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IbNIEL-mediated degradation of IbNAC087 regulates jasmonic acid-dependent salt and drought tolerance in sweet potato

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Journal of Integrative Plant biology 2024年第2期66卷 176-195页

作者： Xu Li Zhen Wang Sifan Sun Zhuoru Dai Jun Zhang Wenbin Wang Kui Peng Wenhao Geng Shuanghong Xia Qingchang Liu Hong Zhai Shaopei Gao Ning Zhao Feng Tian Huan Zhang Shaozhen He key laboratory of Sweet Potato biology and Biotechnology Ministry of Agriculture and Rural Affairs/Beijing Key Laboratory of Crop Genetic Improvement/Laboratory of Crop Heterosis&Utilization and Joint Laboratory for International Cooperation in Crop Molecular BreedingMinistry of EducationCollege of Agronomy&BiotechnologyChina Agricultural UniversityBeijing 100193China Sanya Institute of china Agricultural University Sanya 572025China State key laboratory of Plant Physiology and Biochemistry National Maize Improvement CenterKey Laboratory of Biology and Genetic Improvement of MaizeBeijing Key Laboratory of Crop Genetic ImprovementChina Agricultural UniversityBeijing 100193China

Sweet potato(Ipomoea batatas[L.]Lam.)is a crucial staple and bioenergy *** abiotic stress tolerance holds significant importance in fully utilizing marginal *** processes regulate abiotic stress responses,yet the molecular regulatory mechanisms in sweet potato remain *** this study,a NAC(NAM,ATAF1/2,and CUC2)transcription factor,IbNAC087,was identified,which is commonly upregulated in salt-and drought-tolerant *** of IbNAC087 increased salt and drought tolerance by increasing jasmonic acid(JA)accumulation and activating reactive oxygen species(ROS)scavenging,whereas silencing this gene resulted in opposite ***-rich IbNAC087-OE(overexpression)plants exhibited more stomatal closure than wild-type(WT)and IbNAC087-Ri plants under NaCl,polyethylene glycol,and methyl jasmonate ***087 functions as a nuclear transcriptional activator and directly activates the expression of the key JA biosynthesisrelated genes lipoxygenase(IbLOX)and allene oxide synthase(IbAOS).Moreover,IbNAC087 physically interacted with a RING-type E3 ubiquitin ligase NAC087-INTERACTING E3 LIGASE(IbNIEL),negatively regulating salt and drought tolerance in sweet *** ubiquitinated IbNAC087 to promote 26S proteasome degradation,which weakened its activation on IbLOX and *** findings provide insights into the mechanism underlying the IbNIEL-IbNAC087 module regulation of JA-dependent salt and drought response in sweet potato and provide candidate genes for improving abiotic stress tolerance in crops.

关键词： abiotic tolerance IbNAC087 IbNIEL JA sweet potato

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High-quality Gossypium hirsutum and Gossypium barbadense genome assemblies reveal the landscape and evolution of centromeres

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Plant Communications 2024年第2期5卷 135-150页

作者： Xing Chang Xin He Jianying Li Zhenping Liu Ruizhen Pi Xuanxuan Luo Ruipeng Wang Xiubao Hu Sifan Lu Xianlong Zhang Maojun Wang National key laboratory of Crop genetic improvement Hubei Hongshan LaboratoryHuazhong Agricultural UniversityWuhanChina

Centromere positioning and organization are crucial for genome evolution;however,research on centro-mere biology is largely influenced by the quality of available genome ***,we combined Oxford Nanopore and Pacific Biosciences technologies to de novo assemble two high-quality reference genomes for Gossypium hirsutum(TM-1)and Gossypium barbadense(3-79).Compared with previously published reference genomes,our assemblies show substantial improvements,with the contig N50 improved by 4.6-fold and 5.6-fold,respectively,and thus represent the most complete cotton genomes to *** high-quality reference genomes enable us to characterize 14 and 5 complete centromeric regions for *** and ***,*** data revealed that the centromeres of allotetraploid cotton are occupied by members of the centromeric repeat for maize(CRM)and Tekay long terminal repeat families,and the CRM family reshapes the centromere structure of the At subgenome after *** two intertwined families have driven the convergent evolution of centromeres between the two subgenomes,ensuring centromere function and genome *** addition,the reposi-tioning and high sequence divergence of centromeres between *** and *** have contributed to speciation and centromere *** study sheds light on centromere evolution in a sig-nificant crop and provides an alternative approach for exploring the evolution of polyploid plants.

