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Genome-wide association study of seedling nitrogen-use efficiency-associated traits in common wheat(Triticum aestivum L.)

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The crop Journal 2024年第1期12卷 222-231页

作者： Huawei Shi Weichong Wang Lifeng Gao Jirong Wu Chengmei Hu Huishu Yan Yugang Shi Ning Li Youzhi Ma Yongbin Zhou Zhaoshi Xu Jun Chen Wensi Tang Kai Chen Daizhen Sun Yuxiang Wu Ming Chen College of Agriculture Shanxi Agricultural UniversityJinzhong 030801ShanxiChina national key Facility for crop Gene Resources and Genetic Improvement Key Laboratory of Biology and Genetic Improvement of Triticeae CropsMinistry of AgricultureInstitute of Crop SciencesChinese Academy of Agricultural SciencesBeijing 100081China

Nitrogen(N)fertilizer application is essential for crop-plant growth and *** genetic loci associated with N-use efficiency(NUE)could increase wheat yields and reduce environmental pollution caused by *** subjected a panel of 389 wheat accessions to N and chlorate(a nitrate analog)treatments to identify quantitative trait loci(QTL)controlling NUE-associated traits at the wheat seedling *** the panel with a 660K single-nucleotide polymorphism(SNP)array,we identified 397 SNPs associated with N-sensitivity index and chlorate inhibition *** SNPs were merged into 49 QTL,of which eight were multi-environment stable QTL and 27 were located near previously reported QTL.A set of 135 candidate genes near the 49 QTL included TaBOX(F-box family protein)and TaERF(ethylene-responsive transcription factor).A Tabox mutant was more sensitive to low-N stress than the wild-type *** developed two functional markers for Hap 1,the favorable allele of TaBOX.

关键词： Wheat NUE Genome-wide association study Nitrogen sensitive index Chlorate inhibition rate

The MYB transcription factor OsMYBxoc1 regulates resistance to Xoc by directly repressing transcription of the iron transport gene OsNRAMP5 in rice

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Plant Communications 2024年第6期5卷 230-245页

作者： Haimiao Zhang Baolong Sun Wei Wu Yang Li Ziyi Yin Chongchong Lu Haipeng Zhao Lingguang Kong Xinhua Ding State key laboratory of crop biology Shandong Provincial Key Laboratory of Agricultural MicrobiologyCollege of Plant ProtectionShandong Agricultural UniversityTai’an 271018China

Bacterial leaf streak caused by Xanthomonas oryzae ***(Xoc)is a continuous threat to rice cultivation,leading to substantial yield losses with socioeconomic *** ions are essential mineral nutrients for plant growth,but little information is available on how they influence mechanisms of rice immunity against ***,we investigated the role of the myeloblastosis-related(MYB)transcriptional repressor OsMYBxoc1 in modulation of rice resistance through control of iron ion *** of OsMYBxoc1 significantly increased rice resistance,whereas OsMYBxoc1 RNA-interference lines and knockout mutants showed the opposite *** of OsMYBxoc1 expression dampened the immune response induced by pathogen-associated molecular *** demonstrated that OsMYBxoc1 binds specifically to the OsNRAMP5 promoter and represses transcription of ***5,a negative regulator of rice resistance to bacterial leaf streak,possesses metal ion transport activity,and inhibition of OsMYBxoc1 expression increased the iron ion content in *** of the iondependent H2O2 scavenging enzyme catalase was increased in plants with suppressed expression of OsMYBxoc1 or overexpression of *** found that iron ions promoted Xoc infection and interfered with the production of reactive oxygen species induced by *** type Ⅲ effector XopAK directly inhibited OsMYBxoc1 transcription,indicating that the pathogen may promote its own proliferation by relieving restriction of iron ion transport in *** addition,iron complemented the pathogenicity defects of the RS105_DXopAK mutant strain,further confirming that iron utilization by Xoc may be dependent upon *** conclusion,our study reveals a novel mechanism by which OsMYBxoc1 modulates rice resistance by regulating iron accumulation and demonstrates that Xoc can accumulate iron ions by secreting the effector XopAK to promote its own infection.

关键词： pathogen effector plant immunity bacterial leaf streak metal ion

A graph-based pan-genome of Brassica oleracea provides new insights into its domestication and morphotype diversification

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Plant Communications 2024年第2期5卷 261-278页

作者： Ning Guo Shenyun Wang Tianyi Wang Mengmeng Duan Mei Zong Liming Miao Shuo Han Guixiang Wang Xin Liu Deshuang Zhang Chengzhi Jiao Hongwei Xu Liyang Chen Zhangjun Fei Jianbin Li Fan Liu State key laboratory of Vegetable Biobreeding National Engineering Research Center for VegetablesBeijing Key Laboratory of Vegetable Germplasm ImprovementKey Laboratory of Biology and Genetics Improvement of Horticultural Crops(North China)Beijing Vegetable Research CenterBeijing Academy of Agriculture and Forestry ScienceBeijing 100097China Jiangsu key laboratory for Horticultural crop Genetic Improvement Vegetable Research InstituteJiangsu Academy of Agricultural ScienceNanjingJiangsuChina Smartgenomics Technology institute Tianjin 301700China Boyce Thompson institute IthacaNYUSA

