-1246. 10.1007/s00122-004-1731-8, 15490102.
23. SAS Institute Inc SAS online doc® 9.1.3 2004, Cary, NC, USA: SAS Institute Inc, SAS Institute Inc.
24. Zobel RW, Wright MJ, Gauch HG. Statistical analysis of a yield trial. Agron J 1988, 80:388-393.
25. Gauch HG. Statistical analysis of regional trials. AMMI analysis of factorial design 1992, New York, USA: Elsevier, 1.
26. Panaud O, Chen X, McCouch S. Development of microsatellite markers and characterization of simple sequence length polymorphism (SSLP) in rice (Oryza sativa L.). Mol Gen Genet 1996, 252:597-607.
27. Sambrook J, Fritsch EF, Maniatis T. Molecular cloning: a laboratory manual 1989, New York, USA: Cold Spring Harbor, 2.
28. IRGSP (International Rice Genome Sequencing Project) The map-based sequence of the rice genome. Nature 2005, 436:793-800. 10.1038/nature03895, 16100779, IRGSP (International Rice Genome Sequencing Project).
29. Joehanes R, Nelson JC. QGene 4.0, an extensible Java QTL-analysis platform. Bioinformatics 2008, 24:2788-2789. 10.1093/bioinformatics/btn523, 18940826.
30. Berloo RV. GGT 2.0: versatile software for visualization and analysis of genetic data. J Heredity 2008, 99(2):232-236.