Juliano BO, Villareal CP. Grain quality evaluation of world Rices. Manila: International Rice Research Institute; 1993.
Yamakawa H, Hirose T, Kuroda M, Yamaguchi T. Comprehensive expression profiling of rice grain filling-related genes under high temperature using DNA microarray. Plant Physiol. 2007;144:258–77.
Zhang C, Zhou L, Zhu Z, Lu H, Zhou X, Qian Y, Li Q, Lu Y, Gu M, Liu Q. Characterization of grain quality and starch fine structure of two japonica rice (Oryza sativa) cultivars with good sensory properties at different temperatures during the filling stage. J Agr Food Chem. 2016;64:4048–57.
He P, Li SG, Qian Q, Ma YQ, Li JZ, Wang WM, Chen Y, Zhu LH. Genetic analysis of rice grain quality. Theor Appl Genet. 1999;98:502–8.
Tan YF, Li JX, Yu SB, Xing YZ, Xu CG, Zhang Q. The three important traits for cooking and eating quality of rice grains are controlled by a single locus in an elite rice hybrid, Shanyou 63. Theor Appl Genet. 1999;99:642–8.
Fan CC, Yu XQ, Xing YZ, Xu CG, Luo LJ, Zhang Q. The main effects, epistatic effects and environmental interactions of QTLs on the cooking and eating quality of rice in a doubled-haploid line population. Theor Appl Genet. 2005;110:1445–52.
Li Z, Wan J, Xia J, Yano M. Mapping of quantitative trait loci controlling physico-chemical properties of rice grains (Oryza sativa L.). Breeding Sci. 2003;53:209–15.
Wang ZY, Zheng FQ, Shen GZ, Gao JP, Snustad DP, Li MG, Zhang JL, Hong MM. The amylose content in rice endosperm is related to the post-transcriptional regulation of the waxy gene. Plant J. 1995;7:613–22.
Cai XL, Wang ZY, Xing YY, Zhang JL, Hong MM. Aberrant splicing of intron 1 leads to the heterogeneous 5′ UTR and decreased expression of waxy gene in rice cultivars of intermediate amylose content. Plant J. 1998;14:459–65.
Larkin PD, Park WD. Transcript accumulation and utilization of alternate and non-consensus splice sites in rice granule-bound starch synthase are temperature-sensitive and controlled by a single-nucleotide polymorphism. Plant Mol Biol. 1999;40:719–27.
Sano Y. Differential regulation of waxy gene expression in rice endosperm. Theor Appl Genet. 1984;68:467–73.
Tian Z, Qian Q, Liu Q, Yan M, Liu X, Yan C, Liu G, Gao Z, Tang S, Zeng D, Wang Y, Yu J, Gu M, Li J. Allelic diversities in rice starch biosynthesis lead to a diverse array of rice eating and cooking qualities. Proc Natl Acad Sci. 2009;106:21760–5.
Hori Y, Fujimoto R, Sato Y, Nishio T. A novel wx mutation caused by insertion of a retrotransposon-like sequence in a glutinous cultivar of rice (Oryza sativa). Theor Appl Genet. 2007;115:217–24.
Liu L, Ma X, Liu S, Zhu C, Jiang L, Wang Y, Shen Y, Ren Y, Dong H, Chen L, Liu X, Zhao Z, Zhai H, Wan J. Identification and characterization of a novel Waxy allele from a Yunnan rice landrace. Plant Mol Biol. 2009;71:609–26.
Mikami I, Aikawa M, Hirano HY, Sano Y. Altered tissue-specifical expression at the Wx gene of the opaque mutants in rice. Euphytica. 1999;105:91–7.
Mikami I, Uwatoko N, Ikeda Y, Yamaguchi J, Hirano HY, Suzuki Y, Sano Y. Allelic diversification at the wx locus in landraces of Asian rice. Theor Appl Genet. 2008;116:979–89.
Sato H, Suzuki Y, Sakai M, Imbe T. Molecular characterization of Wx-mq, a novel mutant gene for low-amylose content in endosperm of rice (Oryza sativa L.). Breeding Sci. 2002;52:131–5.
Aluko G, Martinez C, Tohme J, Castano C, Bergman C, Oard JH. QTL mapping of grain quality traits from the interspecific cross Oryza sativa x O. glaberrima. Theor Appl Genet. 2004;09:630–9.
Bao JS, Wu YR, Hu B, Wu P, Cui HR, Shu QY. QTL for rice grain quality based on DH population derived from parents with similar apparent amylose content. Euphytica. 2002;128:317–24.
