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Park JR, Lee CM, Ji H, Baek MK, Seo J, Jeong OY, Park HS. Characterization and QTL Mapping of a Major Field Resistance Locus for Bacterial Blight in Rice. PLANTS 2022; 11:plants11111404. [PMID: 35684177 PMCID: PMC9182613 DOI: 10.3390/plants11111404] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/18/2022] [Revised: 05/23/2022] [Accepted: 05/24/2022] [Indexed: 11/23/2022]
Abstract
Bacterial blight (BB) disease, caused by Xanthomonas oryzae pv. oryzae (Xoo), is among the major factors that can cause rice yields to decrease. To address BB disease, researchers have been looking for ways to change pesticides and cultivation methods, but developing resistant cultivars is the most effective method. However, the resistance and genetic factors of cultivars may be destroyed due to the emergence of new Xoo species caused by recent and rapid climate changes. Therefore, breeders need to identify resistance genes that can be sustained during unpredictable climate changes and utilized for breeding. Here, qBBR11, a quantitative trait locus (QTL) for resistance to BB disease, was detected in KJ (Korea Japonica varieties) 11_067 to KJ11_068 on chromosome 11 in a population derived by crossing JJ (Jeonju) 623 and HR(High resistant)27,195, which possess similar genetic backgrounds but different degrees of resistance to BB disease. qBBR11 was reduced from 18.49–18.69 Mbp of chromosome 11 to 200 kbp segment franked. In this region, 16 candidate genes were detected, and we identified 24 moderate-impact variations and four high-impact variations. In particular, high-impact variations were detected in Os11g0517800 which encode the domain region of GCN2 which is the eIF-2-alpha kinase associated with the resistance of abiotic/biotic stress in rice. In JJ623, which is moderately resistant to BB disease, a stop codon was created due to single nucleotide polymorphism (SNP). Therefore, compared with HR27195, JJ623 has weaker resistance to BB disease, though the two have similar genetic backgrounds. The results suggest that variation in the qBBR11 region regulates an important role in improving resistance to BB diseases, and qBBR11 is useful in providing an important resource for marker-assisted selection to improve mechanisms of resistance to BB disease.
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Affiliation(s)
- Jae-Ryoung Park
- Crop Breeding Division, National Institute of Crop Science, Rural Development Administration, Wanju 55365, Korea; (J.-R.P.); (C.-M.L.); (M.-K.B.); (J.S.); (O.-Y.J.)
| | - Chang-Min Lee
- Crop Breeding Division, National Institute of Crop Science, Rural Development Administration, Wanju 55365, Korea; (J.-R.P.); (C.-M.L.); (M.-K.B.); (J.S.); (O.-Y.J.)
| | - Hyeonso Ji
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Korea;
| | - Man-Kee Baek
- Crop Breeding Division, National Institute of Crop Science, Rural Development Administration, Wanju 55365, Korea; (J.-R.P.); (C.-M.L.); (M.-K.B.); (J.S.); (O.-Y.J.)
| | - Jeonghwan Seo
- Crop Breeding Division, National Institute of Crop Science, Rural Development Administration, Wanju 55365, Korea; (J.-R.P.); (C.-M.L.); (M.-K.B.); (J.S.); (O.-Y.J.)
| | - O-Young Jeong
- Crop Breeding Division, National Institute of Crop Science, Rural Development Administration, Wanju 55365, Korea; (J.-R.P.); (C.-M.L.); (M.-K.B.); (J.S.); (O.-Y.J.)
| | - Hyun-Su Park
- Crop Breeding Division, National Institute of Crop Science, Rural Development Administration, Wanju 55365, Korea; (J.-R.P.); (C.-M.L.); (M.-K.B.); (J.S.); (O.-Y.J.)
