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Peculiarity of transcriptional and H3K27me3 dynamics during peach bud dormancy

Horticultural Plant Journal 2024年第1期10卷 38-50页

作者： Yalin Zhao Yong Li Ke Cao Weichao Fang Changwen Chen Xinwei Wang Jinlong Wu Wenwu Guo Lirong Wang The key laboratory of biology and genetic Improvement of Horticultural Crops(Fruit Tree breeding Technology) Ministry of AgricultureZhengzhou Fruit Research InstituteChinese Academy of Agricultural SciencesZhengzhouHenan 450009China Western Research Institute Chinese Academy of Agricultural SciencesChangjiXinjiang 831100China College of Horticulture and Forestry Science Huazhong Agricultural UniversityWuhanHubei 430070China

Bud dormancy facilitates the survival of meristems under harsh environmental *** elucidate how molecular responses to chilling accumulation controlling dormancy in peach buds,chromatin immunoprecipitation sequencing to identify the H3K27me3 modifications and RNA sequencing of two peach cultivars with pronounced differences in chilling requirement were carried out,the results showed that genes associated with abscisic acid and gibberellic acid signal pathways play key roles in dormancy *** results demonstrated that peach flower bud differentiation occurred continuously in both cultivars during chilling accumulation,which was correlated with the transcript abundance of key genes involved in phytohormone metabolism and flower bud development under adverse *** more increased strength in high chillingrequirement cultivar along with the chilling accumulation at the genome-wide *** function of the dormancy-associated MADS-box gene PpDAM6 was identified,which is involved in leaf bud break in peach and flower development in transgenic Nicotiana tabacum(NC89).In addition,PpDAM6 was positively regulated by PpCBF,and the genes of putative dormancy-related and associated with metabolic pathways were *** together,these results constituted a theoretical basis for elucidating the regulation of peach bud dormancy transition.

关键词： Peach bud Dormancy RNA-seq H3K27me3 Chilling requirement

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OsNAC5 orchestrates OsABI5 to fine-tune cold tolerance in rice

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Journal of Integrative Plant biology 2024年第4期66卷 660-682页

作者： Ruiqing Li Yue Song Xueqiang Wang Chenfan Zheng Bo Liu Huali Zhang Jian Ke Xuejing Wu Liquan Wu Ruifang Yang Meng Jiang College of Agronomy Anhui Agricultural UniversityHefei 230036China Hainan Institute Yazhou Bay Sci-Tech CityZhejiang UniversitySanya 572025China National key laboratory of Rice biology Advanced Seed InstituteZhejiang UniversityHangzhou 311225China State key laboratory of Rice biology and Chinese National Center for Rice Improvement China National Rice Research InstituteHangzhou 311401China key laboratory of Germplasm Innovation and genetic Improvement of Grain and Oil Crops(Co-Construction by Ministry and Province) Ministry of Agriculture and Rural AffairsCrop Breeding and Cultivation Research InstituteShanghai Academy of Agricultural SciencesShanghai 201106China

Due to its tropical origins,rice(Oryza sativa)is susceptible to cold stress,which poses severe threats to ***5,a NAC-type transcription factor,participates in the cold stress response of rice,but the detailed mechanisms remain poorly ***,we demonstrate that OsNAC5 positively regulates cold tolerance at germination and in seedlings by directly activating the expression of ABSCISIC ACID INSENSITIVE 5(OsABI5).Haplotype analysis indicated that single nucleotide polymorphisms in a NAC-binding site in the OsABI5 promoter are strongly associated with cold ***5 also enhanced OsABI5 stability,thus regulating the expression of cold-responsive(COR)genes,enabling fine-tuned control of OsABI5 action for rapid,precise plant responses to cold *** affinity purification sequencing coupled with transcriptome deep sequencing identified several OsABI5 target genes involved in COR expression,including DEHYDRATION-RESPONSIVE ELEMENT BINDING FACTOR 1A(OsDREB1A),OsMYB20,and PEROXIDASE 70(OsPRX70).In vivo and in vitro analyses suggested that OsABI5 positively regulates COR gene transcription,with marked COR upregulation in OsNAC5-overexpressing lines and downregulation in osnac5 and/or osabi5 knockout *** study extends our understanding of cold tolerance regulation via OsNAC5 through the OsABI5-CORs transcription module,which may be used to ameliorate cold tolerance in rice via advanced breeding.

