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    Plant Prime Editing: A New Direction in Crop Breeding
    SONG Anqi, WU Songquan, MA Qiuyue, BAN Wanning, LIU Xiangguo, JIN Yongmei
    Chinese Journal OF Rice Science    2025, 39 (6): 711-730.   DOI: 10.16819/j.1001-7216.2025.241005
    Abstract710)   HTML34)    PDF (2292KB)(554)       Save

    Plant Prime Editing (PPE) provides a novel approach for precise genome modification in plants, overcoming the limitations of conventional gene editing methods that rely on double-strand breaks and exogenous donor DNA. It enables not only arbitrary base substitutions, but also precise insertions and deletions of small to large DNA fragments, with reduced off-target effects. This review systematically summarizes the latest research advances in PPE technology globally, including its development history and working mechanism, applications in crop breeding and trait improvement, and representative cases. It also discusses the expansion of prime editing into large-scale genome editing and multiplex gene editing. To address the bottlenecks faced by PPE systems in plant genetic transformation, several potential solutions are proposed. Finally, the broad application prospects of PPE technology in plant genetic improvement and its potential integration with artificial intelligence (AI) in future research are outlined.

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    Advances in Roles of Different Types of Histone Modifications in Responses of Rice to Abiotic Stresses
    HAO Wenqian, CAI Xingjing, YANG Haidong, WU Yuyang, TENG Xuan, XUE Chao, GONG Zhiyun
    Chinese Journal OF Rice Science    2025, 39 (5): 575-585.   DOI: 10.16819/j.1001-7216.2025.250203
    Abstract572)   HTML34)    PDF (1171KB)(3842)       Save

    As one of the most important food crops in the world, the yield and quality of rice are directly related to global food security. However, rice often faces various abiotic stresses during growth, such as salt stress, drought, low and high temperatures, which seriously compromise the growth, development and yield of rice. In recent years, epigenetics research, especially the role of histone modifications in regulating stress tolerance responses of rice, has attracted increasing attention. This review summarizes the latest research progress in histone modifications in abiotic stress responses in rice, to provide a theoretical basis for genetic improvement and stress resistance breeding of rice.

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    Research Progress on Physiological and Ecological Mechanisms and Regulation Pathways of Yield, Quality and Stress Resistance Response in Perennial Rice
    LU Tingting, YAN Wenhui, SU Xinquan, ZENG Luohua, HUA Liqin, CHEN Jianghua, FENG Baohua, WANG Yuexing, HU Jiang, FU Guanfu
    Chinese Journal OF Rice Science    2025, 39 (5): 586-600.   DOI: 10.16819/j.1001-7216.2025.241012
    Abstract566)   HTML26)    PDF (1756KB)(553)       Save

    Perennial rice, characterized by its "one planting, two or more harvests", has become a crucial component of sustainable agriculture. Significant progress has been made in understanding the physiological and ecological mechanisms and regulation pathways of perennial rice. This study aims to systematically review the current status, yield and quality formation characteristics, physiological and ecological characteristics, and molecular mechanisms of perennial rice, with an in-depth discussion on its response mechanisms to stress conditions. Finally, we summarize the cultivation patterns and regulation strategies of perennial rice, providing theoretical foundations and practical guidance for expanding its planting regions and enhancing the diversity of rice germplasm resources.

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    Research Progress in Regulation of Anthocyanin Accumulation in Colored Rice
    WU Wanting, XU Qian, LIU Dantong, ZHU Changjin, DU Haotian, JU Haoran, HUO Zhongyang, DAI Qigen, LI Guohui, XU Ke
    Chinese Journal OF Rice Science    2025, 39 (5): 601-614.   DOI: 10.16819/j.1001-7216.2025.241206
    Abstract524)   HTML22)    PDF (1641KB)(5496)       Save

    Colored rice is rich in protein, amino acids, cellulose, and essential minerals for the human body. It also contains active substances such as anthocyanins, which have anti-aging, cancer prevention, and antiviral effects, making it widely valued by consumers. This review focuses on summarizing the nutritional and health value of colored rice, and summarizes the accumulation, biosynthesis, and regulation processes of anthocyanins in colored rice from the perspectives of physiological and molecular regulation, as well as the effects of cultivation conditions such as temperature, light, water, and fertilizer level on the accumulation of anthocyanins. Finally, future research directions for colored rice are discussed.

