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Genome Editing of the qPL6 Promoter Creates Novel Alleles for High-Yielding Rice. qPL6启动子的基因组编辑为高产水稻创造了新的等位基因。
IF 4.8 1区 农林科学
Rice Pub Date : 2025-05-30 DOI: 10.1186/s12284-025-00804-5
Shuwei Zhang, Bin Qin, Yiting Zou, Zhong Bian, Guangyang Jin, Weitao Yang, Dongping Cao, Wenshu Zhuang, Bin Ma, Jiyun Liu, Zuhua He, Qiaoquan Liu, Lin Zhang
{"title":"Genome Editing of the qPL6 Promoter Creates Novel Alleles for High-Yielding Rice.","authors":"Shuwei Zhang, Bin Qin, Yiting Zou, Zhong Bian, Guangyang Jin, Weitao Yang, Dongping Cao, Wenshu Zhuang, Bin Ma, Jiyun Liu, Zuhua He, Qiaoquan Liu, Lin Zhang","doi":"10.1186/s12284-025-00804-5","DOIUrl":"https://doi.org/10.1186/s12284-025-00804-5","url":null,"abstract":"","PeriodicalId":21408,"journal":{"name":"Rice","volume":"18 1","pages":"46"},"PeriodicalIF":4.8,"publicationDate":"2025-05-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144181648","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Epiallelic Variation of TILLER ANGLE CONTROL 5 (TAC5) Regulates Tiller Angle by Modulating Gravitropism in Rice. 水稻分蘖角控制5号(TAC5)表等位变异通过调节水稻向地性调节分蘖角。
IF 4.8 1区 农林科学
Rice Pub Date : 2025-05-28 DOI: 10.1186/s12284-025-00794-4
Su Jang, Dongryung Lee, Backki Kim, Yoon Kyung Lee, Sangrae Shim, Soon-Wook Kwon, Hee-Jong Koh
{"title":"Epiallelic Variation of TILLER ANGLE CONTROL 5 (TAC5) Regulates Tiller Angle by Modulating Gravitropism in Rice.","authors":"Su Jang, Dongryung Lee, Backki Kim, Yoon Kyung Lee, Sangrae Shim, Soon-Wook Kwon, Hee-Jong Koh","doi":"10.1186/s12284-025-00794-4","DOIUrl":"10.1186/s12284-025-00794-4","url":null,"abstract":"<p><p>Tiller angle is a major component of rice plant architecture and affects planting density, photosynthetic efficiency, and ventilation. An extremely narrow or wide tiller angle adversely affects rice yield. Thus, a suitable tiller angle is considered a major factor to achieve ideal plant architecture in rice. In this study, we identified a major quantitative trait locus (QTL) that controls tiller angle and cloned the gene, TILLER ANGLE CONTROL 5 (TAC5), which encodes a NAC domain-containing transcription factor. Epigenetic variants at the CG site in the TAC5 promoter were stably inherited and associated with TAC5 mRNA expression. The TAC5 epiallele with a hypermethylated cytosine in the promoter exhibited an immediate response to gravistimulation with a simultaneous elevation of H<sub>2</sub>O<sub>2</sub> levels at the early stage of gravistimulation. Furthermore, TAC5 affected the expression patterns of transcripts involved in reactive oxygen species (ROS) generation and the response to excessive ROS. Population genetics and evolutionary analyses revealed that TAC5 alleles for the narrow tiller angle originated from a wild progenitor and were selected independently in temperate japonica and indica subspecies during domestication. Our results provide insight into the genetic mechanism of tiller angle control in rice and suggest potential applications of TAC5 in developing rice varieties with an ideal plant architecture.</p>","PeriodicalId":21408,"journal":{"name":"Rice","volume":"18 1","pages":"44"},"PeriodicalIF":4.8,"publicationDate":"2025-05-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144161830","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
The Relationship between Anaerobic Germination Capacity and Submergence Tolerance in Rice Seedlings. 水稻幼苗厌氧萌发能力与耐淹性的关系。
IF 4.8 1区 农林科学
Rice Pub Date : 2025-05-28 DOI: 10.1186/s12284-025-00806-3
Dina Lykke Engmann Djurhuus, Zhiwei Song, Albert Guldborg Andersen, Sara Gargiulo, Valentino Casolo, Abdelbagi M Ismail, Susan Nchimbi-Msolla, Juan de la Cruz Jiménez, Ole Pedersen