The domestication of Brassica oleracea has resulted in diverse morphological types with distinct patterns of organ *** we report a graph-based pan-genome of *** constructed from high-quality genome assemblies of different *** pan-genome harbors over 200 structural variant hotspot regions enriched in auxin-andflowering-related *** genomic analyses revealed that early domestication of *** focused on leaf or stem *** resulting from agricultural practices and variety improvement were detected among different ***-sweep and pan-genome analyses identified an auxin-responsive small auxin up-regulated RNA gene and a CLAV-ATA3/ESR-RELATED family gene as crucial players in leaf–stem differentiation during the early stage of *** domestication and the BoKAN1 gene as instrumental in shaping the leafy heads of cabbage and Brussels *** pan-genome and functional analyses further revealed that variations in the BoFLC2 gene play key roles in the divergence of vernalization andflowering characteristics among different morphotypes,and variations in thefirst intron of BoFLC3 are involved infine-tuning theflowering process in *** study provides a comprehensive understanding of the pan-genome of *** and sheds light on the domestication and differential organ development of this globally important crop species.

关键词： Brassica oleracea graph-based pan-genome structural variants SV domestication morphotype diversification

Genes controlling grain chalkiness in rice

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The crop Journal 2024年第4期12卷 979-991页

作者： Luo Chen Xiumei Li Minhua Zheng Rui Hu Jingfang Dong Lingyan Zhou Wuge Liu Dilin Liu Wu Yang rice Research institute Guangdong Academy of Agricultural SciencesGuangdong Key Laboratory of New Technology in Rice BreedingGuangdong Rice Engineering LaboratoryKey Laboratory of Genetics and Breeding of High Quality Rice in Southern China(Co-construction by Ministry and Province)Ministry of Agriculture and Rural AffairsGuangzhou 510640GuangdongChina College of Agriculture and biology Zhongkai University of Agriculture and EngineeringGuangzhou 510225GuangdongChina Guangdong Provincial key laboratory for crop Germplasm Resources Preservation and Utilization Agro-biological Gene Research CenterGuangdong Academy of Agricultural SciencesGuangzhou 510640GuangdongChina

With rising living standards,there is an increasing demand for high-quality *** quality is mainly defined by milling quality,appearance quality,cooking and eating quality,and nutrition *** them,chalkiness is a key trait for appearance quality,which adversely affects cooking and eating quality,head rice yield,and commercial ***,chalkiness is undesirable,and reducing chalkiness is a major goal in rice quality ***,chalkiness is a complex trait jointly influenced by genetic and environmental factors,making its genetic study and precision improvement a huge *** the rapid development of molecular techniques,much knowledge has been gained about the genes and molecular networks involved in chalkiness *** present review describes the major environmental factors affecting chalkiness and summarizes the quantitative trait loci(QTL)associated with *** than 150 genes related to chalkiness formation have been *** functions of the genes regulating chalkiness,primarily those involved in starch synthesis,storage protein synthesis,transcription regulation,organelle development,grain shape regulation,and hightemperature response,are ***,we identify the challenges associated with genetic improvement of chalkiness and suggest potential ***,the review offers insight into the molecular dynamics of chalkiness and provides a strong basis for the future breeding of high-quality rice varieties.

关键词： rice Grain quality Chalkiness QTL identification Gene

Identification of new cotton fiber-quality QTL by multiple genomic analyses and development of markers for genomic breeding

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The crop Journal 2024年第3期12卷 866-879页

作者： Haozhe Tan Binghui Tang Mengling Sun Qiulu Yin Yizan Ma Jianying Li Pengcheng Wang Zhonghua Li Guannan Zhao Maojun Wang Xianlong Zhang Chunyuan You Lili Tu national key laboratory of crop Genetic Improvement Hubei Hongshan LaboratoryHuazhong Agricultural UniversityWuhan 430070HubeiChina Cotton Research institute Shihezi Academy of Agriculture ScienceShihezi 832000XinjiangChina

Cotton fiber is one of the main raw materials for the textile *** recent years,many cotton fiber quality QTL have been identified,but few were applied in *** this study,a genome wide association study(GWAS)of fiber-quality traits in 265 upland cotton breeding intermediate lines(GhBreeding),combined with genome-wide selective sweep analysis(GSSA)and genomic selection(GS),revealed 25 *** of these QTL were ignored by only using *** CRISPR/Cas9 mutants of GhMYB_D13 had shorter fiber,which indicates the credibility of QTL to a certain *** these QTL were verified in other cotton natural populations,5 stable QTL were found having broad potential for application in ***,among these 5 stable QTL,superior genotypes of 4 showed an enrichment in most improved new varieties widely cultivated *** findings provide insights for how to identify more QTL through combined multiple genomic analysis to apply in breeding.