Guo Y, Mu P, Liu J, Lu Y, Li Z. QTL mapping and Q×E interactions of grain cooking and nutrient qualities in rice under upland and lowland environments. J Genet Genomics. 2007;34:420–8.
Huang ZL, Tan XL, Tragoonrung S, Vanavichit A. Mapping QTLs for amylose content of grian with molecular markers in rice (Oryza sativa L.). Acta Agron Sin. 2000;26:777–82 (in Chinese with English abstract).
Swamy BPM, Kaladhar K, Rani NS, Prasad GSV, Viraktamath BC, Reddy GA, Sarla N. QTL analysis for grain quality traits in 2 BC2F2 populations derived from crosses between Oryza sativa cv Swarna and 2 accessions of O. nivara. J Hered. 2012;103:442–52.
Takemoto-Kuno Y, Mitsueda H, Suzuki K, Hirabayashi H, Ideta O, Aoki N, Umemoto T, Ishii T, Ando T, Kato H, Nemoto H, Imbe T, Takeuchi Y. qAC2, a novel QTL that interacts with Wx and controls the low amylose content in rice (Oryza sativa L.). Theor Appl Genet. 2015;128:563–73.
Wan XY, Wan JM, Su CC, Wang CM, Shen WB, Li JM, Wang HL, Jiang L, Liu SJ, Chen LM, Yasui H, Yoshimura A. QTL detection for eating quality of cooked rice in a population of chromosome segment substitution lines. Theor Appl Genet. 2004;110:71–9.
Wang LQ, Liu WJ, Xu Y, He YQ, Luo LJ, Xing YZ, Xu CG, Zhang Q. Genetic basis of 17 traits and viscosity parameters characterizing the eating and cooking quality of rice grain. Theor Appl Genet. 2007;115:463–76.
Zhang H, Duan L, Dai JS, Zhang CQ, Li J, Gu MH, Liu QQ, Zhu Y. Major QTLs reduce the deleterious effects of high temperature on rice amylose content by increasing splicing efficiency of Wx pre-mRNA. Theor Appl Genet. 2014;127:273–82.
Zheng X, Wu JG, Luo XY, Xu HM, Shi CH. The QTL analysis on maternal and endosperm genome and their environmental interactions for characters of cooking quality in rice (Oryza sativa L.). Theor Appl Genet. 2008;116:335–42.
Isshiki M, Nakajima M, Satoh H, Shimamoto K. dull: rice mutants with tissue-specific effects on the splicing of the waxy pre-mRNA. Plant J. 2000;23:451–60.
Isshiki M, Matsuda Y, Tasaki A, Wong HL, Satoh H, Shimamoto K. Du3, a mRNA cap-binding protein gene, regulates amylose content in japonica rice seeds. Plant Biotechnol. 2008;25:483–7.
Zeng D, Yan M, Wang Y, Liu X, Qian Q, Li J. Du1, encoding a novel Prp1 protein, regulates starch biosynthesis through affecting the splicing of Wx
b pre-mRNAs in rice (Oryza sativa L.). Plant Mol Biol. 2007;65:501–9.
Wang JC, Xu H, Zhu Y, Liu QQ, Cai XL. OsbZIP58, a basic leucine zipper transcription factor, regulates starch biosynthesis in rice endosperm. J Exp Bot. 2013;64:3453–66.
Zhang H, Xu H, Feng M, Zhu Y. Suppression of OsMADS7 in rice endosperm stabilizes amylose content under high temperature stress. Plant Biotechnol J. 2018;16:18–26.
Zhu Y, Cai XL, Wang ZY, Hong MM. An interaction between a MYC protein and an EREBP protein is involved in transcriptional regulation of the rice Wx gene. J Biol Chem. 2003;278:47803–11.
Long W, Wang Y, Zhu S, Jing W, Wang Y, Ren Y, Tian Y, Liu S, Liu X, Chen L, Wang D, Zhong M, Zhang Y, Hu T, Zhu J, Hao Y, Zhu X, Zhang W, Wang C, Zhang W, Wan J. FLOURY SHRUNKEN ENDOSPERM1 connects phospholipid metabolism and amyloplast development in rice. Plant Physiol. 2018;177:698–712.
Peng C, Wang Y, Liu F, Ren Y, Zhou K, Lv J, Zheng M, Zhao S, Zhang L, Wang C, Jiang L, Zhang X, Guo X, Bao Y, Wan J. FLOURY ENDOSPERM6 encodes a CBM48 domain-containing protein involved in compound granule formation and starch synthesis in rice ENDOSPERM. Plant J. 2014;77:917–30.
