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Natural variation of GmFNSII-2 contributes to drought resistance by modulating enzyme activity in soybean

The crop Journal 2024年第2期12卷 529-539页

作者： Huihui Gao Pengcheng Wei Yongzhe Gu Pengbin Tang Yifan Shen Lei Yang Linxin Dong Haowei Zheng Kuo Shu Mayamiko Masangano Bin Dong Long Miao Jiajia Li Lijuan Qiu Xiaobo Wang school of Agronomy Anhui Agricultural UniversityHefei 230036AnhuiChina State Key Laboratory of crop Gene Resources and Breeding The National Key Facility for Crop Gene Resources and Genetic Improvement(NFCRI)/Key Laboratory of Crop Gene Resource and Germplasm Enhancement(MOA)Institute of Crop SciencesChinese Academy of Agricultural SciencesBeijing 100081China

As an essential crop that provides vegetable oil and protein,soybean(Glycine max(L.)Merr.)is widely planted all over the ***,the scarcity of water resources worldwide has seriously impacted on the quality and yield of *** address this,exploring excellent genes for improving drought resistance in soybean is *** this study,we identified natural variations of GmFNSII-2(flavone synthase II)significantly affect the drought resistance of *** sequence analysis of GmFNSII-2 in 632 cultivated and 44 wild soybeans nine haplotypes were *** full-length allele GmFNSII-2^(C),but not the truncated allele GmFNSII-2^(A) possessing a nonsense nucleotide variation,increased enzyme *** research found that GmDREB3,known to increase soybean drought resistance,bound to the promoter region of GmFNSII-2^(C).GmDREB3 positively regulated the expression of GmFNSII-2^(C),increased flavone synthase abundance and improved the drought ***,a singlebase mutation in the GmFNSII-2^(C) promoter generated an additional drought response element(CCCCT),which had stronger interaction strength with GmDREB3 and increased its transcriptional activity under drought *** frequency of drought-resistant soybean varieties with Hap 1(Pro:GmFNSII-2^(C))has increased,suggesting that this haplotype may be selected during soybean *** summary,GmFNSII-2^(C) could be used for molecular breeding of drought-tolerant soybean.

关键词： Drought stress Flavone synthase GmFNSII-2 Natural variation Drought response element

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OsPRMT6a-mediated arginine methylation of OsJAZ1 regulates jasmonate signaling and spikelet development in rice

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Molecular Plant 2024年第6期17卷 900-919页

作者： Kun Dong Fuqing Wu Siqi Cheng Shuai Li Feng Zhang Xinxin Xing Xin Jin Sheng Luo Miao Feng Rong Miao Yanqi Chang Shuang Zhang Xiaoman You Peiran Wang Xin Zhang Cailin Lei Yulong Ren Shanshan Zhu Xiuping Guo Chuanyin Wu Dong-Lei Yang Qibing Lin Zhijun Cheng Jianmin Wan State Key Laboratory of crop Gene Resources and Breeding National Key Facility for Crop Gene Resources and Genetic ImprovementInstitute of Crop SciencesChinese Academy of Agricultural SciencesBeijing 100081China State Key Laboratory for crop Genetics and Germplasm Enhancement Nanjing Agricultural UniversityNanjing 210095China

Although both protein arginine methylation(PRMT)and jasmonate(JA)signaling are crucial for regulating plant development,the relationship between these processes in the control of spikelet development remains *** this study,we used the CRISPR/Cas9 technology to generate two OsPRMT6a loss-of-function mutants that exhibit various abnormal spikelet ***,we found that OsPRMT6a can methylate arginine residues in JA signal repressors OsJAZ1 and *** showed that arginine methylation of OsJAZ1 enhances the binding affinity of OsJAZ1 with the JA receptors OsCOI1a and OsCOI1b in the presence of JAs,thereby promoting the ubiquitination of OsJAZ1 by the SCF^(OsCOI1a/OsCOI1b) complex and degradation via the 26S *** process ultimately releases OsMYC2,a core transcriptional regulator in the JA signaling pathway,to activate or repress JA-responsive genes,thereby maintaining normal plant(spikelet)***,in the osprmt6a-1 mutant,reduced arginine methylation of OsJAZ1 impaires the interaction between OsJAZ1 and OsCOI1a/OsCOI1b in the presence of *** a result,OsJAZ1 proteins become more stable,repressing JA responses,thus causing the formation of abnormal spikelet ***,we discovered that JA signaling reduces the OsPRMT6a mRNA level in an OsMYC2-dependent manner,thereby establishing a negative feedback loop to balance JA *** further found that OsPRMT6a-mediated arginine methylation of OsJAZ1 likely serves as a switch to tune JA signaling to maintain normal spikelet development under harsh environmental conditions such as high ***,our study establishes a direct molecular link between arginine methylation and JA signaling in rice.