关键词： ABA signaling ABI5 cold tolerance DREB NAC5 rice

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HEMU:An integrated comparative genomics database and analysis platform for Andropogoneae grasses

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Plant Communications 2024年第4期5卷 133-136页

作者： Yuzhi Zhu Zijie Wang Zanchen Zhou Yuting Liu Xiang Gao Weilong Guo Junpeng Shi School of Agriculture Shenzhen Campus of Sun Yat-sen UniversitySun Yat-sen UniversityShenzhen 518107China Frontiers Science Center for Molecular Design breeding Key Laboratory of Crop Heterosis and Utilization(MOE)and Beijing Key Laboratory of Crop Genetic ImprovementChina Agricultural UniversityBeijing 100193China These authors contributed equally to this article.

Dear Editor,Tribe Andropogoneae within the family Poaceae encompasses92 genera and 1200 species of substantial agronomic and ecological importance,as represented by maize(Zea mays),sorghum(Sorghum bicolor),sugarcane(... 详细信息

关键词： mays) crops pogon

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Cultivating potential:Harnessing plant stem cells for agricultural crop improvement

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Molecular Plant 2024年第1期17卷 50-74页

作者： Penelope Lindsay Kyle W.Swentowsky David Jackson Cold Spring Harbor laboratory Cold Spring HarborNY 11724USA National key laboratory of Crop genetic Improvement Huazhong Agricultural UniversityWuhanHubei430070China

Meristems are stem cell-containing structures that produce all plant organs and are therefore important targets for crop *** regulators control the balance and rate of cell divisions within the *** these regulators impacts meristem architecture and,as a consequence,plant *** this review,we discuss genes involved in regulating the shoot apical meristem,inflorescence meristem,axillary meristem,root apical meristem,and vascular cambium in *** highlight several examples showing how crop breeders have manipulated developmental regulators to modify meristem growth and alter crop traits such as inflorescence size and branching *** transformation techniques are another innovation related to plant meristem research because they make crop genome engineering *** discuss recent advances on plant transformation made possible by studying genes controlling meristem ***,we conclude with discussions about how meristem research can contribute to crop improvement in the coming decades.

关键词： meristem crop improvement plant transformation plant breeding crop yield gene editing

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The RUBY reporter for visual selection in soybean genome editing

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aBIOTECH 2024年第2期5卷 209-213页

作者： Li Chen Yupeng Cai Xiaoqian Liu Weiwei Yao Shuiqing Wu Wensheng Hou State key laboratory of Crop Gene Resources and breeding Institute of Crop SciencesChinese Academy of Agricultural SciencesBeijing 100081China Ministry of Agriculture key laboratory of Soybean biology(Beijing) Institute of Crop SciencesChinese Academy of Agricultural SciencesBeijing 100081China

Current systems to screen for transgenic soybeans(Glycine max)involve laborious molecular assays or the expression of fluorescent markers that are difficult to see in soybean ***,a visual system for early screening of transgenic plants would increase the efficiency of crop improvement by genome *** RUBY reporter system,which consists of three genes encoding betalain biosynthetic enzymes,leading to the accumulation of purple pigment in transgenic tissue,has been employed in some plants and dikaryon ***,we assessed the RUBY reporter for visual verification during soybean *** show that RUBY can be expressed in soybean,allowing for visual confirmation of transgenic events without the need for specialized *** with visible accumulation of purple pigment in any tissue were successfully transformed,confirming the accuracy of the RUBY system as a visual *** also assessed the genetic stability of the transgene across generations,which can be performed very early,using the cotyledons of the ***-free seedlings have a distinct green color,facilitating the selection of genome-edited but transgene-free soybean seedlings for *** the RUBY system,we quickly identified a transgene-free Gmwaxy mutant in the T1 *** system thus provides an efficient and convenient tool for soybean genome editing.