关键词： genome assembly centromere architecture convergent evolution polyploidization

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The auxin transporter OsAUX1 regulates tillering in rice(Oryza sativa)

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Journal of Integrative Agriculture 2024年第5期23卷 1454-1467页

作者： Luqi Jia Yongdong Dai Ziwei Peng Zhibo Cui Xuefei Zhang Yangyang Li Weijiang Tian Guanghua He Yun Li Xianchun Sang Chongqing key laboratory of Crop Molecular improvement/Rice Research Institute Academy of Agricultural SciencesSouthwest UniversityChongqing400715China Rice and Sorghum Research Institute Sichuan Academy of Agricultural Sciences/Key Laboratory of Southwest Rice Biology and Genetic BreedingMinistry of Agriculture and Rural AffairsDeyang 618000China

Tillering is an important agronomic trait of rice(Oryza sativa)that affects the number of effective panicles,thereby affecting *** phytohormone auxin plays a key role in *** we identified the high tillering and semi-dwarf 1(htsd1)mutant with auxin-deficiency root characteristics,such as shortened lateral roots,reduced lateral root density,and enlarged root ***1 showed reduced sensitivity to auxin,but the external application of indole-3-acetic acid(IAA)inhibited its *** identified the mutated gene in htsd1 as AUXIN1(OsAUX1,LOC_Os01g63770),which encodes an auxin influx *** promoter sequence of OsAUX1 contains many SQUAMOSA PROMOTER BINDING PROTEIN-LIKE(SPL)binding sites,and we demonstrated that SPL7 binds to the OsAUX1 *** BRANCHED1(OsTB1),a key gene that negatively regulates tillering,was significantly downregulated in *** was enhanced in the OsTB1 knockout mutant,and the external application of IAA inhibited tiller elongation in this *** OsTB1 restored the multi-tiller phenotype of *** results suggest that SPL7 directly binds to the OsAUX1 promoter and regulates tillering in rice by altering OsTB1 expression to modulate auxin signaling.

关键词： rice(Oryza sativa L.) tillering indole-3-acetic acid(IAA) OsAUX1 OsTB1

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The light and hypoxia induced gene ZmPORB1 determines tocopherol content in the maize kernel

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Science china(Life Sciences) 2024年第3期67卷 435-448页

作者： Nannan Liu Yuanhao Du Shijuan Yan Wei Chen Min Deng Shutu Xu Hong Wang Wei Zhan Wenjie Huang Yan Yin Xiaohong Yang Qiao Zhao Alisdair R.Fernie Jianbing Yan National key laboratory of Crop genetic improvement Huazhong Agricultural UniversityWuhan 430070China Hubei Hongshan laboratory Wuhan 430070China Agro-biological Gene Research Center Guangdong Academy of Agricultural SciencesGuangzhou 510640China College of Agronomy Hunan Agricultural UniversityChangsha 410128China College of Agronomy Northwest A&F UniversityXi'an 710000China State key laboratory of North china Crop improvement and Regulation Hebei Sub-center of National Maize Improvement Center of ChinaCollege of AgronomyHebei Agricultural UniversityBaoding 071001China College of Life Sciences South-Central Minzu UniversityWuhan 430070China Plant Science Facility of the Institute of Botany Chinese Academy of SciencesBeijing 100093China National maize improvement Center of china Beijing Key Laboratory of Crop Genetic ImprovementChina Agricultural UniversityBeijing 100093China Shenzhen key laboratory of Synthetic Genomics Guangdong Provincial Key Laboratory of Synthetic GenomicsShenzhen Institute of Synthetic BiologyShenzhen Institute of Advanced TechnologyChinese Academy of SciencesShenzhen 518055China Max Planck Institute of Molecular Plant Physiology Potsdam-Golm 14476Germany