{"title":"The Relationship between Anaerobic Germination Capacity and Submergence Tolerance in Rice Seedlings.","authors":"Dina Lykke Engmann Djurhuus, Zhiwei Song, Albert Guldborg Andersen, Sara Gargiulo, Valentino Casolo, Abdelbagi M Ismail, Susan Nchimbi-Msolla, Juan de la Cruz Jiménez, Ole Pedersen","doi":"10.1186/s12284-025-00806-3","DOIUrl":"https://doi.org/10.1186/s12284-025-00806-3","url":null,"abstract":"<p><p>Direct-seeded rice offers multiple advantages, including lower labour costs and a reduced CO<sub>2</sub> footprint. However, the risk of flooding during germination and at the early seedling and vegetative stages is high. Therefore, the capacity for anaerobic germination in waterlogged soils, as well as tolerance to partial and complete submergence, are both essential. It remains unclear whether anaerobic germination and flood tolerance are linked or if they act independently in the environment. Therefore, it is timely to investigate the relationship between these two traits in the context of progressing climate change. We investigated the submergence tolerance of 4-week-old plants of three African landraces, which had previously been shown to possess anaerobic germination capacity. Additionally, we included one submergence-sensitive check and two tolerant checks. These six genotypes were evaluated at three time points: initially (prior to submergence), after three days of submergence, and at the time of desubmergence following 29 days of submergence. We measured survival, key photosynthetic traits (leaf gas films, underwater net photosynthesis, chlorophyll concentration), and carbohydrate reserves. We found that the African landraces tolerant to anaerobic germination all outlived the submergence-sensitive check, 'IR42,' during 29 days of complete submergence. Moreover, all tested genotypes exhibited significant declines over the 29 days of submergence in gas film thickness, underwater net photosynthesis, leaf chlorophyll concentration, and leaf water-soluble carbohydrates and starch. However, no significant differences were observed among the genotypes. The underlying mechanisms of anaerobic germination tolerance in the three African landraces remain unknown, as they do not possess the gene Anaerobic Germination 1 (AG1). Furthermore, it is unclear whether the three genotypes contain the gene Submergence 1 (SUB1); however, SUB1 confers submergence tolerance only and does not provide tolerance to anaerobic germination. Based on the present study, we cannot rule out the possibility that the novel anaerobic germination tolerance observed in the three African landraces is somehow linked to submergence tolerance as well. A thorough bioinformatic analysis is therefore needed to further characterize these landraces.</p>","PeriodicalId":21408,"journal":{"name":"Rice","volume":"18 1","pages":"45"},"PeriodicalIF":4.8,"publicationDate":"2025-05-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144161838","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
OsSDG715, a Histone H3K9 Methyltransferase, Integrates Auxin and Cytokinin Signaling to Regulate Callus Formation in Rice. 组蛋白H3K9甲基转移酶OsSDG715整合生长素和细胞分裂素信号调控水稻愈伤组织形成
IF 4.8 1区 农林科学
Rice Pub Date : 2025-05-27 DOI: 10.1186/s12284-025-00801-8
Wenjing Song, Hairong Cai, Yuanyuan Guo, Shiyi Chen, Yingyun Yao, Jiafeng Wang, Tao Guo, Jian Zhang, Chun Chen
