A QTL for rice grain yield in aerobic environments with large effects in three genetic backgrounds
Tóm tắt
A large-effect QTL associated with grain yield in aerobic environments was identified in three genetic backgrounds, Apo/2*Swarna, Apo/2*IR72, and Vandana/2*IR72, using bulk-segregant analysis (BSA). Apo and Vandana are drought-tolerant aerobic-adapted varieties, while Swarna and IR72 are important lowland rice varieties grown on millions of hectares in Asia but perform poorly in aerobic conditions. Two closely linked rice microsatellite (RM) markers, RM510 and RM19367, located on chromosome 6, were found to be associated with yield under aerobic soil conditions in all three backgrounds. The QTL linked to this marker, qDTY6.1 (DTY, grain yield under drought), was mapped to a 2.2 cM region between RM19367 and RM3805 at a peak LOD score of 32 in the Apo/2*Swarna population. The effect of qDTY6.1 was tested in a total of 20 hydrological environments over a period of five seasons and in five populations in the three genetic backgrounds. In the Apo/2*Swarna population, qDTY6.1 had a large effect on grain yield under favorable aerobic (R
2 ≤ 66%) and irrigated lowland (R
2 < 39%) conditions but not under drought stress; Apo contributed the favorable allele in all the conditions where an effect was observed. In the Apo/IR72 cross, Apo contributed the favorable allele in almost all the aerobic environments in RIL and BC1-derived populations. In the Vandana/IR72 RIL and BC1-derived populations, qDTY6.1 had a strong effect on yield in aerobic drought stress, aerobic non-stress, and irrigated lowland conditions; the Vandana allele was favorable in aerobic environments and the IR72 allele was favorable in irrigated lowland environments. We conclude that qDTY6.1 is a large-effect QTL for rice grain yield under aerobic environments and could potentially be used in molecular breeding of rice for aerobic environments.
Tài liệu tham khảo
Atlin GN, Lafitte HR (2002) Developing and testing rice varieties for water-saving systems in the tropics. In: Bouman BAM, Hengsdijk H, Hardy B, Bindraban PS, Tuong TP, Ladha JK (eds) Water-wise rice production. Proceedings of the international workshop on water-wise rice production, vol 356. IRRI, Los Banos, pp 8–11
Atlin GN, Lafitte HR, Tao D, Laza M, Amante M, Courtois B (2006) Developing rice cultivars for high-fertility upland systems in the Asian tropics. Field Crops Res 97:43–52
Bernier J, Kumar A, Venuprasad R, Spaner D, Atlin G (2007) A large-effect QTL for grain yield under reproductive-stage drought stress in upland rice. Crop Sci 47:507–516
Bouman BAM (2001) Water-efficient management strategies in rice production. Int Rice Res Notes 16:17–22
Bouman BAM, Peng S, Castañeda AR, Visperas RM (2005) Yield and water use of irrigated tropical aerobic rice systems. Agric Water Manage 74:87–105
Castañeda AR, Bouman BAM, Peng S, Visperas RM (2002) The potential of aerobic rice to reduce water use in water-scarce irrigated lowlands in the tropics. In: Bouman BAM, Hengsdijk H, Hardy B, Bindraban PS, Tuong TP, Ladha JK (eds) Water-wise rice production. Proceedings of the international workshop on water-wise rice production. IRRI, Los Banos (8–11 April)
Garrity DP, O’Toole JC (1994) Screening rice for drought resistance at the reproductive phase. Field Crops Res 39:99–110
IRGSP (2005) The map-based sequence of the rice genome. Nature 436:793–800
Kim HJ, Hyun Y, Park JY, Park MJ, Park MK, Kim MD, Kim HJ, Lee MH, Moon J, Lee I, Kim J (2004) A genetic link between cold responses and flowering time through FVE in Arabidopsis thaliana. Nat Genet 36:167–171
Kumar R, Venuprasad R, Atlin GN (2007) Genetic analysis of rainfed lowland rice drought tolerance under naturally-occurring stress in eastern India: heritability and QTL effects. Field Crops Res 103:42–52