Tocopherol is an important lipid-soluble antioxidant beneficial for both human health and plant growth. Here, we fine mapped a major QTLqVE1 affecting γ-tocopherol content in maize kernel, positionally cloned and confirmed the underlying gene ZmPORB1(por1), as a protochlorophyllide oxidoreductase. A 13.7 kb insertion reduced the tocopherol and chlorophyll content, and the photosynthetic activity by repressing ZmPORB1 expression in embryos of NIL-K22, but did not affect the levels of the tocopherol precursors HGA(homogentisic acid)and PMP(phytyl monophosphate). Furthermore, ZmPORB1 is inducible by low oxygen and light, thereby involved in the hypoxia response in developing embryos. Concurrent with natural hypoxia in embryos, the redox state has been changed with NO increasing and H_(2)O_(2) decreasing, which lowered γ-tocopherol content via scavenging reactive nitrogen species. In conclusion, we proposed that the lower lightharvesting chlorophyll content weakened embryo photosynthesis, leading to fewer oxygen supplies and consequently diverse hypoxic responses including an elevated γ-tocopherol consumption. Our findings shed light on the mechanism for fine-tuning endogenous oxygen concentration in the maize embryo through a novel feedback pathway involving the light and low oxygen regulation of ZmPORB1 expression and chlorophyll content.

关键词： maize tocopherol hypoxia photosynthesis ZmPORB1

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Population genomic analysis reveals key genetic variations and the driving force for embryonic callus induction capability in maize

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Journal of Integrative Agriculture 2024年第7期23卷 2178-2195页

作者： Peng Liu Langlang Ma Siyi Jian Yao He Guangsheng Yuan Fei Ge Zhong Chen Chaoying Zou Guangtang Pan Thomas Lübberstedt Yaou Shen State key laboratory of Crop Gene Exploration and Utilization in southwest china/maize Research Institute Sichuan Agricultural UniversityChengdu 611130China Department of Agronomy Iowa State UniversityAmesIA 50011USA

genetic transformation has been an effective technology for improving the agronomic traits of ***,it is highly reliant on the use of embryonic callus(EC)and shows a serious genotype *** this study,we performed genomic sequencing for 80 core maize germplasms and constructed a high-density genomic variation map using our newly developed pipeline(MQ2Gpipe).Based on the induction rate of EC(REC),these inbred lines were categorized into three *** low-REC germplasms displayed more abundant genetic diversity than the high-REC *** integrating a genome-wide selective signature screen and region-based association analysis,we revealed 95.23 Mb of selective regions and 43 REC-associated *** variants had phenotypic variance explained values ranging between 21.46 and 49.46%.In total,103 candidate genes were identified within the linkage disequilibrium regions of these REC-associated *** genes mainly participate in regulation of the cell cycle,regulation of cytokinesis,and other functions,among which MYB15 and EMB2745 were located within the previously reported QTL for EC *** leaf area-associated variants with large effects were closely linked to several REC-related loci,implying a potential synergistic selection of REC and leaf size during modern maize breeding.

关键词： maize genetic transformation embryonic callus selective signal association analysis

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Doubled haploid technology and synthetic apomixis:Recent advances and applications in future crop breeding

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Molecular Plant 2024年第7期17卷 1005-1018页

作者： Yanzhi Qu Alisdair R.Fernie Jie Liu Jianbing Yan National key laboratory of Crop genetic improvement Huazhong Agricultural UniversityWuhan 430070China Hubei Hongshan laboratory Wuhan 430070China Department of Molecular Physiology Max-Planck-Institute of Molecular Plant Physiology14476 Potsdam-GolmGermany Center of Plant Systems biology and Biotechnology 4000 PlovdivBulgaria azhouwan National laboratory Sanya 572024China

Doubled haploid(DH)technology and synthetic apomixis approaches can considerably shorten breeding cycles and enhance breeding *** with traditional breeding methods,DH technology offers the advantage of rapidly generating inbred lines,while synthetic apomixis can effectively fix hybrid *** this review,we focus on(i)recent advances in identifying and characterizing genes responsible for haploid induction(Hl),(ii)the molecular mechanisms of Hl,(ili)spontaneous haploid genome doubling,and(iv)crop synthetic *** also discuss the challenges and potential solutions for future crop breeding programs utilizing DH technology and synthetic ***,we provide our perspectives about how to integrate DH and synthetic apomixis for precision breeding and de novo domestication.