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    Directed Improvement of Hybrid Rice Zhuoliangyou 1126 by Heavy Ion Beam Mutagenesis Based on M1TDS Targeted Screening Technology
    SHAO Ye, HU Yuanyi, PENG Yan, MAO Bigang, LIU Huimin, TANG Chanjuan, LEI Bin, TANG Li, YU Lixia, LI Wenjian, LUO Wuzhong, LUO Zhibin, YUAN Yuantao, LI Yaokui, ZHANG Dan, ZHOU Libin, BAI Lianyang, TANG Wenbang, ZHAO Bingran
    Chinese Journal OF Rice Science    2025, 39 (5): 624-634.   DOI: 10.16819/j.1001-7216.2025.240106
    Abstract522)   HTML11)    PDF (2114KB)(2376)       Save

    Objective】Using the two-line hybrid rice Zhuoliangyou 1126 as the base variety, we aimed to rapidly develop upgraded varieties with traits such as low cadmium accumulation, fragrance, storage tolerance, submergence tolerance, and a low glycemic index.【Method】Zhuo 234S and Xiangnonghui 1126, the parental lines of Zhuoliangyou 1126, were mutagenized using heavy-ion beams. Chimeric mutants of the OsNRAMP5, OsBADH2, OsLOX3, OsPAO5, OsSSIIIa, and OsBEIIb genes were identified in the M1 generation via M1TDS technology. Mutations in the target genes were further detected and isolated in the M2 generation using Kompetitive Allele-Specific PCR (KASP) genotyping. Hybrid rice with low cadmium accumulation was developed by crossing parents carrying OsNRAMP5 mutations.【Results】A total of 13 chimeric mutants involving six target genes were identified in the M1 generation. Among these, seven were confirmed to carry homozygous or heterozygous mutations in the M2 generation. The cadmium content in OsNRAMP5 homozygous mutants was significantly lower than in the wild type, while the content of the aromatic compound 2-acetylpyrroline (2-AP) was significantly higher in OsBADH2 homozygous mutants. When the low-cadmium hybrid rice derived from OsNRAMP5-mutated parents was pot-grown in cadmium-contaminated soil (available Cd: 0.677 mg/kg, pH 5.6), the cadmium content in grains remained consistently below 0.05 mg/kg, compared to 0.91 mg/kg in the wild-type control.【Conclusion】The combination of heavy-ion beam mutagenesis and M1TDS technology enabled the rapid improvement of traits such as low cadmium accumulation in Zhuoliangyou 1126. This study provides a successful example and a general technical reference for transitioning from traditional mutagenesis breeding to directed mutagenesis breeding.

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    Evaluation of SNP Loci for Rice Variety Authenticity Verification
    XU Qun, WANG Shan, YUAN Xiaoping, JIN Shiqiao, JIN Fang, HAO Wanjun, WU Xiaobi, FENG Yue, YU Hanyong, SUN Yanfei, YANG Yaolong, WEI Xinghua
    Chinese Journal OF Rice Science    2025, 39 (5): 635-642.   DOI: 10.16819/j.1001-7216.2025.241114
    Abstract519)   HTML36)    PDF (1365KB)(1341)       Save

    【Objective】 A highly discriminative combination of SNP loci is crucial for developing efficient, accurate, and cost-effective rice variety verification technologies, which can be widely applied in seed regulation, variety breeding and other fields.【Method】 This study established fingerprints for 1,383 inbred and 2,702 hybrid rice varieties using the 96 SNP panel from the agricultural industry standard, designated RGIsnp96.【Result】 The results demonstrated that RGIsnp96 exhibited high polymorphism and strong discriminative power for variety identification. For 1,387 inbred varieties, the heterozygous rate, average polymorphic information content (PIC), and average minor allele frequency (MAF) of SNPs in RGIsnp96 were 0.03, 0.30, and 0.27, respectively. For 2702 hybrid varieties, the corresponding values were 0.39, 0.30, and 0.29, respectively. The identification rates, represented by the proportion of distinguishable variety pairs, for inbred and hybrid rice varieties were 99.94% and 99.99%, respectively. A good equivalence between RGIsnp96 and 48 SSRs in agricultural industry standards (designated RGIssr48 in the following) was evaluated by comparing similarities of variety pairs measured by the two marker sets for both inbred and hybrid varieties. Furthermore, combining RGIsnp96 and RGIssr48, representing different types of markers, could generate better results than using a single type of marker for differentiating certain inbred rice varieties, and corresponding strategies were recommended.【Conclusion】 RGIsnp96 demonstrates exceptional capability in rice variety identification, providing robust technical support for improving rice seed quality, regulating the seed market order, and safeguarding farmers' rights and interests.

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    Functional Study on Aluminum Tolerance of OsAlR1 Gene in Rice
    WANG Jingbo, SU Chang, FENG Jing, JIANG Sixu, XU Hai, CUI Zhibo, ZHAO Minghui
    Chinese Journal OF Rice Science    2025, 39 (5): 615-623.   DOI: 10.16819/j.1001-7216.2025.240510
    Abstract516)   HTML15)    PDF (1429KB)(483)       Save