关键词： protein arginine methylation jasmonate signaling negative feedback loop spikelet development adaptation to heat stress rice

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The ABA synthesis enzyme allele OsNCED2^(T)promotes dryland adaptation in upland rice

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The crop Journal 2024年第1期12卷 68-78页

作者： Liyu Huang Yachong Bao Shiwen Qin Min Ning Qinyan Li Qingmao Li Shilai Zhang Guangfu Huang Jing Zhang Wensheng Wang Binying Fu Fengyi Hu Key Laboratory of Biology and Germplasm Innovation of Perennial Rice from Ministry of Agriculture and Rural Affairs School of AgricultureYunnan UniversityKunming 650091YunnanChina National Key Facility for crop Gene Resources and Genetic improvement Institute of Crop SciencesChinese Academy of Agricultural SciencesBeijing 100081China

Upland rice shows dryland adaptation in the form of a deeper and denser root system and greater drought resistance than its counterpart,irrigated *** previous study revealed a difference in the frequency of the OsNCED2 gene between upland and irrigated populations.A nonsynonymous mutation(C to T,from irrigated to upland rice)may have led to functional variation fixed by artificial selection,but the exact biological function in dryland adaptation is *** this study,transgenic and association analysis indicated that the domesticated fixed mutation caused functional variation in OsNCED2,increasing ABA levels,root development,and drought tolerance in upland rice under dryland ***2-overexpressing rice showed increased reactive oxygen species-scavenging abilities and transcription levels of many genes functioning in stress response and development that may regulate root development and drought ***2^(T)-NILs showed a denser root system and drought resistance,promoting the yield of rice under dryland ***2^(T)may confer dryland adaptation in upland rice and may find use in breeding dryland-adapted,water-saving rice.

关键词： Upland rice Dryland adaptation ABA Root development Drought tolerance

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Comprehensive integration of single-cell transcriptomic data illuminates the regulatory network architecture of plant cell fate specification

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Plant Diversity 2024年第3期46卷 372-385页

作者： Shanni Cao Xue Zhao Zhuojin Li Ranran Yu Yuqi Li Xinkai Zhou Wenhao Yan Dijun Chen Chao He State Key Laboratory of Pharmaceutical Biotechnology School of Life SciencesNanjing UniversityNanjing 210023China National Key Laboratory of crop Genetic improvement Hubei Hongshan LaboratoryHuazhong Agricultural UniversityWuhan 430070China

Plant morphogenesis relies on precise gene expression programs at the proper time and position which is orchestrated by transcription factors(TFs)in intricate regulatory networks in a cell-type specific *** we introduced a comprehensive single-cell transcriptomic atlas of Arabidopsis *** atlas is the result of meticulous integration of 63 previously published scRNA-seq datasets,addressing batch effects and conserving biological *** integration spans a broad spectrum of tissues,including both below-and above-ground *** a rigorous approach for cell type annotation,we identified 47 distinct cell types or states,largely expanding our current view of plant cell *** systematically constructed cell-type specific gene regulatory networks and uncovered key regulators that act in a coordinated manner to control cell-type specific gene *** together,our study not only offers extensive plant cell atlas exploration that serves as a valuable resource,but also provides molecular insights into gene-regulatory programs that varies from different cell types.