关键词： maize doubled haploid technology haploid induction synthetic apomixis precision breeding

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Multiple pollutants from crop and livestock production in the Yangtze River: status and challenges

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Frontiers of Agricultural Science and Engineering 2024年第1期11卷 134-139,I0005页

作者： Lihua MA Shiyang LI Linfa FANG Xuanjing CHEN Ran XIAO Xiaoxuan SU Zhaolei LI Zhaohai BAI Lin MA Prakash LAKSHMANAN Xinping CHEN Interdisciplinary Research Center for Agriculture Green Development in Yangtze River Basin College of Resources and EnvironmentSouthwest UniversityChongqing 400715China Water Systems and Global Change Group Wageningen University&Research6708 PB Wageningenthe Netherlands key laboratory of Agricultural Water Resources Center for Agricultural Resources ResearchInstitute of Genetic and Developmental BiologyChinese Academy of SciencesShijiazhuang 050021China key laboratory of Sugarcane Biotechnology and genetic improvement(Guangxi) Ministry of Agriculture and Rural AffairsGuangxi Key Laboratory of Sugarcane Genetic ImprovementSugarcane Research InstituteGuangxi Academy of Agricultural SciencesNanning 530007China Queensland Alliance for Agriculture and Food Innovation University of QueenslandSt Lucia 4067Australia

The rapid increase in the proportion of cash crops and livestock production in the Yangtze River Basin has led to commensurate increases in fertilizer and pesticide inputs. Excessive application of chemical fertilizer, organophosphorus pesticides and inappropriate disposal of agricultural waste induced water pollution and potentially threaten Agriculture Green Development(AGD). To ensure food security and the food supply capacity of the Yangtze River Basin, it is important to balance green and development, while ensuring the quality of water bodies. Multiple pollutants affect the transfer, adsorption, photolysis and degradation of each other throughout the soil-plant-water system. This paper considers the impact of multi-pollutants on the nitrogen and phosphorus cycles especially for crops, which are related to achieving food security and AGD. It presents prospective on theory, modeling and multi-pollutant control in the Yangtze River Basin for AGD that are of potential value for other developing regions.

关键词： Agriculture Green Development crop production livestock production multi-pollutant models multiple pollutants Yangtze River Basin

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Dual-extraction modeling:A multi-modal deeplearning architecture for phenotypic prediction and functional gene mining of complex traits

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Plant Communications 2024年第9期5卷 54-71页

作者： Yanlin Ren Chenhua Wu He Zhou Xiaona Hu Zhenyan Miao State key laboratory for Crop Stress Resistance and High-Efficiency Production Center of BioinformaticsCollege of Life SciencesNorthwest A&F UniversityYanglingShaanxi 712100China College of Chemistry&Pharmacy Northwest A&F UniversityYanglingShaanxi 712100China key laboratory of biology and genetics improvement of maize in Arid Area of Northwest Region Ministry of AgricultureNorthwest A&F UniversityYanglingShaanxi 712100China

Despite considerable advances in extracting crucial insights from bio-omics data to unravel the intricate mechanisms underlying complex traits,the absence of a universal multi-modal computational tool with robust interpretability for accurate phenotype prediction and identification of trait-associated genes remains a *** study introduces the dual-extraction modeling(DEM)approach,a multi-modal deep-learning architecture designed to extract representative features from heterogeneous omics datasets,enabling the prediction of complex trait *** comprehensive benchmarking experiments,we demonstrate the efficacy of DEM in classification and regression prediction of complex *** consistently exhibits superior accuracy,robustness,generalizability,and ***,we establish its effectiveness in predicting pleiotropic genes that influence both flowering time and rosette leaf number,underscoring its commendable *** addition,we have developed user-friendly software to facilitate seamless utilization of DEM’s *** summary,this study presents a state-of-the-art approach with the ability to effectively predict qualitative and quantitative traits and identify functional genes,confirming its potential as a valuable tool for exploring the genetic basis of complex traits.

关键词： deep learning complex traits multi-omics phenotypic prediction gene mining

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genetic variation in a heat shock transcription factor modulates cold tolerance in maize

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Molecular Plant 2024年第9期17卷 1423-1438页

作者： Lei Gao Lingling Pan Yiting Shi Rong Zeng Minze Li Zhuoyang Li Xuan Zhang Xiaoming Zhao Xinru Gong Wei Huang Xiaohong Yang Jinsheng Lai Jianru Zuo Zhizhong Gong Xiqing Wang Weiwei Jin Zhaobin Dong Shuhua Yang State key laboratory of Plant Environmental Resilience Frontiers Science Center for Molecular Design BreedingCollege of Biological SciencesCenter for Crop Functional Genomics and Molecular BreedingChina Agricultural UniversityBeijing 100193China State key laboratory of maize Bio-breeding National Maize Improvement CenterFrontiers Science Center for Molecular Design BreedingDepartment of Plant Geneticsand BreedingChinaAgricultural UniversityBeijingChina State key laboratory of Plant Genomics and National Plant Gene Research Center Institute of Genetics and Developmental BiologyChinese Academy of SciencesBeijing100101China