    【Objective】 With the aggravation of soil acidification, aluminum (Al) toxicity in acidic soil seriously limits the growth and development of rice. Mining Al-tolerant gene resources, analyzing their molecular functions, and breeding Al-tolerant varieties can ensure rice yield in acidic soil. 【Method】 CRISPR/Cas9 technology was used to construct knockout vectors. The overexpression vector was constructed by homologous recombination and Golden Gate seamless cloning. Transgenic materials were obtained by genetic transformation. Homozygous overexpression lines and knockout lines were screened for Al tolerance phenotype analysis and determination of reactive oxygen species (ROS) content and antioxidant enzyme activities.【Result】 qRT-PCR results showed that OsAlR1 expression was induced by Al stress. Knockout of OsAlR1 affected root development in rice. After Al treatment, compared with the wild type, the osalr1-3 and osalr1-6 lines accumulated more Al³⁺ and ROS, while the OE-OsAlR1-5 and OE-OsAlR1-8 lines accumulated less Al³⁺ and ROS. Knockout of OsAlR1 led to decreased glutathione (GSH) content and superoxide dismutase (SOD) activity in roots. qRT-PCR results revealed that genes regulating the phenylpropanoid biosynthesis pathway (OsPAL7, OsHCT4, OsCCR18, Os02g0467600, PRX82, and Os06g0522300) showed significant expression changes in the knockout lines after Al treatment.【Conclusion】 OsAlR1 expression is induced by Al stress, and OsAlR1 alleviates ROS-mediated oxidative stress by increasing GSH content and SOD activity. OsAlR1 may affect Al tolerance in rice by regulating the phenylpropanoid biosynthesis pathway.

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    Flowering Habits of Rice and Its Application in Breeding japonica Cytoplasmic Male Sterile Lines
    CHEN Ling, LIN Wenying, LIANG Limei, OUYANG Younan, YE Shenghai, JI Zhijuan
    Chinese Journal OF Rice Science    2025, 39 (6): 731-743.   DOI: 10.16819/j.1001-7216.2025.241120
    Abstract461)   HTML24)    PDF (1296KB)(508)       Save

    The utilization of heterosis has significantly increased the yield of rice. Hybridization between indica and japonica subspecies exhibits stronger heterosis due to their distant genetic relationships. Consequently, indica-japonica hybrid rice has greater yield potential. Inter-subspecies hybridization between indica and japonica is an important way to enhance rice yields. Currently, indica-japonica hybrid rice mainly refers to the combinations derived from crossing a japonica cytoplasmic male sterility (CMS) line with an indica restorer line. These combinations have received widespread attention in production because of their vigorous growth, ideal plant architecture, resistance to premature senescence, and super high yield advantages. However, the japonica CMS line is characterized by its flowering habits, such as low stigma exsertion rate and late flowering time. These habits lead to asynchronous flowering time between the indica and japonica parental lines and low outcrossing rates in the seed production process. Thus, the yield of seed production is low and unstable, which limits further application of indica-japonica hybrid rice. In this work, we review the influencing factors and genetic mechanisms of rice flowering habits. We also summarize and analyze the application research on these mechanisms in japonica CMS lines. This review provides a reference for promoting the breeding, production, and application of indica-japonica hybrid rice and the sustainable development of hybrid rice.

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    Progress in Molecular Genetic Research on Co-regulation of Grain Yield and Starch Quality in Rice
    LI Xingyi, CHEN Ling, SHAO Jiantao, XIAO Suqin, LI Jinlu, FU Huixian, YIN Fuyou, ZHANG Jianhong, CHENG Zaiquan, LIU Li
    Chinese Journal OF Rice Science    2026, 40 (1): 1-17.   DOI: 10.16819/j.1001-7216.2026.240901
    Abstract436)   HTML22)    PDF (1773KB)(451)       Save

    High yield and quality are two major goals in rice breeding programs. The key challenges facing breeding and functional genomics research in rice are the compatible improvement of both grain yield and quality. This work provides a comprehensive review of the advances in molecular genetic research on the co-regulation of grain yield and starch quality in rice. We summarize the genetic regulation of starch synthesis, scrutinize the molecular mechanisms of grain yield, examine the molecular mechanisms of co-regulation, and investigate the cloning and functional analysis of genes related to grain yield and quality. New approaches are proposed to address the trade-off between grain yield and quality, based on the discussion of previous research. The information will be valuable in overcoming the challenges related to grain yield and quality in rice using molecular breeding technology and will greatly facilitate the development of super rice varieties with high yield and good quality.

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    Cloning of Cold6 Conferring Cold Tolerance in Rice
    TAO Shibo, XU Na, XU Zhengjin, LIU Chang, XU Quan
    Chinese Journal OF Rice Science    2025, 39 (6): 751-759.   DOI: 10.16819/j.1001-7216.2025.240709
    Abstract428)   HTML14)    PDF (1726KB)(689)       Save