- Correspondence: ; Tel.: +82-63-238-5214
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Kato K, Hirayama Y. Development and characterization of chromosome segment substitution lines derived from backcross between japonica donor rice cultivar Yukihikari and japonica recipient cultivar Kirara397. BREEDING SCIENCE 2021; 71:283-290. [PMID: 34377077 PMCID: PMC8329885 DOI: 10.1270/jsbbs.20128] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/18/2020] [Accepted: 12/24/2020] [Indexed: 05/27/2023]
Abstract
Grain yield-related traits and grain quality-related traits are important for rice cultivars. The quantitative trait loci (QTLs) involved in controlling the natural variation in these traits among closely related cultivars are still unclear. The present study describes the development of a novel chromosome segment substitution line (CSSL) population derived from a cross between the temperate japonica cultivars Yukihikari and Kirara397, which are grown in Hokkaido, the northernmost limit for rice cultivation. Days to heading, culm length, panicle length, panicle number, brown grain weight per plant, thousand brown grain weight, brown grain length, brown grain width, brown grain thickness, apparent amylose content, and protein content were evaluated. Panicle length, brown grain length and amylose content differed significantly in the parental cultivars. Thirty-five significant changes in the evaluated traits were identified in the CSSLs. A total of 28 QTLs were located on chromosomes 1, 2, 3, 4, 5, 6, 8, 9, 10, 11 and 12. These findings could be useful for breeding rice cultivars in the northernmost limit for rice cultivation.
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Affiliation(s)
- Kiyoaki Kato
- Department of Agro-Environmental Science, Obihiro University of Agriculture
and Veterinary Medicine, Nishi 2-11 Inada, Obihiro, Hokkaido
080-8555, Japan
| | - Yuji Hirayama
- Rice Breeding Group, Kamikawa Agricultural Experiment Station, Local
Independent Administrative Agency, Hokkaido Research Organization,
Minami 1-5, Pippu, Hokkaido 078-0397, Japan
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Cheon KS, Jeong YM, Oh H, Oh J, Kang DY, Kim N, Lee E, Baek J, Kim SL, Choi I, Yoon IS, Kim KH, Won YJ, Cho YI, Han JH, Ji H. Development of 454 New Kompetitive Allele-Specific PCR (KASP) Markers for Temperate japonica Rice Varieties. PLANTS 2020; 9:plants9111531. [PMID: 33182649 PMCID: PMC7698039 DOI: 10.3390/plants9111531] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/23/2020] [Revised: 11/04/2020] [Accepted: 11/07/2020] [Indexed: 12/02/2022]
Abstract
Temperate japonica rice varieties exhibit wide variation in the phenotypes of several important agronomic traits, including disease resistance, pre-harvest sprouting resistance, plant architecture, and grain quality, indicating the presence of genes contributing to favorable agronomic traits. However, gene mapping and molecular breeding has been hampered as a result of the low genetic diversity among cultivars and scarcity of polymorphic DNA markers. Single nucleotide polymorphism (SNP)-based kompetitive allele-specific PCR (KASP) markers allow high-throughput genotyping for marker-assisted selection and quantitative trait loci (QTL) mapping within closely related populations. Previously, we identified 740,566 SNPs and developed 771 KASP markers for Korean temperate japonica rice varieties. However, additional markers were needed to provide sufficient genome coverage to support breeding programs. In this study, the 740,566 SNPs were categorized according to their predicted impacts on gene function. The high-impact, moderate-impact, modifier, and low-impact groups contained 703 (0.1%), 20,179 (2.7%), 699,866 (94.5%), and 19,818 (2.7%) SNPs, respectively. A subset of 357 SNPs from the high-impact group was selected for initial KASP marker development, resulting in 283 polymorphic KASP markers. After incorporation of the 283 markers with the 771 existing markers in a physical map, additional markers were developed to fill genomic regions with large gaps between markers, and 171 polymorphic KASP markers were successfully developed from 284 SNPs. Overall, a set of 1225 KASP markers was produced. The markers were evenly distributed across the rice genome, with average marker density of 3.3 KASP markers per Mbp. The 1225 KASP markers will facilitate QTL/gene mapping and marker-assisted selection in temperate japonica rice breeding programs.
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Affiliation(s)
- Kyeong-Seong Cheon
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Korea; (K.-S.C.); (H.O.); (J.O.); (D.-Y.K.); (N.K.); (E.L.); (J.B.); (S.L.K.); (I.C.); (I.S.Y.); (K.-H.K.); (J.-H.H.)
| | - Young-Min Jeong
- Seed Industry Promotion Center, Foundation of Agri. Tech. Commercialization & Transfer (FACT), Gimje 54324, Korea;
| | - Hyoja Oh
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Korea; (K.-S.C.); (H.O.); (J.O.); (D.-Y.K.); (N.K.); (E.L.); (J.B.); (S.L.K.); (I.C.); (I.S.Y.); (K.-H.K.); (J.-H.H.)