{"title":"OsSDG715, a Histone H3K9 Methyltransferase, Integrates Auxin and Cytokinin Signaling to Regulate Callus Formation in Rice.","authors":"Wenjing Song, Hairong Cai, Yuanyuan Guo, Shiyi Chen, Yingyun Yao, Jiafeng Wang, Tao Guo, Jian Zhang, Chun Chen","doi":"10.1186/s12284-025-00801-8","DOIUrl":"10.1186/s12284-025-00801-8","url":null,"abstract":"<p><p>Efficient callus induction is essential for the genetic transformation of rice (Oryza sativa), yet its regulatory mechanisms remain elusive. Previously, through a genome-wide association study (GWAS), we identified a significant associated locus on chromosome 8. In this study, we characterized this locus and demonstrated that OsSDG715, encoding a histone H3K9 methyltransferase, is the causal gene that positively regulates callus formation in rice. Results revealed that OsSDG715 is highly expressed during callus induction and exhibits natural variations associated with callus induction rate (CIR). Knockout of OsSDG715 via CRISPR/Cas9 led to a significant decrease in CIR and impaired callus morphology, indicating its positive regulation of callus formation. RNA-seq analyses revealed that 326 and 705 differentially expressed genes (DEGs) were upregulated and downregulated in sdg715 mutants, including auxin-responsive genes (OsIAA14, OsYUCCA6), cytokinin-related genes (OsCKX4, ARR10), and stress-responsive factors. Further analysis showed reduced endogenous indole-3-acetic acid (IAA) levels and increased zeatin levels in sdg715 mutants. These findings advance our understanding of the molecular mechanisms underlying rice callus formation, and offering valuable insights for optimizing tissue culture in molecular breeding.</p>","PeriodicalId":21408,"journal":{"name":"Rice","volume":"18 1","pages":"42"},"PeriodicalIF":4.8,"publicationDate":"2025-05-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12106170/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144151433","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Identification and Genetic Analysis of Collinearity Loci for Interspecific Hybrid Sterility in Genus Oryza. 稻属种间杂交不育共线性位点的鉴定与遗传分析。
IF 4.8 1区 农林科学
Rice Pub Date : 2025-05-27 DOI: 10.1186/s12284-025-00803-6
Ying Yang, Qiuhong Pu, Yonggang Lv, Jing Li, Jiawu Zhou, Xianneng Deng, Xuanchen Song, Yu Zhang, Dayun Tao
{"title":"Identification and Genetic Analysis of Collinearity Loci for Interspecific Hybrid Sterility in Genus Oryza.","authors":"Ying Yang, Qiuhong Pu, Yonggang Lv, Jing Li, Jiawu Zhou, Xianneng Deng, Xuanchen Song, Yu Zhang, Dayun Tao","doi":"10.1186/s12284-025-00803-6","DOIUrl":"10.1186/s12284-025-00803-6","url":null,"abstract":"<p><strong>Background: </strong>Hybrid sterility is a common phenomenon in hybrids between the Asian cultivated rice (Oryza sativa L.) and its relatives with AA genome, which limits the utilization of interspecific heterosis and favorable gene introgression. Numerous loci for hybrid sterility have been identified between O. sativa and its relatives. However, it remains elusive whether hybrid sterility between different species is controlled by a set of conserved loci, and whether there are variations in the genetic mode of these loci.</p><p><strong>Results: </strong>In this study, six novel hybrid sterility loci for pollen sterility were identified from different cross combinations between O. sativa and its three wild relatives. S59 caused hybrid pollen sterility in hybrids between O. sativa and O. rufipogon. S60 and S61 controlled the hybrid pollen sterility between O. sativa and O. glumaepatula. S62, S63 and S64 governed the hybrid pollen sterility between O. sativa and O. barthii. Genetic and linkage analysis showed that S59, S60, and S62 were located in near the same region on the short arm of chromosome 5. S61 and S63 were mapped near RM27460 on the short arm of chromosome 12. S64 was restricted into the 60.27 kb region between RM4853 and RM3372 on the short arm of chromosome 3. The genetic behavior of six novel hybrid sterility loci follows one-locus allelic interaction model, the male gametes carrying the alleles of O. sativa in the heterozygotes were selectively aborted except for S62.</p><p><strong>Conclusions: </strong>The findings from this research would provide a better understanding for the genetic nature of interspecific hybrid sterility in rice.</p>","PeriodicalId":21408,"journal":{"name":"Rice","volume":"18 1","pages":"43"},"PeriodicalIF":4.8,"publicationDate":"2025-05-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144151318","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Advancing Climate-Resilient Sorghum: the Synergistic Role of Plant Biotechnology and Microbial Interactions. 推进气候适应高粱:植物生物技术和微生物相互作用的协同作用。