关键词： Arabidopsis Single cell transcriptome Gene regulatory network Data integration Plant cell atlas

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A telomere-to-telomere genome assembly of Zhonghuang 13,a widely-grown soybean variety from the original center of Glycine max

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The crop Journal 2024年第1期12卷 142-153页

作者： Anqi Zhang Tangchao Kong Baiquan Sun Shizheng Qiu Jiahe Guo Shuyong Ruan Yu Guo Jirui Guo Zhishuai Zhang Yue Liu Zheng Hu Tao Jiang Yadong Liu Shuqi Cao Shi Sun Tingting Wu Huilong Hong Bingjun Jiang Maoxiang Yang Xiangyu Yao Yang Hu Bo Liu Tianfu Han Yadong Wang Center for Bioinformatics School of Computer Science and TechnologyHarbin Institute of TechnologyHarbin 150001HeilongjiangChina Ministry of Agriculture Key Laboratory of Soybean Biology(Beijing) Institute of Crop SciencesChinese Academy of Agricultural SciencesBeijing 100081China National Key Facility for crop Gene Resources and Genetic improvement Institute of Crop SciencesChinese Academy of Agricultural SciencesBeijing 100081China

Soybean(Glycine max)stands as a globally significant agricultural crop,and the comprehensive assembly of its genome is of paramount importance for unraveling its biological characteristics and evolutionary ***,previous soybean genome assemblies have harbored gaps and incompleteness,which have constrained in-depth investigations into ***,we present Telomere-to-Telomere(T2T)assembly of the Chinese soybean cultivar Zhonghuang 13(ZH13)genome,termed ZH13-T2T,utilizing PacBio Hifi and ONT ultralong *** employed a multi-assembler approach,integrating Hifiasm,NextDenovo,and Canu,to minimize biases and enhance assembly *** assembly spans 1,015,024,879 bp,effectively resolving all 393 gaps that previously plagued the reference *** annotation efforts identified 50,564 high-confidence protein-coding genes,707 of which are ***13-T2T revealed longer chromosomes,421 not-aligned regions(NARs),112 structure variations(SVs),and a substantial expansion of repetitive element compared to earlier ***,we identified 25.67 Mb of tandem repeats,an enrichment of 5S and 48S rDNAs,and characterized their genotypic *** summary,we deliver the first complete Chinese soybean cultivar T2T *** comprehensive annotation,along with precise centromere and telomere characterization,as well as insights into structural variations,further enhance our understanding of soybean genetics and evolution.

关键词： Soybean Telomere-to-Telomere assembly Zhonghuang 13 Structure variations

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Post-transcriptional regulation of grain weight and shape by the RBP-A-J-K complex in rice

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Journal of Integrative Plant Biology 2024年第1期66卷 66-85页

作者： Ding Ren Hui Liu Xuejun Sun Fan Zhang Ling Jiang Ying Wang Ning Jiang Peiwen Yan Jinhao Cui Jinshui Yang Zhikang Li Pingli Lu Xiaojin Luo State Key Laboratory of Genetic Engineering and MOE Engineering Research Center of Gene Technology School of Life SciencesFudan UniversityShanghai 200438China State Key Laboratory of crop Stress Adaptation and improvement School of Life SciencesHenan UniversityKaifeng 475004China MOE Key Laboratory of crop Physiology Ecology and Genetic Breeding College of AgronomyJiangxi Agricultural UniversityNanchang 330045China State Key Laboratory of crop Gene Resources and Breeding Institute of Crop SciencesChinese Academy of Agricultural Sciences(CAAS)Beijing 100081China College of Agronomy Anhui Agricultural UniversityHefei 230036China

RNA-binding proteins(RBPs)are components of the post-transcriptional regulatory system,but their regulatory effects on complex traits remain *** an integrated strategy involving map-based cloning,functional characterizations,and transcriptomic and population genomic analyses,we revealed that RBP-K(LOC_Os08g23120),RBP-A(LOC_Os11g41890),and RBP-J(LOC_Os10g33230)encode proteins that form an RBP-A-J-K complex that negatively regulates rice yield-related *** of the RBP-A-J-K complex indicated RBP-K functions as a relatively non-specific RBP chaperone that enables RBP-A and RBP-J to function ***,RBP-J most likely affects GA pathways,resulting in considerable increases in grain and panicle lengths,but decreases in grain width and *** contrast,RBP-A negatively regulates the expression of genes most likely involved in auxin-regulated pathways controlling cell wall elongation and carbohydrate transport,with substantial effects on the rice grain filling process as well as grain length and ***,RBP-K is relatively ancient and highly conserved,whereas RBP-J and RBP-A are more ***,the RBP-A-J-K complex may represent a typical functional model for many RBPs and protein complexes that function at transcriptional and post-transcriptional levels in plants and animals for increased functional consistency,efficiency,and versatility,as well as increased evolutionary *** results clearly demonstrate the importance of RBP-mediated post-transcriptional regulation for the diversity of complex ***,rice grain yield and quality may be enhanced by introducing various complete or partial loss-of-function mutations to specific RBP genes using clustered regularly interspaced palindromic repeats(CRISPR)/CRISPR-associated protein 9 technology and by exploiting desirable natural tri-genic allelic combinations at the loci encoding the components of the RBP-A-J-K complex through marker-assisted select