| | - Jun Oh
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Korea; (K.-S.C.); (H.O.); (J.O.); (D.-Y.K.); (N.K.); (E.L.); (J.B.); (S.L.K.); (I.C.); (I.S.Y.); (K.-H.K.); (J.-H.H.)
| | - Do-Yu Kang
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Korea; (K.-S.C.); (H.O.); (J.O.); (D.-Y.K.); (N.K.); (E.L.); (J.B.); (S.L.K.); (I.C.); (I.S.Y.); (K.-H.K.); (J.-H.H.)
| | - Nyunhee Kim
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Korea; (K.-S.C.); (H.O.); (J.O.); (D.-Y.K.); (N.K.); (E.L.); (J.B.); (S.L.K.); (I.C.); (I.S.Y.); (K.-H.K.); (J.-H.H.)
| | - Eungyeong Lee
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Korea; (K.-S.C.); (H.O.); (J.O.); (D.-Y.K.); (N.K.); (E.L.); (J.B.); (S.L.K.); (I.C.); (I.S.Y.); (K.-H.K.); (J.-H.H.)
| | - Jeongho Baek
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Korea; (K.-S.C.); (H.O.); (J.O.); (D.-Y.K.); (N.K.); (E.L.); (J.B.); (S.L.K.); (I.C.); (I.S.Y.); (K.-H.K.); (J.-H.H.)
| | - Song Lim Kim
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Korea; (K.-S.C.); (H.O.); (J.O.); (D.-Y.K.); (N.K.); (E.L.); (J.B.); (S.L.K.); (I.C.); (I.S.Y.); (K.-H.K.); (J.-H.H.)
| | - Inchan Choi
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Korea; (K.-S.C.); (H.O.); (J.O.); (D.-Y.K.); (N.K.); (E.L.); (J.B.); (S.L.K.); (I.C.); (I.S.Y.); (K.-H.K.); (J.-H.H.)
| | - In Sun Yoon
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Korea; (K.-S.C.); (H.O.); (J.O.); (D.-Y.K.); (N.K.); (E.L.); (J.B.); (S.L.K.); (I.C.); (I.S.Y.); (K.-H.K.); (J.-H.H.)
| | - Kyung-Hwan Kim
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Korea; (K.-S.C.); (H.O.); (J.O.); (D.-Y.K.); (N.K.); (E.L.); (J.B.); (S.L.K.); (I.C.); (I.S.Y.); (K.-H.K.); (J.-H.H.)
| | - Yong Jae Won
- Cheorwon Branch, National Institute of Crop Science, Rural Development Administration (RDA), Cheorwon 24010, Korea;
| | - Young-il Cho
- Seed Business Team, Department of Seed Services, Foundation of Agri. Tech. Commercialization & Transfer (FACT), Iksan 54667, Korea;
| | - Jung-Heon Han
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Korea; (K.-S.C.); (H.O.); (J.O.); (D.-Y.K.); (N.K.); (E.L.); (J.B.); (S.L.K.); (I.C.); (I.S.Y.); (K.-H.K.); (J.-H.H.)
| | - Hyeonso Ji
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju 54874, Korea; (K.-S.C.); (H.O.); (J.O.); (D.-Y.K.); (N.K.); (E.L.); (J.B.); (S.L.K.); (I.C.); (I.S.Y.); (K.-H.K.); (J.-H.H.)