IF 4.8 1区 农林科学
Rice Pub Date : 2025-05-26 DOI: 10.1186/s12284-025-00796-2
Atul Kumar Srivastava, Aamir Riaz, Junmei Jiang, Xiangyang Li, Mohammad Uzair, Pooja Mishra, Aqib Zeb, Jiwei Zhang, Raghvendra Pratap Singh, Lingfeng Luo, Songshu Chen, Sanwei Yang, Yudan Zhao, Xin Xie
{"title":"Advancing Climate-Resilient Sorghum: the Synergistic Role of Plant Biotechnology and Microbial Interactions.","authors":"Atul Kumar Srivastava, Aamir Riaz, Junmei Jiang, Xiangyang Li, Mohammad Uzair, Pooja Mishra, Aqib Zeb, Jiwei Zhang, Raghvendra Pratap Singh, Lingfeng Luo, Songshu Chen, Sanwei Yang, Yudan Zhao, Xin Xie","doi":"10.1186/s12284-025-00796-2","DOIUrl":"10.1186/s12284-025-00796-2","url":null,"abstract":"&lt;p&gt;&lt;p&gt;Climate-related problems such as drought stress, extreme temperature, erratic rainfall patterns, soil degradation, heatwaves, flooding, water logging, pests and diseases afflict the production and sustainability of sorghum. These challenges may be addressed by adopting climate-resilient practices and using advanced agronomic techniques. These challenges are being addressed through innovative applications of plant biotechnology and microbiology, which offer targeted solutions to enhance sorghum's resilience. For instance, biotechnological tools like CRISPR/Cas9 enable precise genetic modifications to improve drought and heat tolerance, while microbial inoculants, such as plant growth-promoting rhizobacteria (PGPR) and arbuscular mycorrhizal fungi (AMF), enhance nutrient uptake and stress tolerance through symbiotic interactions. However, biotechnological tools lead to the development of sorghum varieties with heat, drought and salinity tolerance, while marker-assisted selection significantly accelerates breeding for stress-resilient traits. When genetic engineering is introduced, genes encoding heat shock proteins, Osmo protectants and antioxidant pathways are introduced to increase plant resistance to abiotic stress. These compounds stabilise cellular structures, protect enzymes, and maintain osmotic balance, enhancing the plant's ability to survive and function in adverse environmental conditions. At the same time, it is reported that microbiology offers beneficial microbes, nitrogen-fixing bacteria, phosphate-solubilizing microorganisms, and arbuscular mycorrhizal fungi that help enhance nutrient availability, soil health and water uptake. Combinations of endophytes and microbial inoculants enhance plant immunity to pests and diseases while increasing tolerance to stress. Biocontrol agents such as Bacillus and Trichoderma contain suppression of pathogens and need less dependence on the use of chemical pesticides. On top of that, genetic modification increases the nutritional quality of sorghum biofortified. This is where biotechnology and microbiology work together to deliver sustainable farming systems reducing environmental impacts, boosting yields and securing food supply under environmental stresses. This review aims to examine the synergistic integration of plant biotechnology and microbial interactions as a strategy to enhance sorghum's resilience to climate-induced stresses, including drought, elevated temperatures, and nutrient-deficient soils. It highlights recent advancements in biotechnological tools such as gene editing, marker-assisted selection, and tissue