Understanding how maize(Zea mays)responds to cold stress is crucial for facilitating breeding programs of cold-tolerant *** extensive utilization of the genome-wide association study(GWAs)approach for exploring favorable natural alleles associated with maize cold tolerance,few studies have successfully identified candidate genes that contribute to maize cold *** this study,we used a diverse panel of inbred maize lines collected from different germplasm sources to perform a GWAS on var-iations in the relative injured area of maize true leaves during cold stress-a trait very closely correlated with maize cold *** identified HsF21,which encodes a B-class heat shock transcription factor(HSF)that positively regulates cold tolerance at both the seedling and germination *** varia-tions in the promoter of the cold-tolerant HSF21Hap1 allele led to increased HSF21 expression under cold stress by inhibiting binding of the basic leucine zipper bziP68 transcription factor,a negative regulator of cold *** integrating transcriptome deep sequencing,DNA affinity purification sequencing,and targeted lipidomic analysis,we revealed the function of HsF21 in regulating lipid metabolism homeo-stasis to modulate cold tolerance in *** addition,we found that HsF21 confers maize cold tolerance without incurring yield ***,this study establishes HsF21 as a key regulator that en-hances cold tolerance in maize,providing valuable genetic resources for breeding of cold-tolerant maize varieties.

关键词： heat shock factor HSF21 cold tolerance natural variation bZiP68 lipid metabolism maize

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Identification of propranolol and derivatives that are chemical inhibitors of phosphatidate phosphatase as potential broad-spectrum fungicides

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Plant Communications 2024年第1期5卷 215-230页

作者： Juan Zhao Yu Chen Zhifen Ding Yaru Zhou Ruiqing Bi Ziting Qin Lei Yang Peng Sun Qiping Sun Guang Chen Daiyuan Sun Xianya Jiang Lu Zheng Xiao-Lin Chen Hu Wan Guanghui Wang Qiang Li Huailong Teng Guotian Li National key laboratory of Agricultural Microbiology Hubei Hongshan LaboratoryHubei Key Laboratory of Plant PathologyThe Center of Crop NanobiotechnologyHuazhong Agricultural UniversityWuhan 430070China College of Science Huazhong Agricultural UniversityWuhan 430070China National key laboratory of Crop genetic improvement Huazhong Agricultural UniversityWuhan 430070China State key laboratory of Crop Stress biology for Arid Areas College of Plant ProtectionNorthwest A&F UniversityYangling 712100China College of Chemistry and Life Sciences Sichuan Provincial Key Laboratory for Development and Utilization of Characteristic Horticultural Biological ResourcesChengdu Normal UniversityChengdu 611130China Yangjiang Institute of Agricultural Sciences Yangjiang 529500China

Plant diseases cause enormous economic losses in agriculture and threaten global food security,and application of agrochemicals is an important method of crop disease *** of disease-resis-tance mechanisms and synthesis of highly bioactive agrochemicals are thus important research ***,we show that propranolol,a phosphatidate phosphatase(Pah)inhibitor,effectively suppresses fungal growth,sporulation,sexual reproduction,and infection of diverse *** MoPah1 enzyme activity of the rice blast fungus Magnaporthe oryzae is inhibited by *** in lipid metabolism are associated with inhibited hyphal growth and appressorium formation caused by propranolol in *** inhibits a broad spectrum of 12 plant pathogens,effectively inhibiting infection of barley,wheat,maize,tomato,and *** improve antifungal capacity,we synthesized a series of propranolol derivatives,one of which shows a 16-fold increase in antifungal ability and binds directly to *** and its derivatives can also reduce the severity of rice blast and Fusarium head blight of wheat in *** together,our results demonstrate that propranolol suppresses fungal development and infection through mechanisms involved in lipid *** and its derivatives may therefore be promising candidates for fungicide development.

关键词： propranolol molecular design chemical modification virulence lipid metabolism Pyricularia oryzae

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