关键词： Soybean RUBY Visual reporter Genome editing Biotechnology

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OsNPF3.1,a nitrate,abscisic acid and gibberellin transporter gene,is essential for rice tillering and nitrogen utilization efficiency

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Journal of Integrative Agriculture 2024年第4期23卷 1087-1104页

作者： Junnan Hang Bowen Wu Diyang Qiu Guo Yang Zhongming Fang Mingyong Zhang Institute of Rice Industry Technology Research/key laboratory of Functional Agriculture Guizhou Provincial Department of Education/Key Laboratory of Plant Resource Conservation and Germplasm Innovation in Mountainous RegionMinistry of Education/Key Laboratory of Molecular Breeding for Grain and Oil Crops in Guizhou Province/College of Agricultural SciencesGuizhou UniversityGuiyang 550025China key laboratory of South China Agricultural Plant Molecular Analysis and genetic Improvement/Guangdong Provincial key laboratory of Applied Botany/South China Botanical Garden Chinese Academy of SciencesGuangzhou 510650China Institute of Fruit Tree Research Guangdong Academy of Agricultural SciencesGuangzhou 510640China

Low-affinity nitrate transporter genes have been identified in subfamilies 4-8 of the rice nitrate transporter 1(NRT1)/peptide transporter family(NPF),but the OsNPF3 subfamily responsible for nitrate and phytohormone transport and rice growth and development remains *** this study,we described OsNPF3.1 as an essential nitrate and phytohormone transporter gene for rice tillering and nitrogen utilization efficiency(NUtE).OsNPF3.1 possesses four major haplotypes of its promoter sequence in 517 cultivars,and its expression is positively associated with tiller *** expression was higher in the basal part,culm,and leaf blade than in other parts of the plant,and was strongly induced by nitrate,abscisic acid(ABA)and gibberellin 3(GA_3)in the root and shoot of *** experiments demonstrated that OsNPF3.1 is a pH-dependent low-affinity nitrate transporter,with rice protoplast uptake assays showing it to be an ABA and GA_3 ***3.1 overexpression significantly promoted ABA accumulation in the roots and GA accumulation in the basal part of the plant which inhibited axillary bud outgrowth and rice tillering,especially at high nitrate *** NUtE of OsNPF3.1-overexpressing plants was enhanced under low and medium nitrate concentrations,whereas the NUtE of OsNPF3.1 clustered regularly interspaced short palindromic repeats(CRISPR)plants was increased under high nitrate *** results indicate that OsNPF3.1 transports nitrate and phytohormones in different rice tissues under different nitrate *** altered OsNPF3.1 expression improves NUtE in the OsNPF3.1-overexpressing and CRISPR lines at low and high nitrate concentrations,respectively.

关键词： rice tillering grain yield phytohormone nitrate transporter nitrogen utilization efficiency

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A simple and efficient CRISPR/Cas9 system permits ultra-multiplex genome editing in plants

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The Crop Journal 2024年第2期12卷 569-582页

作者： Suting Wu Htin Kyaw Zhijun Tong Yirong Yang Zhiwei Wang Liying Zhang Lihua Deng Zhiguo Zhang Bingguang Xiao William Paul Quick Tiegang Lu Guoying Xiao Guannan Qin Xue'an Cui Biotechnology Research Institute Chinese Academy of Agricultural SciencesBeijing 100081China key laboratory of genetics Breeding and Multiple Utilization of CropsMinistry of EducationCollege of AgricultureFujian Agriculture and Forestry UniversityFuzhou 350002FujianChina key laboratory of Biological breeding for Fujian and Taiwan Crops Ministry of Agriculture and Rural AffairsCollege of AgricultureFujian Agriculture and Forestry UniversityFuzhou 350002FujianChina key laboratory of Agro-ecological Processes in Subtropical Region Institute of Subtropical AgricultureChinese Academy of SciencesChangsha 410125HunanChina School of Biosciences The University of SheffieldFirth CourtWestern BankSheffield S102TNUK key laboratory of Tobacco Biotechnological breeding National Tobacco Genetic Engineering Research CenterYunnan Academy of Tobacco Agricultural SciencesKunming 650021YunnanChina

The development and maturation of the CRISPR/Cas genome editing system provides a valuable tool for plant functional genomics and genetic *** available genome-editing tools have a limited number of targets,restricting their application in genetic *** this study,we developed a novel CRISPR/Cas9 plant ultra-multiplex genome editing system consisting of two template vectors,eight donor vectors,four destination vectors,and one primer-design software *** combining the advantages of Golden Gate cloning to assemble multiple repetitive fragments and Gateway recombination to assemble large fragments and by changing the structure of the amplicons used to assemble sg RNA expression cassettes,the plant ultra-multiplex genome editing system can assemble a single binary vector targeting more than 40 genomic loci.A rice knockout vector containing 49 sg RNA expression cassettes was assembled and a high co-editing efficiency was *** plant ultra-multiplex genome editing system advances synthetic biology and plant genetic engineering.