    【Objective】 Exploring cold-tolerant germplasm and identifying cold-tolerant genes are essential strategies to mitigate cold stress in rice. 【Method】 We treated the japonica rice variety Sasanishiki with ethyl methanesulfonate (EMS) to select mutants exhibiting enhanced cold tolerance at the seed germination stage. Candidate genes underwent cloning and functional analysis using fine mapping, CRISPR/Cas9 gene editing, expression profiling, and haplotype analysis. 【Result】 We identified the mutant M34, which displayed markedly improved cold tolerance at the seed germination stage. Genetic analysis suggested that a single recessive gene governs this trait. Fine mapping pinpointed Cold6 as the target gene. CRISPR/Cas9-mediated knockout of Cold6 confirmed its role in regulating cold tolerance during germination. Cold6 expression was observed in all rice organs, peaking in the panicles, and it encodes a protein containing several functional domains, including SNF2. Evolutionary analysis indicated differentiation of Cold6 between indica and japonica varieties, with haplotype analysis revealing 10 distinct Cold6 haplotypes. The predominant haplotypes are I-III; haplotype I is prevalent in japonica rice, whereas II and III are common in indica rice. 【Conclusion】 This study identified Cold6 as a novel regulator of cold tolerance in rice at the seed germination stage, encoding an SNF2 protein. Investigating the molecular mechanism of Cold6 enhances our understanding of the SNF2 gene family's role in rice, offering a theoretical foundation and germplasm resources for breeding cold-tolerant, high-yield northern japonica rice.

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    Research Progress on Biological Functions of Ubiquitin-conjugating Enzymes in Rice
    WANG Juan, WU Lijuan, HONG Haibo, YAO Zhiwen, WANG Lei, E Zhiguo
    Chinese Journal OF Rice Science    2025, 39 (6): 744-750.   DOI: 10.16819/j.1001-7216.2025.250316
    Abstract415)   HTML21)    PDF (794KB)(393)       Save

    Ubiquitination is a critical post-translational modification, accounting for 80%-85% of protein degradation in eukaryotes. It regulates protein activity, localization, and function, thereby playing extensive roles in modulating diverse biological processes. The ubiquitin-conjugating enzyme E2, the second key enzyme in the ubiquitination cascade, acts not only as a ubiquitin carrier but also determines the type of ubiquitin linkages and the length of ubiquitin chains. A total of 48 E2 genes have been identified in rice, all encoding proteins that contain a highly conserved UBC (ubiquitin-conjugating) domain. This domain binds to ubiquitin via a thioester bond and forms a specific interaction interface with ubiquitin ligase E3, ensuring the precision of ubiquitin transfer. Studies have shown that E2 enzymes are widely involved in regulating rice growth and development, as well as responses to biotic stresses such as pathogen infection and abiotic stresses including drought and cold.

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    Fertilization Effects of Different Exogenous Organic Materials in Newly Reclaimed Cultivated Land and Its Optimization of Evaluation Indicators
    YOU Saiya, WANG Xinya, QIN Birong, CAI Wenyan, ZHU Lianfeng, KONG Yali, ZHU Chunquan, TIAN Wenhao, ZHANG Junhua, JIN Qianyu, CAO Xiaochuang
    Chinese Journal OF Rice Science    2025, 39 (5): 690-702.   DOI: 10.16819/j.1001-7216.2025.240720
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    Objective】The effects of different exogenous organic materials on soil fertility improvement in newly reclaimed hilly red soil and yellow clayey soil, as well as their minimum data set (MDS) based on the soil quality index (SQI), were investigated to provide theoretical and technical support for soil fertility cultivation in newly reclaimed farmland. 【Method】The experiment included seven fertilization treatments: no fertilizer (CK), chemical fertilizers (NPK) + 2250 kg/hm² straw (NPKS1), NPK + 4500 kg/hm² straw (NPKS2), NPK + 3000 kg/hm² decomposed straw-livestock manure (NPKSM), NPK + 1773 kg/hm² woody peat (NPKW1), and NPK + 3546 kg/hm² woody peat (NPKW2). Parameters including rice yield, soil aggregate structure, various forms of carbon and nitrogen, microbial biomass carbon and nitrogen, and enzyme activities were measured. The MDS for soil quality evaluation was selected, and the evaluation indicators were further optimized and validated.【Result】1) Compared with NPK, NPKSM significantly increased the proportion of large soil aggregates, mean weight diameter, soil organic matter, carbon-to-nitrogen ratio, and activities of soil enzymes (β-1,4-glucosidase (BG) and [β-1,4-N-acetylglucosaminidase (NAG)] in the hilly red soil. In the yellow clayey soil, NPKS2 significantly increased the contents of easily oxidizable organic carbon, mineral-associated organic carbon, and microbial biomass carbon and nitrogen, while NPKW2 significantly increased the contents of soil organic matter, particulate organic carbon, mineral-associated organic carbon, and dissolved organic carbon. 2) Principal component analysis showed that the mean weight diameter, ammonium nitrogen, and mineral-associated organic carbon constituted the MDS for soil quality evaluation in the hilly red soil, while the MDS for the yellow clayey soil consisted of the soil carbon-to-nitrogen ratio, mineral-associated organic carbon, and NAG activity. 3) SQI evaluation based on the total data set (TDS) and MDS indicated that the SQI of NPKSM in the hilly red soil, and of NPKS2 and NPKW2 in the yellow clayey soil, were significantly higher than those of the other treatments. 4)Regression analysis showed that the SQI evaluated based on the TDS and MDS were significantly and positively correlated in both soil types, demonstrating that the MDS can serve as an effective indicator for evaluating the fertilization effects of different organic materials.【Conclusion】The fertilization effects and evaluation indicators varied significantly among fertilization modes and soil types. The application of decomposed straw-livestock manure improved the SQI of the hilly red soil by significantly increasing organic matter, easily oxidizable organic carbon content, enzyme activities (BG and NAG), and aggregate stability, while woody peat enhanced soil quality mainly by increasing organic matter and mineral-associated organic carbon in the yellow clayey soil. In conclusion, the application of 3000 kg/hm² decomposed straw-livestock manure and

    3546 kg/hm² woody peat can be recommended as suitable organic fertilization practices for newly reclaimed hilly red soil and yellow clayey soil, respectively.