culture, alongside the emerging role of plant-beneficial microbes in promoting stress tolerance and improving soil health. By synthesizing current knowledge across these disciplines, this review seeks to outline a framework for future research that harnesses the intersection of biotechnology and microbial ecology to support the sustainable improvement of sorghum resilience","PeriodicalId":21408,"journal":{"name":"Rice","volume":"18 1","pages":"41"},"PeriodicalIF":4.8,"publicationDate":"2025-05-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12106188/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144151303","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
RNA-seq Analysis of the Mechanisms Underlying Chalky Grain and Characterization of Two IAA Receptor Proteins OsAFB3 and OsAFB5 in Chalkiness Formation in Oryza sativa. 水稻白垩粒形成机制的RNA-seq分析及IAA受体蛋白OsAFB3和OsAFB5在水稻白垩形成中的作用
IF 4.8 1区 农林科学
Rice Pub Date : 2025-05-24 DOI: 10.1186/s12284-025-00799-z
Shaojie Shi, Huiying Wang, Wenjun Zha, An Huang, Ziyi Chen, Yan Wu, Junxiao Chen, Changyan Li, Bian Wu, Sanhe Li, Huashan Xu, Peide Li, Kai Liu, Zhijun Chen, Guocai Yang, Lei Zhou, Aiqing You
{"title":"RNA-seq Analysis of the Mechanisms Underlying Chalky Grain and Characterization of Two IAA Receptor Proteins OsAFB3 and OsAFB5 in Chalkiness Formation in Oryza sativa.","authors":"Shaojie Shi, Huiying Wang, Wenjun Zha, An Huang, Ziyi Chen, Yan Wu, Junxiao Chen, Changyan Li, Bian Wu, Sanhe Li, Huashan Xu, Peide Li, Kai Liu, Zhijun Chen, Guocai Yang, Lei Zhou, Aiqing You","doi":"10.1186/s12284-025-00799-z","DOIUrl":"10.1186/s12284-025-00799-z","url":null,"abstract":"<p><p>Grain chalkiness is an undesirable agronomic trait that negatively affects both the yield and quality of rice (Oryza sativa). The molecular mechanisms underlying chalky grain phenotype have remained largely unclear. In this study, we selected the rice variety HK300 with a high chalkiness, and ZR24D with a low chalkiness, as experimental materials and systematically characterized the reasons of grain chalkiness formation at molecular level by means of RNA-seq analysis. Analysis results revealed that the differentially expressed genes (DEGs) in these two rice varieties were significantly enriched in transcriptional regulation, sucrose and starch metabolism, and phytohormone signal transduction. Moreover, we found the expression of 13 genes related to trehalose pathway (4 out of 14 TPS genes and 9 out of 13 TPP genes in rice genome) were significantly different between the two varieties, indicating trehalose synthesis pathways may contribute to the increased chalkiness formation. Notably, the number of DEGs associated with the signal transduction pathway for indole-3-acetic acid (IAA), which has been rarely studied for its involvement in chalkiness formation, was the highest among those associated with plant hormone signal transduction. Among them, the expression of two IAA receptor genes, OsAFB3 and OsAFB5, were significantly lower in HK300 than that in ZR24D through RNA-seq and qRT-PCR. Furthermore, we newly validated the two genes negatively regulated the formation of chalkiness through gene knockout. Our findings provided the theoretical basis and novel gene resources for molecular breeding aimed at improving rice quality.</p>","PeriodicalId":21408,"journal":{"name":"Rice","volume":"18 1","pages":"40"},"PeriodicalIF":4.8,"publicationDate":"2025-05-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12102057/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144132859","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Spatio-Temporal Regulation of Gibberellin Biosynthesis Contributes to Optimal Rhizome Bud Development. 赤霉素合成的时空调控有助于根茎芽的最佳发育。
IF 4.8 1区 农林科学
Rice Pub Date : 2025-05-24 DOI: 10.1186/s12284-025-00798-0