关键词： Cotton fiber quality breeding GWAS Genome-wide selective sweep analysis Genomic selection InDel markers

Seed Storability in rice: Physiological Foundations, Molecular Mechanisms, and Applications in Breeding

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rice science 2024年第4期31卷 401-416,I0023-I0024页

作者： ZHOU Tianshun YU Dong WU Liubing XU Yusheng DUAN Meijuan YUAN Dingyang Longping Branch College of BiologyHunan UniversityChangsha 410125China State key laboratory of Hybrid rice Hunan Hybrid Rice Research CenterHunan Academy of Agricultural SciencesChangsha 410125China Hunan Provincial key laboratory of rice Stress biology College of AgronomyHunan Agricultural UniversityChangsha 410128China

Long-term storage of crop seeds is critical for the conservation of germplasm resources, ensuring food supply, and supporting sustainable production. rice, as a major food staple, has a substantial stock for consumption and production worldwide. However, its food value and seed viability tend to decline during storage. Understanding the physiological responses and molecular mechanisms of aging tolerance forms the basis for enhancing seed storability in rice. This review outlines the latest progress in influential factors, evaluation methods, and identification indices of seed storability. It also discusses the physiological consequences, molecular mechanisms, and strategies for breeding aging-tolerant rice in detail. Finally, it highlights challenges in seed storability research that require future attention. This review offers a theoretical foundation and research direction for uncovering the mechanisms behind seed storability and breeding aging-tolerant rice.

关键词： rice seed storability physiological response molecular mechanism aging-tolerant breeding

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

Identification of the BTA8 gene reveals the contribution of natural variation to tiller angle in rice

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Journal of Integrative Agriculture 2024年第8期23卷 2868-2871页

作者： Junrong Liu Xingyu Wang Jing Wang Junhua Ye Mengchen Zhang Qun Xu Yaolong Yang Xinghua Wei Baoyan Jia Yue Feng State key laboratory of rice biology and Breeding China National Rice Research InstituteHangzhou 310006China College of Agronomy Shenyang Agricultural UniversityShenyang 110866China national Nanfan Research institute(Sanya) Chinese Academy of Agricultural SciencesSanya 572024China

Plant architecture is a collection of major agronomic traits that determines rice grain production,and it is mainly influenced by tillering,tiller angle,plant height and panicle morphology(Wang and Li 2006).Tiller angle is one of the critical components that determines rice plant architecture,which in turn influences grain yield mainly due to its large impact on plant density(Wang et al.2022).

关键词： angle panicle agronomic

GmDFB1,an ARM-repeat superfamily protein,regulates floral organ identity through repressing siRNA-and miRNA-mediated gene silencing in soybean

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Journal of Integrative Plant biology 2024年第8期66卷 1620-1638页

作者： Jie Li Wenxiao Zhang Qing Lu Jiaqi Sun Chuang Cheng Shiyu Huang Shuo Li Qiang Li Wei Zhang Chuanen Zhou Bin Liu Fengning Xiang The key laboratory of Plant Development and Environmental Adaptation biology Ministry of EducationSchool of Life SciencesShandong UniversityQingdao 266237China State key laboratory of crop Gene Resources and Breeding Institute of Crop SciencesChinese Academy of Agricultural SciencesBeijing 100081China

The development of flowers in soybean(Glycine max)is essential for determining the yield potential of the *** silencing pathways are involved in modulating flower development,but their full elucidation is still ***,we conducted a forward genetic screen and identified an abnormal flower mutant,deformed floral bud1-1(Gmdfb1-1),in *** mapped and identified the causal gene,which encodes a member of the armadillo(ARM)-repeat *** small RNA sequencing(sRNA-seq),we found an abnormal accumulation of small interfering RNAs(si RNAs)and microRNA(miRNAs)in the Gmdfb1 *** further demonstrated that GmDFB1 interacts with the RNA exosome cofactor SUPER KILLER7(Gm SKI7).Additionally,GmDFB1 interacts with the PIWI domain of ARGONAUTE 1(GmAGO1)to inhibit the cleavage efficiency on the target genes of s *** enhanced gene silencing mediated by siRNA and miRNA in the Gmdfb1 mutants leads to the downregulation of their target genes associated with flower *** study revealed the crucial role of GmDFB1 in regulating floral organ identity in soybean probably by participating in two distinct gene silencing pathways.

关键词： ARM-repeat superfamily protein ARGONAUTE 1 SUPER KILLER 7 flower development gene silencing small RNAs soybean