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    Preliminary Analysis of Function and Mechanism of OsRDR5 Gene in Rice
    HOU Guihua, ZHOU Liguo, LEI Jianguo, CHEN Hong, NIE Yuanyuan
    Chinese Journal OF Rice Science    2025, 39 (6): 779-788.   DOI: 10.16819/j.1001-7216.2025.250208
    Abstract388)   HTML16)    PDF (1908KB)(469)       Save

    【Objective】 Drought is a major constraint on rice production, and drought avoidance is the most important mechanism for drought resistance of crops. Understanding the mechanism of OsRDR5, a candidate gene of drought tolerance in rice, can provide a theoretical basis for the improvement of drought tolerance in rice.【Method】 The nucleotide sequence, protein domain and phylogenetic relationship of RDR5 were analyzed using the NCBI database. The tissue expression pattern was analyzed by qRT-PCR. An OsRDR5 gene knockout mutant was constructed by the CRISPR/Cas9 system. The effect of OsRDR5 on rice deep root ratio was evaluated by the "basket method".【Result】OsRDR5 has a Coa3_cc domain, belonging to the cytochrome c oxidase assembly factor 3 gene family. OsRDR5 is located in the endoplasmic reticulum and is expressed in roots, stems and leaves of rice. Phenotypic identification of deep root ratio showed that the wild type had a deep root ratio of 53.7%, while the mutant lines had a deep root ratio of 63.3% and 64.9%, respectively. The deep root ratio of the mutant was significantly increased. A total of 1434 differentially expressed genes were identified by root transcriptomic analysis. GO enrichment analysis revealed significant enrichment of these genes in pathways related to drought stress, including response to water deprivation, abscisic acid and reactive oxygen species, among which several NAC genes(OsNAC016, OsNAC45, etc.) related to drought stress were up-regulated in the water deprivation pathway.【Conclusion】OsRDR5 knockout affects the deep root ratio of rice and plays an important role in drought avoidance of rice.

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    Effects of Reducing Hill Density While Maintaining Plant Population on Dry Matter Accumulation and Transport in Rice Stem and Sheath Under Different Light Conditions
    LIU Yuting, ZHOU Xing, HE Chenyan, LI Qiuping, AI Xiaofeng, YUAN Yujie, LIU Rui, YANG Jingwen, LIU Tingting, WANG Li, CHENG Hong, HUANG Rong, LI Aoyun, HU Wen, HU Zhong, REN Wanjun, DENG Fei
    Chinese Journal OF Rice Science    2025, 39 (5): 665-678.   DOI: 10.16819/j.1001-7216.2025.240904
    Abstract386)   HTML13)    PDF (1636KB)(670)       Save

    Objective】To clarify the effect of field configuration on dry matter accumulation and transport of culm and sheath under low light stress, and to provide a theoretical and practical basis for improving optimum canopy establishment technology in low light rice growing areas【Methods】Using Yixiangyou 2115 as the material, experiments with different light conditions (natural light and 50% shading) and field configurations [conventional dense planting(CDP) and reducing hill density while maintaining plant population (RHMPP)] were conducted in Hanyuan County and Wenjiang District of Sichuan Province from 2021 to 2022. The effects of field configuration on dry matter accumulation and transport in rice internodes and leaf sheaths under different light conditions were studied.【Result】(1) Except for the Wenjiang site in 2022, low light stress significantly reduced the dry matter weight of individual internode and leaf sheath at maturity, which in turn significantly decreased the total dry matter weight of internodes and leaf sheaths by 22.68%−30.12% and 6.45%−15.64%, respectively, but significantly increased their total dry matter transport amount, transport rate, and contribution rate. (2) Compared with CDP, RHMPP could effectively increase the total dry matter weight of internodes(except at Wenjiang site under low light stress in 2022) and leaf sheaths during different growth stages under different light conditions, and promote the transport and reutilization of dry matter in internodes and leaf sheaths under low light stress, resulting in a 1.51%−6.03% and 5.70%−10.37% increase in single-panicle weight at maturity at Wenjiang and Hanyuan sites, respectively. (3) Under different light conditions, the correlation between grain yield, quality and dry matter accumulation and transport characteristics differed significantly. Under low light stress, the dry matter transport amount, transport rate, and contribution rate of internodes were positively correlated with grain yield, but highly significantly negatively correlated with the chalky grain rate and chalkiness degree. 【Conclusion】Under low light stress, rice maintains assimilate supply to panicles by enhancing the transport and reuse of culm and sheath, especially the dry matter of internodes. RHMPP, by improving pre-heading dry matter accumulation in the internodes and leaves promotes their transport thereby reducing the adverse effects of low light stress on rice yield and quality.