Kanako Bessho-Uehara, Tomoki Omori, Stefan Reuscher, Keisuke Nagai, Ayumi Agata, Mikiko Kojima, Yumiko Takebayashi, Takamasa Suzuki, Hitoshi Sakakibara, Motoyuki Ashikari, Tokunori Hobo
{"title":"Spatio-Temporal Regulation of Gibberellin Biosynthesis Contributes to Optimal Rhizome Bud Development.","authors":"Kanako Bessho-Uehara, Tomoki Omori, Stefan Reuscher, Keisuke Nagai, Ayumi Agata, Mikiko Kojima, Yumiko Takebayashi, Takamasa Suzuki, Hitoshi Sakakibara, Motoyuki Ashikari, Tokunori Hobo","doi":"10.1186/s12284-025-00798-0","DOIUrl":"10.1186/s12284-025-00798-0","url":null,"abstract":"<p><p>The perennial life cycle involves the reiterative development of sexual and asexual organs. Asexual structures such as rhizomes are found in various plant species, fostering extensive growth and competitive advantages. In the African wild rice Oryza longistaminata, we investigated the formation of rhizomes from axillary buds, which notably bend diagonally downward of the main stem, as the factors determining whether axillary buds become rhizomes or tillers are unclear. Our study revealed that rhizome buds initiate between the third and fifth nodes of seedlings beyond the 6-leaf stage, while the buds above the sixth node develop into tillers. We propose that precise regulation of gibberellin (GA) biosynthesis plays a pivotal role in optimal rhizome bud development, as demonstrated by a comparative transcriptome analysis between tiller buds and rhizome buds and quantification of phytohormones. Furthermore, GA<sub>4</sub> treatment upregulated the expression of genes associated with flowering repression and cell wall modification. These findings highlight the integration of GA biosynthesis and flowering repression genes as crucial in asexual organ development, shedding new light on the molecular mechanisms governing rhizome bud development in O. longistaminata and deepening our understanding of asexual reproduction regulation in perennial plants.</p>","PeriodicalId":21408,"journal":{"name":"Rice","volume":"18 1","pages":"39"},"PeriodicalIF":4.8,"publicationDate":"2025-05-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12102016/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144132861","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Haplotype Analysis of the GL7/GW7/SLG7 Gene and Its Application in Improving the Grain Quality of Three-Line Hybrid Rice. GL7/GW7/SLG7基因单倍型分析及其在三系杂交稻品质改良中的应用
IF 4.8 1区 农林科学
Rice Pub Date : 2025-05-23 DOI: 10.1186/s12284-025-00786-4
Duo Xia, Peizhou Xu, Shuqin Zheng, Le Xue, Yuejiao Yin, Zhuchen Yao, Sikai Ding, Yusen Lai, Yipei Wang, Xiaoding Ma, Xianjun Wu, Hao Zhou
{"title":"Haplotype Analysis of the GL7/GW7/SLG7 Gene and Its Application in Improving the Grain Quality of Three-Line Hybrid Rice.","authors":"Duo Xia, Peizhou Xu, Shuqin Zheng, Le Xue, Yuejiao Yin, Zhuchen Yao, Sikai Ding, Yusen Lai, Yipei Wang, Xiaoding Ma, Xianjun Wu, Hao Zhou","doi":"10.1186/s12284-025-00786-4","DOIUrl":"10.1186/s12284-025-00786-4","url":null,"abstract":"<p><p>Improving grain quality is second only to enhancing grain yield in breeding hybrid rice. Yet, rice grain quality, especially milling and appearance quality, is facing increasing threats from global warming due to climate change, leading to a relatively slow progress in high-quality rice breeding. Identifying additional grain quality genes is an effective way to combat against the threats on rice grain quality. In the present study, we used the germplasm from 3,000 Rice Genomes Project for genome-wide association study, and identified GL7/GW7/SLG7 as a major QTL besides GS3 and GW5 for grain shape. Among nine haplotypes of GL7 (H1-9), H1-H4, which harbored an 11-bp deletion, were designated as the functional GL7 allele and were primarily