关键词： GL11 grain weight and shape post-transcriptional regulation RNA-binding proteins

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Effects of coal-fired power plants on soil microbial diversity and community structures

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Journal of Environmental Sciences 2024年第3期137卷 206-223页

作者： Bowen Sun Renbin Zhu Yu Shi Wanying Zhang Zeming Zhou Dawei Ma Runfang Wang Haitao Dai Chenshuai Che Institute of Polar Environment&Anhui Key Laboratory of Polar Environment and Global Change School of Earth and Space SciencesUniversity of Science and Technology of ChinaHefei 230026China State Key Laboratory of crop Stress Adaptation and improvement School of Life SciencesHenan UniversityKaifeng 450046China State Grid Anhui Electric Power Research Institute Hefei 230601China

Long-term deposition of atmospheric pollutants emitted from coal combustion and their effects on the eco-environment have been extensively studied around coal-fired power ***,the effects of coal-fired power plants on soil microbial communities have received little attention through atmospheric pollutant deposition and ***,we collected the samples of power plant soils(PS),coal-stacking soils(CSS)and agricultural soils(AS)around three coal-fired power plants and background control soils(BG)in Huainan,a typical mineral resource-based city in East China,and investigated the microbial diversity and community structures through a high-throughput sequencing ***-stacking significantly increased(p<0.05)the contents of total carbon,total nitrogen,total sulfur and Mo in the soils,whereas the deposition of atmospheric pollutants enhanced the levels of V,Cu,Zn and ***,Actinobacteria,Thaumarchaeota,Thermoplasmata,Ascomycota and Basidiomycota were the dominant taxa in all *** bacterial community showed significant differences(p<0.05)among PS,CSS,AS and BG,whereas archaeal and fungal communities showed significant differences(p<0.01)according to soil samples around three coal-fired power *** predominant environmental variables affecting soil bacterial,archaeal and fungal communities were Mo-TN-TS,Cu-V-Mo,and organic matter(OM)-Mo,*** soil microbial genera were closely related to multiple key factors associated with stacking coal and heavy metal deposition from power *** study provided useful insight into better understanding of the relationships between soil microbial communities and long-term disturbances from coal-fired power plants.

关键词： Coal-fired power plants Soil microbial communities Coal-stacking Heavy metals Environmental variables

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Progressive meristem and single-cell transcriptomes reveal the regulatory mechanisms underlying maize inflorescence development and sex differentiation

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Molecular Plant 2024年第7期17卷 1019-1037页

作者： Yonghao Sun Liang Dong Lu Kang Wanshun Zhong David Jackson Fang Yang National Key Laboratory of crop Genetic improvement Huazhong Agricultural UniversityWuhan 430070China Hubei Hongshan Laboratory Wuhan 430070China Cold Spring Harbor Laboratory Cold Spring HarborNY 11724USA school of Agriculture Sun Yat-Sen UniversityShenzhen 518107China