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    Quality Traits Affecting Eating Quality in indica Rice Under Different Nitrogen Application Levels in Early and Late Seasons in South China
    ZHANG Lanlan, LIU Dilin, MA Xiaozhi, HUO Xing, KONG Le, LI Jinhua, FU Chongyun, LIAO Yilong, ZHU Manshan, ZENG Xueqin, LIU Wuge, WANG Feng
    Chinese Journal OF Rice Science    2025, 39 (6): 832-846.   DOI: 10.16819/j.1001-7216.2025.240203
    Abstract379)   HTML16)    PDF (2179KB)(351)       Save

    【Objective】 The taste of cooked rice is the most critical factor determining grain quality, which is influenced not only by the genetic background of variety but also by environmental factors such as fertilizer application rate and growing season. Systematically investigating the relationship between rice taste and other quality traits—including appearance, processing, cooking, and nutritional properties—under different nitrogen application levels and planting seasons can provide an important scientific reference for breeding new rice varieties with good taste under various production conditions. 【Method】 In 2021, 17 types of rice varieties (lines) from South China were used as test materials. Four nitrogen application treatments were applied: 0 kg/hm² (N0), 90 kg/hm² (N1), 135 kg/hm² (N2), and 180 kg/hm² (N3), in a field in both early and late seasons in Guangzhou City, Guangdong Province. Three-way ANOVA, stepwise multiple regression analysis, and path analysis were used to explore the relationship between rice taste and other major quality traits related to appearance, processing, cooking, and nutrition. 【Result】 The results showed that: (1) Chalky grain rate (CGR), chalkiness degree (CD), gel consistency (GC), and protein content (PC) were simultaneously influenced by seven factors: season, nitrogen application rate, variety, the interaction between growing season and nitrogen level, the interaction between season and variety, and the three-way interaction among growing season, nitrogen level and variety. These are the most unstable traits. In contrast, alkali spreading value (ASV) was significantly influenced only by growing season and variety, making it the most stable trait. The other six traits—brown rice rate (BRR), milled rice rate (MRR), length-to-width ratio (LWR), transparency (TR), and amylose content (AC)—exhibited moderate instability. (2) A total of 11 quality traits significantly affecting the taste value (TV) of cooked rice were identified across different nitrogen treatments in both early and late seasons. Among them, AC and PC were consistently detected in both seasons and in the comprehensive combined analysis, both exerting negative effects on TV. MRR, CGR, CD, TR and GC were repeatedly detected in the late season and in the combined analysis. BRR, head rice recovery (HRR), and ASV were only detected under the N0 treatment in the late season and in the combined analysis, respectively, while LWR was only identified in the combined analysis. (3) Among the 11 traits significantly influencing TV, only GC and LWR showed positive direct path coefficients and overall effects, indicating a positive regulatory role on TV. Although ASV and BRR exhibited positive direct path coefficients toward TV, their overall effects were negative, implying a net negative regulatory role. The other seven traits all functioned as negative regulators of TV. 【Conclusion】 Based on the magnitude and direction of the effects of these quality traits on TV, the target profile for developing new high-taste indica rice varieties should include: LWR ≥ 3.5, HRR ≥ 58%, TR = Grade 1, CGR ≤ 10%, CD ≤ 1%, AC = 13%-17%, ASV ≥ Grade 6.0, GC ≥ 60 mm, and PC of polished rice ≤ 6.4%