- Correspondence:
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Cheon KS, Won YJ, Jeong YM, Lee YY, Kang DY, Oh J, Oh H, Kim SL, Kim N, Lee E, Yoon IS, Choi I, Baek J, Kim KH, Park HS, Ji H. QTL mapping for pre-harvest sprouting resistance in japonica rice varieties utilizing genome re-sequencing. Mol Genet Genomics 2020; 295:1129-1140. [PMID: 32458040 PMCID: PMC7391406 DOI: 10.1007/s00438-020-01688-4] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/10/2020] [Accepted: 05/11/2020] [Indexed: 11/29/2022]
Abstract
Pre-harvest sprouting (PHS) leads to serious economic losses because of reductions in yield and quality. To analyze the quantitative trait loci (QTLs) for PHS resistance in japonica rice, PHS rates on panicles were measured in 160 recombinant inbred lines (RILs) derived from a cross between the temperate japonica varieties Odae (PHS resistant) and Unbong40 (PHS susceptible) under two different environmental conditions—field (summer) and greenhouse (winter) environments. Genome re-sequencing of the parental varieties detected 266,773 DNA polymorphisms including 248,255 single nucleotide polymorphisms and 18,518 insertions/deletions. We constructed a genetic map comprising 239 kompetitive allele-specific PCR and 49 cleaved amplified polymorphic sequence markers. In the field environment, two major QTLs, qPHS-3FD and qPHS-11FD, were identified on chromosomes 3 and 11, respectively, whereas three major QTLs, qPHS-3GH, qPHS-4GH, and qPHS-11GH, were identified on chromosomes 3, 4, and 11, respectively, in the greenhouse environment. qPHS-11GH and qPHS-11FD had similar locations on chromosome 11, suggesting the existence of a gene conferring stable PHS resistance effects under different environmental conditions. The QTLs identified in this study can be used to improve the PHS resistance of japonica varieties, and they may improve our understanding of the genetic basis of PHS resistance.
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Affiliation(s)
- Kyeong-Seong Cheon
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju, 54874, South Korea
| | - Yong Jae Won
- Cheorwon Branch, National Institute of Crop Science, Rural Development Administration (RDA), Cheorwon, 24010, South Korea
| | - Young-Min Jeong
- Seed Industry Promotion Center, Foundation of Agri. Tech. Commercialization & Transfer (FACT), Gimje, 54324, South Korea
| | - Youn-Young Lee
- Seed Industry Promotion Center, Foundation of Agri. Tech. Commercialization & Transfer (FACT), Gimje, 54324, South Korea
| | - Do-Yu Kang
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju, 54874, South Korea
| | - Jun Oh
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju, 54874, South Korea
| | - Hyoja Oh
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju, 54874, South Korea
| | - Song Lim Kim
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju, 54874, South Korea
| | - Nyunhee Kim
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju, 54874, South Korea
| | - Eungyeong Lee
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju, 54874, South Korea
| | - In Sun Yoon
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju, 54874, South Korea
| | - Inchan Choi
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju, 54874, South Korea
| | - Jeongho Baek
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju, 54874, South Korea
| | - Kyung-Hwan Kim
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju, 54874, South Korea
| | - Hyun-Su Park
- Crop Breeding Division, National Institute of Crop Science, Rural Development Administration (RDA), Wanju, 55365, South Korea
| | - Hyeonso Ji
- Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration (RDA), Jeonju, 54874, South Korea.
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Nonoue Y, Hori K, Ono N, Shibaya T, Ogiso-Tanaka E, Mizobuchi R, Fukuoka S, Yano M. Detection of heading date QTLs in advanced-backcross populations of an elite indica rice cultivar, IR64. BREEDING SCIENCE 2019; 69:352-358. [PMID: 31481845 PMCID: PMC6711732 DOI: 10.1270/jsbbs.18172] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/26/2018] [Accepted: 02/12/2019] [Indexed: 05/24/2023]
Abstract
IR64 is one of the world's most popular rice cultivars. To collect genetic factors involved in controlling its heading date, we developed 70 reciprocal advanced-backcross populations with a total of 6284 individuals at the BC4F2 generation from crosses between Koshihikari and IR64. We detected 29 QTLs associated with heading date on chromosomes 3, 5-8, 10, and 12. Twenty QTLs were located in the same chromosome regions as previously isolated heading date genes (Hd1, Hd6, Hd16, Ghd7, DTH8, Hd17, and Hd18). The rest were located in other chromosome regions. We found more number of QTLs than previous studies using mapping populations of IR64. Fine mapping in additional advanced-backcross populations clearly revealed that QTLs on the long arm of chromosome 7 are overlapping and seem to be a novel genetic factor for heading date because of their different locations from OsPRR37. Our results suggest that the difference in heading date between IR64 and Koshihikari is genetically controlled by many factors, and that a non-functional allele of Hd1 contributes to early heading of IR64 in the genetic background of functional alleles of other heading date QTLs and genes such as Hd6 and Hd16.