present in Geng/Japonica (GJ) rice. We developed KASP markers for GL7 major haplotypes (H1 and H2), and established a breeding system assisted by the markers to effectively improve Xian/Indica (XI) hybrids for grain quality. Yuehesimiao (YHSM) and Yixiang 1 A (YX1A) are widely applicated XI restorer line and sterile line in three-line hybrids. The improved hybrid YX1A<sup>GL7</sup>/YHSM<sup>GL7</sup> exhibited longer grain, higher ratio of grain length-to-width and larger rate of head rice, but lower chalkiness rate and degree than that of any other hybrids and both parents. Furthermore, the improved hybrid with GL7 had statistically same yield of grains with all other hybrids, indicating no penalty of grain yield while improving grain quality. The GL7 haplotype along with its marker KASP-S2 and breeding strategy resulted from this study could be valuable sources for developing XI hybrids with high quality and high yield of grains in rice.</p>","PeriodicalId":21408,"journal":{"name":"Rice","volume":"18 1","pages":"38"},"PeriodicalIF":4.8,"publicationDate":"2025-05-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12102024/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144128532","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Large Grain 2, an NHL Domain-Containing Protein, Interacts with FUWA and Regulates Plant Architecture and Grain Size Through the Brassinosteroid Signaling Pathway in Rice. NHL结构域蛋白大粒2与福娃相互作用,通过油菜素内酯信号通路调控水稻植株结构和籽粒大小。
IF 4.8 1区 农林科学
Rice Pub Date : 2025-05-21 DOI: 10.1186/s12284-025-00797-1
Zhengyan Xu, Jierui Zeng, Xiaorong Zhou, Yang Liu, Feifan Chen, Haitang Liu, Xiao Peng, Zhengqi Han, Feihong Hou, Hao Wang, Weilan Chen, Bin Tu, Ting Li, Jiawei Xiong, Zhaohui Zhong, Yuping Wang, Bingtian Ma, Peng Qin, Shigui Li, Hua Yuan
{"title":"Large Grain 2, an NHL Domain-Containing Protein, Interacts with FUWA and Regulates Plant Architecture and Grain Size Through the Brassinosteroid Signaling Pathway in Rice.","authors":"Zhengyan Xu, Jierui Zeng, Xiaorong Zhou, Yang Liu, Feifan Chen, Haitang Liu, Xiao Peng, Zhengqi Han, Feihong Hou, Hao Wang, Weilan Chen, Bin Tu, Ting Li, Jiawei Xiong, Zhaohui Zhong, Yuping Wang, Bingtian Ma, Peng Qin, Shigui Li, Hua Yuan","doi":"10.1186/s12284-025-00797-1","DOIUrl":"10.1186/s12284-025-00797-1","url":null,"abstract":"<p><p>Plant architecture and grain size are critical traits for rice breeding. Brassinosteroid (BR), a class of plant hormones, regulates these traits by modulating cell elongation, division, and differentiation. Therefore, exploring BR-related genes to leverage their pleiotropic effects is crucial for crop improvement. We identify a novel gene, Large Grain 2 (LG2), which encodes a Golgi-localized protein containing an NHL domain. This gene plays a crucial role in regulating both plant architecture and grain size in rice. Mechanistically, FUWA, a paralog of LG2, directly interacts with LG2 and enhances its protein stability. Furthermore, our findings indicate that LG2 is involved in BR signaling. Collectively, these results suggest that the LG2-FUWA module synergistically regulate plant architecture and grain size through the BR pathway in rice. Our study provides new insights into the function of NHL domain-containing proteins in plants and introduces a novel BR component for crop improvement. The LG2-FUWA module regulates plant architecture and grain size through the BR pathway in rice.</p>","PeriodicalId":21408,"journal":{"name":"Rice","volume":"18 1","pages":"37"},"PeriodicalIF":4.8,"publicationDate":"2025-05-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12092888/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144111520","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
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