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    Effects of Nano-molybdenum on Root Morpho-physiological Traits and Nitrate Uptake in Rice
    ZHANG Haipeng, LI Wanyi, LIAO Fuxing, MA Meizi, ZHANG Hongcheng, YANG Yanju
    Chinese Journal OF Rice Science    2025, 39 (5): 650-664.   DOI: 10.16819/j.1001-7216.2025.241006
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    Objective】 Molybdenum (Mo) serves as an essential active component of nitrate reductase, playing a pivotal role in the reduction of nitrate nitrogen and nitrogen metabolism. This study aims to investigate the relationship between nano-MoO₃ and rice root morphology, organic acid secretion, and nitrate absorption, laying a theoretical basis for improving nitrate nitrogen absorption and utilization in rice through novel nano-fertilizers. 【Method】 Using Nanjing 9108 rice as the research material, hydroponic experiments with nitrate nitrogen as the nitrogen source were conducted with treatments of no Mo application (Mo concentration, 0 μg/L), sodium molybdate (50, 100, 200, 400 μg/L), and nano-MoO₃ (50, 100, 200, 400 μg/L). Differences in rice root morphology, root-secreted organic acid, and nitrogen content were analyzed. 【Result】 Exogenous Mo significantly increased rice root dry weight, total root length, root volume, total root surface area, total absorption area, and active absorption area, significantly optimizing rice root morphology compared to the no Mo treatment. At the same Mo application rates, nano-MoO₃ treatments showed significantly higher enhancement effects than sodium molybdate treatments. Root oxidation and reduction capacities, as well as organic acid secretion, increased significantly in response to exogenous Mo treatments, indicating enhanced root physiological activity. As Mo concentrations increased, the root oxidation and reduction capacities under sodium molybdate treatments initially increased and then decreased. Except for acetic acid, there were no differences in the secretion of malic acid, tartaric acid, succinic acid, citric acid, and oxalic acid at various sodium molybdate concentrations. However, both root oxidation/reduction capacities and organic acid secretion in nano-MoO₃ treatments increased with rising application rates. Factor analysis and redundancy analysis results indicated that rice root morphological indicators, root redox capacities, and organic acid secretion were positively correlated with root nitrogen content. Exogenous Mo addition promoted nitrate nitrogen absorption by rice roots through improvements in root morphological and physiological traits. 【Conclusion】 Exogenous Mo enhanced rice root morphological and physiological activities by increasing root length, root surface area, redox capacities, and organic acid secretion, thereby promoting nitrate nitrogen absorption. Nano-MoO₃ demonstrated superior promotional effects compared to sodium molybdate at the same Mo application rates. In agricultural production, appropriate Mo fertilizer addition, especially nano-MoO₃ fertilizer, can improve rice root morphological and physiological functions, enhancing nitrate nitrogen absorption and utilization.

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    Regulation of Amylose Content in Rice by Editing Wx Using CBE Base Editor
    CHEN Yuye, JIAO Xiaozhen, WANG Jian, WANG Kejian, CHEN Feng, ZHU Keming, LIU Chaolei
    Chinese Journal OF Rice Science    2025, 39 (6): 771-778.   DOI: 10.16819/j.1001-7216.2025.240705
    Abstract359)   HTML13)    PDF (1143KB)(699)       Save

    【Objective】 The Wx gene, a key regulator of amylose synthesis in rice, encodes a granule-bound starch synthase and plays a crucial role in determining the amylose content, thereby directly influencing the quality traits of rice. 【Method】 We used the CBE base editor to introduce base substitutions within the first exon of the Wx gene in Shendao18 variety, resulting in two distinct mutation types: GCCCCC→GCCCTT and GCCCCC→GCTCTC. Both mutations led to the substitution of proline with leucine at position 94 of the Wx protein, designated as WxP94L-1 and WxP94L-2 respectively. 【Result】 Field experiments demonstrated that compared to the wild type, both WxP94L-1 and WxP94L-2 plants exhibited no significant differences in plant height, tiller number per plant, panicle length, grain morphology or 1000-grain weight. Rice quality analysis revealed that the amylose content decreased from 14.9% (wild type) to 12.5% (WxP94L-1) and 12.1% (WxP94L-2), while traits such as viscosity, alkali spreading value and protein content showed no significant change compared to the wild type. 【Conclusion】 Our study successfully generated a novel allele of the Wx gene named WxP94L using CBE base editor which resulted in a slight reduction in amylose content; thus providing a way for enhancing rice quality.

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    Effect of Low Temperature at Booting Stage on Photosynthetic System of Different Rice Materials in Cold Region
    DING Guohua, LI Xin, CAO Liangzi, ZHOU Jinsong, LEI Lei, BAI Liangming, LUO Yu, YANG Guang, CUI Zhibo, ZHAO Minghui, SUN Shichen
    Chinese Journal OF Rice Science    2025, 39 (5): 679-689.   DOI: 10.16819/j.1001-7216.2025.241014
    Abstract350)   HTML10)    PDF (2029KB)(600)       Save

    Objective】The study aims to analyze the reasons for differences in photosynthetic system response to low temperature of early maturing rice materials at booting stage in cold regions, and to provide theoretical and material basis for breeding cold-tolerant and high-yield rice varieties at booting stage.【Method】Using high-quality cold-tolerant variety Longdao 18 (LD18) and the new cold-sensitive high-yielding germplasm Longdao 17029 (L9) derived from crosses between LD18 and upland rice as experimental materials, we studied the effects of chilling injury on flag leaf chloroplast ultrastructure, photosynthetic parameters, related enzyme activities, and gene expression in materials with different cold tolerance.【Result】Genomic analysis showed 75.03% similarity between LD18 and L9, with major differences on chromosomes 2 and 5. Under low temperature during booting-stage, LD18 had a significantly lower unfilled grain rate than L9. The SPAD value and chloroplast ultrastructure of LD18 flag leaves showed no significant changes, while L9 exhibited significantly decreased SPAD value, swollen and distorted chloroplasts and thylakoids, and produced abundant osmiophilic granules. Photosynthetic-related enzyme activities were higher in LD18 than those in L9. Transcriptomic and RT-qPCR results indicated more differentially expressed genes in LD18 than in L9. GO and KEGG analyses revealed that the most enriched pathways in LD18 versus L9 included photosynthesis and chlorophyll metabolism. RT-qPCR showed 3-fold upregulation of the photosynthesis-related gene RBCX1 in LD18 but downregulation in L9.【Conclusion】At booting stage under low temperature, LD18 exhibits stronger cold tolerance than L9. LD18 can mobilize more genes to cope with low-temperature stress, maintain chloroplast structural integrity, avoid reduction in chlorophyll content and photosynthetic rate, and maintain higher photosynthetic enzyme activities.