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Affiliation(s)
- Yasunori Nonoue
- National Agriculture and Food Research Organization (NARO), Institute of Crop Science,
2-1-2 Kannondai, Tsukuba, Ibaraki 305-8518,
Japan
- National Institute of Agrobiological Sciences,
2-1-2 Kannondai, Tsukuba, Ibaraki 305-8602,
Japan
| | - Kiyosumi Hori
- National Agriculture and Food Research Organization (NARO), Institute of Crop Science,
2-1-2 Kannondai, Tsukuba, Ibaraki 305-8518,
Japan
- National Institute of Agrobiological Sciences,
2-1-2 Kannondai, Tsukuba, Ibaraki 305-8602,
Japan
| | - Nozomi Ono
- National Institute of Agrobiological Sciences,
2-1-2 Kannondai, Tsukuba, Ibaraki 305-8602,
Japan
| | - Taeko Shibaya
- National Institute of Agrobiological Sciences,
2-1-2 Kannondai, Tsukuba, Ibaraki 305-8602,
Japan
| | - Eri Ogiso-Tanaka
- National Agriculture and Food Research Organization (NARO), Institute of Crop Science,
2-1-2 Kannondai, Tsukuba, Ibaraki 305-8518,
Japan
- National Institute of Agrobiological Sciences,
2-1-2 Kannondai, Tsukuba, Ibaraki 305-8602,
Japan
| | - Ritsuko Mizobuchi
- National Agriculture and Food Research Organization (NARO), Institute of Crop Science,
2-1-2 Kannondai, Tsukuba, Ibaraki 305-8518,
Japan
- National Institute of Agrobiological Sciences,
2-1-2 Kannondai, Tsukuba, Ibaraki 305-8602,
Japan
| | - Shuichi Fukuoka
- National Agriculture and Food Research Organization (NARO), Institute of Crop Science,
2-1-2 Kannondai, Tsukuba, Ibaraki 305-8518,
Japan
- National Institute of Agrobiological Sciences,
2-1-2 Kannondai, Tsukuba, Ibaraki 305-8602,
Japan
| | - Masahiro Yano
- National Agriculture and Food Research Organization (NARO), Institute of Crop Science,
2-1-2 Kannondai, Tsukuba, Ibaraki 305-8518,
Japan
- National Institute of Agrobiological Sciences,
2-1-2 Kannondai, Tsukuba, Ibaraki 305-8602,
Japan
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Kimura K, Hori K, Yonezawa K, Nishibori F, Oka D, Iijima K, Saito A, Tsujii Y, Takano K. Effect of Good Eating Quality Gene Loci of Koshihikari on the Composition of Low Molecular Weight Compounds of Polished and Cooked Rice. J JPN SOC FOOD SCI 2019. [DOI: 10.3136/nskkk.66.159] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Affiliation(s)
- Keiichi Kimura
- Department of Agricultural Chemistry, Graduate School of Agriculture, Tokyo University of Agriculture
| | - Kiyosumi Hori
- Institute of Crop Science, National Agriculture and Food Research Organization
| | - Kayo Yonezawa
- Department of Agricultural Chemistry, Faculty of Applied Biosciences, Tokyo University of Agriculture
| | - Fumiya Nishibori
- Food Processing Technology Center, Faculty of Applied Bioscience, Tokyo University of Agriculture
| | - Daiki Oka
- Department of Agricultural Chemistry, Faculty of Applied Biosciences, Tokyo University of Agriculture
| | - Ken Iijima
- Institute of Crop Science, National Agriculture and Food Research Organization
| | - Akihiro Saito
- Department of Agricultural Chemistry, Faculty of Applied Biosciences, Tokyo University of Agriculture
| | - Yoshimasa Tsujii
- Department of Agricultural Chemistry, Faculty of Applied Biosciences, Tokyo University of Agriculture
| | - Katsumi Takano
- Department of Agricultural Chemistry, Faculty of Applied Biosciences, Tokyo University of Agriculture
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Iijima K, Suzuki K, Hori K, Ebana K, Kimura K, Tsujii Y, Takano K. Endosperm enzyme activity is responsible for texture and eating quality of cooked rice grains in Japanese cultivars. Biosci Biotechnol Biochem 2018; 83:502-510. [PMID: 30458671 DOI: 10.1080/09168451.2018.1547624] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
Abstract
Eating quality of cooked rice grains is an important determinant of its market price and consumer acceptance. To comprehensively assess the variation of eating-quality traits in 152 Japanese rice cultivars, we evaluated activities of eight endosperm enzymes related to degradation of starch and cell-wall polysaccharides. Endosperm enzyme activities showed a wide range of variations and were lower in recently developed cultivars than in landraces and old improved cultivars. Activities of most endosperm enzymes correlated significantly with the eating-quality score and surface texture of cooked rice grains. Principal component analysis revealed that rice cultivars with high eating-quality scores had high stickiness of the grain surface and low levels of endosperm enzyme activities. These results suggest that endosperm enzyme activities control texture and eating quality of cooked rice grains in Japanese rice cultivars.