She KC, Kusano H, Koizumi K, Yamakawa H, Hakata M, Imamura T, Fukuda M, Naito N, Tsurumaki Y, Yaeshima M, Tsuge T, Matsumoto K, Kudoh M, Itoh E, Kikuchi S, Kishimoto N, Yazaki J, Ando T, Yano M, Aoyama T, Sasaki T, Satoh H, Shimada H. A novel factor FLOURY ENDOSPERM2 is involved in regulation of rice grain size and starch quality. Plant Cell. 2010;22:3280–94.
Zhang L, Ren Y, Lu B, Yang C, Feng Z, Liu Z, Chen J, Ma W, Wang Y, Yu X, Wang Y, Zhang W, Wang Y, Liu S, Wu F, Zhang X, Guo X, Bao Y, Jiang L, Wan J. FLOURY ENDOSPERM7 encodes a regulator of starch synthesis and amyloplast development essential for peripheral ENDOSPERM development in rice. J Exp Bot. 2016;67:633–47.
Hakata M, Kuroda M, Miyashita T, Yamaguchi T, Kojima M, Sakakibara H, Mitsui T, Yamakawa H. Suppression of alpha-amylase genes improves quality of rice grain ripened under high temperature. Plant Biotechnol J. 2012;10:1110–7.
Sano Y, Maekawa M, Klkuchi H. Temperature effects on the Wx protein level and amylose content in the endosperm of rice. J Hered. 1985;76:221–2.
Nadeau JH, Singer JB, Matin A, Lander ES. Analyzing complex genetic traits with chromosome substitution strains. Nat Genet. 2000;24:221–5.
Singer JB, Hill AE, Burrage LC, Olszens KR, Song J, Justice M, O’Brien WE, Conti DV, Witte JS, Lander ES, Nadeau JH. Genetic dissection of complex traits with chromosome substitution strains of mice. Science. 2004;304:445–8.
Balakrishnan D, Surapaneni M, Mesapogu S, Neelamraju S. Development and use of chromosome segment substitution lines as a genetic resource for crop improvement. Theor Appl Genet. 2019;132:1–25.
Ishikawa S, Ae N, Yano M. Chromosomal regions with quantitative trait loci controlling cadmium concentration in brown rice (Oryza sativa). New Phytol. 2005;168:345–50.
Yang Y, Guo M, Sun S, Zou Y, Yin S, Liu Y, Tang S, Gu M, Yang Z, Yan C. Natural variation of OsGluA2 is involved in grain protein content regulation in rice. Nat Commun. 2019;10:1949.
Liu G, Zhang Z, Zhu H, Zhao F, Ding X, Zeng R, Li W, Zhang G. Detection of QTLs with additive effects and additive-by-environment interaction effects on panicle number in rice (Oryza sativa L.) with single-segment substitution lines. Theor Appl Genet. 2008;116:923–31.
Zhang H, Zhao Q, Sun ZZ, Zhang CQ, Feng Q, Tang SZ, Liang GH, Gu MH, Han B, Liu QQ. Development and high-throughput genotyping of substitution lines carring the chromosome segments of indica 9311 in the background of japonica Nipponbare. J Genet Genomics. 2011;38:603–11.
Zhang H, Zhang CQ, Sun ZZ, Yu W, Gu MH, Liu QQ, Li YS. A major locus qS12, located in a duplicated segment of chromosome 12, causes spikelet sterility in an indica-japonica rice hybrid. Theor Appl Genet. 2011;123:1247–56.
Lumdubwong N, Seib PA. Rice starch isolation by alkaline protease digestion of wet-milled rice flour. J Cereal Sci. 2000;31:63–74.
Zhu LJ, Liu QQ, Sang Y, Gu MH, Shi YC. Underlying reasons for waxy rice flours having different pasting properties. Food Chem. 2010;120:94–100.
Cagampang G, Perez C, Juliano B. A gel consistency test for the eating quality of rice. Sci Food Agric. 1973;24:1589–94.
Little R, Hilder G, Dawson E. Differential effect of dilute alkali on 25 varieties of milled white rice. Cereal Chem. 1958;35:111–26.
Broman KW, Wu H, Sen S, Churchill GA. R/qtl: QTL mapping in experimental crosses. Bioinformatics. 2003;19:889–90.
Haleyand CS, Knott SA. A simple regression method for mapping quantitative trait loci in line crosses using flanking markers. Heredity. 1992;69:315–24.