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    Identification of QTLs for Seed Storability in Dongxiang Wild Rice by Integrating BSA-Seq and QTL Analysis
    WANG Shilin, WU Ting, ZHOU Shiqi, SONG Siming, HU Biaolin
    Chinese Journal OF Rice Science    2025, 39 (6): 789-800.   DOI: 10.16819/j.1001-7216.2025.240807
    Abstract347)   HTML14)    PDF (1690KB)(1397)       Save

    【Objective】 The storage of rice seeds is crucial for ensuring food security and supporting sustainable agricultural production. Mining more genetic resources associated with seed storability is conducive to laying a genetic foundation for developing new storage-tolerant varieties.【Method】 Using Dongxiang wild rice accession Dongye 80 as the donor and cultivated rice R974 as the recurrent parent, two sets of BC₃F₇ populations—backcross recombinant inbred lines (BILs) consisting of 364 lines and single-segment substitution lines (SSSLs) consisting of 84 lines—were constructed. Germination rates were recorded after artificial aging treatment. QTL mapping and BSA-seq analysis were integrated to identify QTLs for seed storability from Dongxiang wild rice. Candidate genes were further predicted using gene annotation, GO enrichment analysis, and gene sequencing.【Result】 A total of nine QTLs for seed storability were detected on chromosomes 1, 2, 3, 6, 7, 9, and 11 using SSSLs, designated qSS1.1, qSS1.2, qSS2.1, qSS2.2, qSS3, qSS6, qSS7, qSS9.1, and qSS11, with phenotypic variation explained (PVE) ranging from 1.60% to 17.82%. Seven of these QTLs carried favorable alleles from Dongye 80, among which qSS7 and qSS11 were novel. Meanwhile, BSA-seq analysis using BILs identified 37 genomic regions associated with seed storability on chromosomes 2, 4, 5, 6, 7, 8, 9, and 11. The qSS7 interval was consistently detected by both methods and was narrowed down to a 480.1 kb overlapping region. In addition, qSS4 and qSS9.2 were delimited to overlapping regions of 199.7 kb and 177.8 kb, respectively. By integrating annotation information, GO enrichment, and gene sequencing, LOC_Os04g31040 and LOC_Os04g31070, LOC_Os07g07930, and LOC_Os09g15800 and LOC_Os09g15835 were proposed as candidate genes for qSS4, qSS7, and qSS9.2, respectively.【Conclusion】 In this study, nine and 37 QTLs for seed storability were identified by QTL mapping and BSA-seq analysis, respectively. Candidate genes for qSS4, qSS7, and qSS9.2 were further inferred. Notably, the favorable alleles of qSS4 and qSS9.2 from Dongye 80 significantly enhanced seed storability. Analysis of the candidate genes for qSS4 and qSS9.2 provides a foundation for cloning seed storability genes from Dongxiang wild rice and utilizing them in genetic improvement of cultivated rice.

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    Creating a Fragrant Environment-insensitive Recessive Genic Male Sterile Germplasm Lacking Coleoptile Purple Lines by CRISPR/Cas9 Gene Editing
    YANG Jiaxin, GUAN Yusheng, DU Run, LI Xianyong, CAI Zuokun, WANG Chutao, YANG Qiyang, HE Yongxin, ZHU Zichao, ZHANG Yi
    Chinese Journal OF Rice Science    2025, 39 (5): 643-649.   DOI: 10.16819/j.1001-7216.2025.240501
    Abstract338)   HTML6)    PDF (1119KB)(484)       Save

    Objective】Hybrid rice has developed into the third generation in which environment-insensitive recessive genic male sterility (EI-RGMS) is the essential trait. In many rice breeding programs, fragrance improvement is an important target. Additionally, the purple line in coleoptile is a clearly identifiable anthocyanin trait at the very early germination stage, which facilitates simple, rapid, and accurate identification of hybrid purity. The purpose of this study is to develop a fragrant EI-RGMS material lacking the coleoptile purple line based on maintainer II-32B, providing a new core germplasm for the third-generation hybrid rice.【Methods】Using CRISPR/Cas9, we knocked out the pollen development gene OsbHLH141, fragrance gene OsBadh2, and coleoptile purple line gene OsMYB76 in the elite rice parent II-32B.【Result】Mutant lines with all three genes knocked out showed loss of anthocyanin traits, a distinct aroma, and male sterility.【Conclusion】This study successfully created a fragrant EI-RGMS germplasm without purple line in coleoptile in the II-32B background.

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