Lafitte HR, Courtois B, Arraudeau M (2002) Genetic improvement of rice in aerobic systems: progress from yield to genes. Field Crops Res 75:171–190
Masle J, Gilmore SR, Farquhar D (2005) The ERECTA gene regulates plant transpiration in Arabidopsis. Nature 436:866–870
Matsuo N, Ozawa K, Mochizuki T (2010) Physiological and morphological traits related to water use by three rice (Oryza sativa L.) genotypes grown under aerobic rice systems. Plant Soil 335:349–361
Nelson JC (1997) QGENE: software for marker-based genomic analysis and breeding. Mol Breeding 3:239–245
Peng S, Bouman B, Visperas RM, Castañeda A, Nie L, Park HK (2006) Comparison between aerobic and flooded rice in the tropics: agronomic performance in an eight-season experiment. Field Crops Res 96:252–259
Pinhiero BdaS, de Castro EdaM, Guimaraes CM (2006) Sustainability and profitability of aerobic rice production in Brazil. Field Crops Res 97:34–44
Salunkhe AS, Poornima R, Prince KSJ, Kanagaraj P, Sheeba JA, Amudha K, Suji KK, Senthil A, Babu RC (2011) Fine mapping QTL for drought resistance traits in rice (Oryza sativa L.) using bulk segregant analysis. Mol Biotechnol. doi:10.1007/s12033-011-9382-x
Sambrook J, Fritsch EF, Maniatis T (1989) Molecular cloning: a laboratory manual, 2nd edn. Cold Spring Harbour, NY
SAS Institute Inc (2004) SAS OnlineDoc® 9.1.3. Cary
Temnykh S, Declerck G, Lukashova A, Lipovich L, Cartinhour S, McCouch S (2001) Computational and experimental analysis of microsatellites in rice (Oryza sativa L.): frequency, length variation, transposon associations, and genetic marker potential. Genome Res 11:1441–1452
Venuprasad R (2004) Molecular-marker facilitated investigations into genetics of grain yield and root length under drought stress in rice (O. sativa L.). PhD thesis submitted to University of Agricultural Sciences, Bangalore
Venuprasad R, Lafitte HR, Atlin GN (2007) Response to direct selection for grain yield under drought stress in rice. Crop Sci 47:285–293
Venuprasad R, Sta Cruz MT, Amante M, Magbanua R, Kumar A, Atlin GN (2008) Response to two cycles of divergent selection for grain yield under drought stress in four rice breeding populations. Field Crops Res 107:232–244
Venuprasad R, Bool ME, Dalid CO, Bernier J, Kumar A, Atlin GN (2009a) Genetic loci responding to two cycles of divergent selection for grain yield under drought stress in a rice breeding population. Euphytica 167:261–269
Venuprasad R, Dalid CO, Del Valle M, Bool ME, Zhao D, Espiritu M, Sta Cruz MT, Amante M, Kumar A, Atlin GN (2009b) Identification and characterization of large-effect quantitative trait loci (QTL) for grain yield under lowland drought stress in rice using bulk-segregant analysis (BSA). Theor Appl Genet 120:177–190
Venuprasad R, Impa S, Veeresh Gowda RP, Atlin GN, Serraj R (2011) Rice near-isogenic-lines (NILs) contrasting for grain yield under lowland drought stress. Field Crop Res 123:38–46
Verulkar SB, Mandal NP, Dwivedi JL, Singh BN, Sinha PK, Mahato RN, Swain P, Dongre P, Payasi D, Singh ON, Bose LK, Robin S, Chandrababu R, Senthil S, Jain A, Shashidhar HE, Hittalmani S, Vera Cruz C, Paris T, Robert H, Raman A, Haefele S, Serraj R, Atlin G, Kumar A (2010) Breeding resilient and productive genotypes adapted to drought-prone rainfed ecosystem of India. Field Crop Res. 117:197–208
Wang H, Tang S (2002) Upland rice production in China-its past, today, and future. In: Atlin GN, Lafitte HR, George T (eds) Upland Rice Research Consortium in partnership II. Proceedings of the Upland Rice Research Consortium Meeting, September 4–8, 2000. IRRI, Los Banos
Yano M, Kojima S, Takahashi Y, Lin H, Sasaki T (2001) Genetic control of flowering time in rice, a short-day plant. Plant Physiol 127:1425–1429