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Affiliation(s)
- Ken Iijima
- a Institute of Crop Science , National Agriculture and Food Research Organization (NARO) , Tsukuba , Ibaraki , Japan
| | - Keitaro Suzuki
- a Institute of Crop Science , National Agriculture and Food Research Organization (NARO) , Tsukuba , Ibaraki , Japan
| | - Kiyosumi Hori
- a Institute of Crop Science , National Agriculture and Food Research Organization (NARO) , Tsukuba , Ibaraki , Japan
| | - Kaworu Ebana
- b Genetic Resources Center , NARO , Tsukuba , Japan
| | - Keiichi Kimura
- c Department of Agricultural Chemistry , Tokyo University of Agriculture , Tokyo , Japan
| | - Yoshimasa Tsujii
- c Department of Agricultural Chemistry , Tokyo University of Agriculture , Tokyo , Japan
| | - Katsumi Takano
- c Department of Agricultural Chemistry , Tokyo University of Agriculture , Tokyo , Japan
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Kobayashi A, Hori K, Yamamoto T, Yano M. Koshihikari: a premium short-grain rice cultivar - its expansion and breeding in Japan. RICE (NEW YORK, N.Y.) 2018; 11:15. [PMID: 29629486 PMCID: PMC5890008 DOI: 10.1186/s12284-018-0207-4] [Citation(s) in RCA: 50] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/05/2017] [Accepted: 03/11/2018] [Indexed: 05/10/2023]
Abstract
Koshihikari, a Japanese short-grain rice cultivar, was developed in 1956, more than 60 years ago. Despite its age, it has been the most widely grown cultivar in Japan for more than 35 years, making it the most important rice for the Japanese people. In its early days, there was no reason to predict that Koshihikari would become so widely disseminated. However, since the end of the post-World War II food shortage in the 1960s, Japanese preferences changed from high productivity to good eating quality. This triggered wide expansion of Koshihikari cultivation due to the cultivar's excellent taste and texture. With increasing cultivation of Koshihikari in Japan, several good agronomic characteristics beyond its high eating quality became apparent, such as its good adaptation to different environments, tolerance to pre-harvest sprouting, and cold tolerance during the booting stage. These characteristics outweigh drawbacks such as its low blast resistance and low lodging resistance. The popularity of Koshihikari influenced subsequent rice breeding trends at regional agricultural experimental stations, and the characteristics of newly developed rice cultivars in Japan are usually rated relative to Koshihikari, which is used as the benchmark. Koshihikari was the first japonica rice cultivar whose whole genome has been sequenced by means of next-generation sequencing. Furthermore, comparison of the genomes of Koshihikari and Nipponbare has provided detailed insights into the genetic diversity of Japanese rice cultivars relative to that in rice populations elsewhere in the world. Further progress in rice genomics is gradually unlocking the mechanisms that underlie the agronomic characteristics of Koshihikari. To support both research and the development of novel rice cultivars, a series of isogenic and near-isogenic lines in the Koshihikari genetic background have been continuously developed. These new findings and materials will facilitate genomics-assisted rice breeding, eventually leading to superior cultivars.
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Affiliation(s)
- Asako Kobayashi
- Fukui Agricultural Experiment Station, 52-21 Ryomachi, Fukui, 918-8215 Japan
| | - Kiyosumi Hori
- National Agriculture and Food Research Organization (NARO), Institute of Crop Science, 2-1-2, Kannondai, Tsukuba, Ibaraki, 305-8518 Japan
| | - Toshio Yamamoto
- National Agriculture and Food Research Organization (NARO), Institute of Crop Science, 2-1-2, Kannondai, Tsukuba, Ibaraki, 305-8518 Japan
| | - Masahiro Yano
- National Agriculture and Food Research Organization (NARO), Institute of Crop Science, 2-1-2, Kannondai, Tsukuba, Ibaraki, 305-8518 Japan
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