Broman KW, Wu H, Sen Ś, Churchill GA (2003) R/qtl: QTL mapping in experimental crosses. Bioinformatics 19:889–890. https://doi.org/10.1093/bioinformatics/btg112
Donald CM (1968) The breeding of crop ideotypes. Euphytica 17:385–403. https://doi.org/10.1007/BF00056241
Donald CM, Hamblin J (1976) The biological yield and harvest index of cereals as agronomic and plant breeding criteria. Adv Agron 28:361–405. https://doi.org/10.1016/S0065-2113(08)60559-3
Duan P, Xu J, Zeng D, et al. (2017) Natural variation in the promoter of GSE5 contributes to grain size diversity in rice. Mol Plant.10:685–694.
Fujita D, Santos RE, Ebron LA, et al. (2009) Development of introgression lines of an Indica-type rice variety, IR64, for unique agronomic traits and detection of the responsible chromosomal regions. Field Crop Res 114:244–254. https://doi.org/10.1016/j.fcr.2009.08.004
Fujita D, Santos REM, Ebron LA, et al. (2010) Characterization of introgression lines for yield-related traits with Indica-type rice variety IR64 genetic background. Japan Agric Res Q 44:277–290.
Hay RKM (1995) Harvest index: A review of its use in plant breeding and crop physiology. Ann Appl Biol 126:197–216.
Hittalmani S, Huang N, Courtois B, et al. (2003) Identification of QTL for growth- and grain yield-related traits in rice across nine locations of Asia. Theor Appl Genet 107:679–690.
Iizumi T, Yokozawa M, Nishimori M (2011) Probabilistic evaluation of climate change impacts on paddy rice productivity in Japan. Clim Change 107:391–415.
Ishimaru T, Qin J, Sasaki K, et al. (2017) Physiological and morphological characterization of a high-yielding rice introgression line, YTH183, with genetic background of Indica Group cultivar, IR 64. Field Crop Res 213:89–99.
Kano-Nakata M, Gowda VRP, Henry A, et al. (2013) Functional roles of the plasticity of root system development in biomass production and water uptake under rainfed lowland conditions. Field Crop Res 144:288–296. https://doi.org/10.1016/j.fcr.2013.01.024
Kato Y, Henry A, Fujita D, et al. (2011) Physiological characterization of introgression lines derived from an indica rice cultivar, IR 64, adapted to drought and water-saving irrigation. Field Crop Res 123:130–138. https://doi.org/10.1016/j.fcr.2011.05.009
Khush GS (1995) Breaking the yield frontier of rice. GeoJournal 35:329–332. https://doi.org/10.1007/BF00989140
Laza MR, Kondo M, Ideta O, et al. (2006) Identification of quantitative trait loci for δ13C and productivity in irrigated lowland rice. Crop Sci 46:763–773. https://doi.org/10.2135/cropsci2005.05.0084
Li X, Yan W, Agrama H, et al. (2012) Unraveling the complex trait of harvest index with association mapping in rice (Oryza sativa L.). PLoS One 7: e29350. https://doi.org/10.1371/journal.pone.0029350
Liu J, Chen J, Zheng X, et al. (2017) GW5 acts in the brassinosteroid signalling pathway to regulate grain width and weight in rice. Nat Plants 3:1–7. https://doi.org/10.1038/nplants.2017.43
Marri PR, Sarla N, Reddy L V., Siddiq EA (2005) Identification and mapping of yield and yield related QTLs from an Indian accession of Oryza rufipogon. BMC Genet 6: 33. https://doi.org/10.1186/1471-2156-6-33
McCouch SR, Zhao K, Wright M, et al. (2010) Development of genome-wide SNP assays for rice. Breed Sci 60:524–535.
Monna L, Kitazawa N, Yoshino R, et al. (2002) Positional cloning of rice semidwarfing gene, sd-1: Rice “green revolution gene” encodes a mutant enzyme involved in gibberellin synthesis. DNA Res 9:11–17.
Obara M, Ishimaru T, Abiko T, et al. (2014) Identification and characterization of quantitative trait loci for root elongation by using introgression lines with genetic background of Indica-type rice variety IR64. Plant Biotechnol Rep 8:267–277. https://doi.org/10.1007/s11816-014-0320-9
Peng S, Khush GS, Cassman KG (1994) Evolution of the new plant ideotype for increased yield potential. In: Cassman KG (Ed.) Breaking the Yield Barrier: Proceedings of a workshop on rice yield potential in favorable environments, IRRI, November 29 – December 4, 1993. International Rice Research Institute, Los Baños, Philippines, pp 5–20.
Peng S, Huang J, Sheehy JE, et al. (2004) Rice yields decline with higher night temperature from global warming. Proc Natl Acad Sci U S A 101: 9971–9975.
Peng S, Khush GS, Virk P, et al. (2008) Progress in ideotype breeding to increase rice yield potential. Field Crop Res 108:32–38.
Sabouri H, Sabouri A, Dadras AR (2009) Genetic dissection of biomass production, harvest index and panicle characteristics in indica-indica crosses of Iranian rice (Oryza sativa L.) cultivars. Aust J Crop Sci 3:155–166.
Shomura A, Izawa T, Ebana K, et al. (2008) Deletion in a gene associated with grain size increased yields during rice domestication. Nat Genet 40:1023–1028. https://doi.org/10.1038/ng.169
Sinclair TR (1998) Historical changes in harvest index and crop nitrogen accumulation. Crop Sci 38:638–643. https://doi.org/10.2135/cropsci1998.0011183X003800030002x
Takai T, Lumanglas P, Simon EV, et al. (2019) Identifying key traits in high-yielding rice cultivars for adaptability to both temperate and tropical environments. Crop J 7:685–693.
Tanabata T, Shibaya T, Hori K, et al. (2012) SmartGrain: High-throughput phenotyping software for measuring seed shape through image analysis. Plant Physiol 160:1871–1880.
Uddin MN, Obara M, Yanagihara S, et al. (2016) Genetic characterization of introgression lines with the genetic background of the Indica-type rice (Oryza sativa L.) cultivar IR 64 under irrigated lowland and upland conditions. Field Crop Res 191:168–175.
Welch JR, Vincent JR, Auffhammer M, et al. (2010) Rice yields in tropical/subtropical Asia exhibit large but opposing sensitivities to minimum and maximum temperatures. Proc Natl Acad Sci U S A 107:14562–14567.
Yamakawa H, Hirose T, Kuroda M, Yamaguchi T (2007) Comprehensive expression profiling of rice grain filling-related genes under high temperature using DNA microarray. Plant Physiol 144:258–277.
Yoshida S (1972) Physiological aspects of grain yield. Annu Rev Plant Physiol 23:437–464.
Zenna N, Senthilkumar K, Sie M (2017) Rice production in Africa. In: Chauhan BS, Khawar J, Mahajan G (Eds.) Rice Production Worldwide. Springer International Publishing AG, Cham, Switzerland, pp 117–136.
Zhang S, He X, Zhao J, et al. (2017) Identification and validation of a novel major QTL for harvest index in rice (Oryza sativa L.). Rice 10:44.
Zhang ZH, Li P, Wang LX, et al. (2004) Genetic dissection of the relationships of biomass production and partitioning with yield and yield related traits in rice. Plant Sci 167:1–8.