Maize develops separate ear and tassel inflorescences with initially similar morphology but ultimately different architecture and *** detailed regulatory mechanisms underlying these changes still remain largely *** this study,through analyzing the time-course meristem transcriptomes and floret single-cell transcriptomes of ear and tassel,we revealed the regulatory dynamics and pathways underlying inflorescence development and sex *** identified 16 diverse gene clusters with differential spatiotemporal expression patterns and revealed biased regulation of redox,programmed cell death,and hormone signals during meristem differentiation between ear and ***,based on their dynamic expression patterns,we revealed the roles of two RNA-binding proteins in regulating inflorescence meristem activity and axillary meristem ***,using the transcriptional profiles of 53910 single cells,we uncovered the cellular heterogeneity between ear and tassel *** found that multiple signals associatedwith either enhancedcell death or reduced growth are responsiblefortassel pistil suppression,while part of the gibberellic acid signal may act non-cell-autonomously to regulate ear stamen arrest during sex *** further showed that the pistil-protection gene SILKLESS 1(SK1)functions antagonistically to the known pistil-suppression genes through regulating common molecular pathways,and constructed a regulatory network for pistil-fate ***,our study provides a deep understanding of the regulatory mechanisms underlying inflorescence development and sex differentiation in maize,laying the foundation for identifying new regulators and pathways for maize hybrid breeding and improvement.

关键词： maize inflorescence floral organ sex differentiation single-cell RNA sequencing RNA-binding protein

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Reactive oxygen species:Multidimensional regulators of plant adaptation to abiotic stress and development

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Journal of Integrative Plant Biology 2024年第3期66卷 330-367页

作者： Pengtao Wang Wen-Cheng Liu Chao Han Situ Wang Ming-Yi Bai Chun-Peng Song State Key Laboratory of crop Stress Adaptation and improvement School of Life SciencesHenan UniversityKaifeng 475004China The Key Laboratory of Plant Development and Environmental Adaptation Biology Ministry of EducationSchool of Life SciencesShandong UniversityQingdao 266237China Faculty of Science McGill UniversityMontreal H3B1X8Canada

Reactive oxygen species(ROS)are produced as undesirable by-products of metabolism in various cellular compartments,especially in response to unfavorable environmental conditions,throughout the life cycle of *** ROS production disrupts normal cellular function and leads to oxidative *** cope with excessive ROS,plants are equipped with a sophisticated antioxidative defense system consisting of enzymatic and non-enzymatic components that scavenge ROS or inhibit their harmful effects on ***,when maintained at relatively low levels,ROS act as signaling molecules that regulate plant growth,development,and adaptation to adverse ***,we provide an overview of current approaches for detecting *** also discuss recent advances in understanding ROS signaling,ROS metabolism,and the roles of ROS in plant growth and responses to various abiotic stresses.

关键词： abiotic stress growth and development plant reactive oxygen species

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Targeted mutations of BnPAP2 lead to a yellow seed coat in Brassica napus L.

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Journal of Integrative Agriculture 2024年第2期23卷 724-730页

作者： Wei Huang Ruyu Jiao Hongtao Cheng Shengli Cai Jia Liu Qiong Hu Lili Liu Bao Li Tonghua Wang Mei Li Dawei Zhang Mingli Yan Hunan Research Center of Heterosis Utilization in Rapeseed/crop Research Institute Hunan Academy of Agricultural SciencesChangsha 410125China Hunan Key Laboratory of Economic crops Genetic improvement and Integrated Utilization/school of Life and Health Science Hunan University of Science and TechnologyXiangtan 411201China Key Laboratory of Biology and Genetic improvement of Oil crops Ministry of Agriculture and Rural Affairs/Oil Crops Research InstituteChinese Academy of Agricultural SciencesWuhan 430062China

The yellow seed trait is preferred by breeders for its potential to improve the seed quality and commercial value of Brassica *** the present study,we produced yellow seed mutants using a CRISPR/Cas9 system when the two BnPAP2 homologs were knocked *** staining of the seed coat demonstrated that proanthocyanidin accumulation was significantly reduced in the pap2 double mutants and decreased specifically in the endothelial and palisade layer cells of the seed *** and metabolite profiling analysis suggested that disruption of the BnPAP2 genes could reduce the expression of structural and regulated genes in the phenylpropanoid and flavonoid biosynthetic *** broad suppression of these genes might hinder proanthocyanidin accumulation during seed development,and thereby causing the yellow seed trait in *** results indicate that BnPAP2 might play a vital role in the regulatory network controlling proanthocyanidin accumulation.

关键词： yellow seed BnPAP2 proanthocyanidins CRISPR/Cas9

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