关键词： CRISPR/Cas9 Multiplex genome editing Assembly system Plant

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DIA-based proteome profiling with PRM verification reveals the involvement of ER-associated protein processing in pollen abortion in Ogura CMS cabbage

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Horticultural Plant Journal 2024年第3期10卷 755-770页

作者： Peiwen Wang Lin Zhu Ziheng Li Mozhen Cheng Xiuling Chen Aoxue Wang Chao Wang Xiaoxuan Zhang key laboratory of biology and genetic Improvement of Horticultural Crops(Northeast Region) Ministry of Agriculture and Rural AffairsNortheast Agricultural UniversityHarbinHeilongjiang 150030China College of Horticulture and Landscape Architecture Northeast Agricultural UniversityHarbinHeilongjiang 150030China

Ogura cytoplasmic male sterility(Ogura CMS)is extensively applied in hybrid seed production in cruciferous ***,the posttranscriptional molecular basis of Ogura CMS in cruciferous crops remains ***,a data-independent acquisition-based proteomic approach coupled with a parallel reaction monitoring-based targeted proteomic assay was used to analyze the proteome dynamics of Ogura CMS cabbage line RM and its maintainer line RF during floral bud development to obtain insights into the mechanism underlying Ogura CMS in cruciferous crops.A total of 9162 proteins corresponding to 61464 peptides were identified in RM and RF floral *** proteomic fluctuation of RM was weaker than that of *** in protein expression between RM and RF gradually enlarged with floral bud *** continually up-regulated and eight continually down-regulated proteins were found in RM relative to RF throughout floral bud *** expressed proteins between RM and RF during floral bud development were implicated in the endoplasmic reticulum(ER)-associated protein processing pathway,in which most of them exhibited down-regulated expression in *** data suggest that ER-associated protein processing may be involved in pollen abortion in Ogura CMS cabbage by inhibiting the expression of critical *** findings not only deepen the understanding of the molecular mechanisms of Ogura CMS in cruciferous crops but also provide better guidance for applying Ogura CMS in the hybrid breeding of cruciferous crops.

关键词： Ogura cytoplasmic male sterility(Ogura CMS) Cabbage Data-independent acquisition(DIA) Parallel reaction monitoring(PRM) Pollen development

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TabHLH27 orchestrates root growth and drought tolerance to enhance water use efficiency in wheat

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Journal of Integrative Plant biology 2024年第7期66卷 1295-1312页

作者： Dongzhi Wang Xiuxiu Zhang Yuan Cao Aamana Batool Yongxin Xu Yunzhou Qiao Yongpeng Li Hao Wang Xuelei Lin Xiaomin Bie Xiansheng Zhang Ruilian Jing Baodi Dong Yiping Tong Wan Teng Xigang Liu Jun Xiao key laboratory of Plant Cell and Chromosome Engineering Institute of Genetics and Developmental BiologyChinese Academy of SciencesBeijing 100101China University of Chinese Academy of Sciences Beijing 100049China Center for Agricultural Resources Research Institute of Genetics and Developmental BiologyChinese Academy of SciencesShijiazhuang 050022China key laboratory of Crop biology College of Life SciencesShandong Agricultural UniversityTai'an 271018China State key laboratory of Crop Gene Resources and breeding Institute of Crop SciencesChinese Academy of Agricultural SciencesBeijing 100081China Ministry of Education key laboratory of Molecular and Cellular biology Hebei Research Center of the Basic Discipline of Cell BiologyHebei Collaboration Innovation Center for Cell Signaling and Environmental AdaptationHebei Key Laboratory of Molecular and Cellular BiologyCollege of Life SciencesHebei Normal UniversityShijiazhuang 050024China Centre of Excellence for Plant and Microbial Science(CEPAMS) JIC‐CASBeijing 100101China

Cultivating high-yield wheat under limited water resources is crucial for sustainable agriculture in semiarid *** water scarcity,plants activate drought response signaling,yet the delicate balance between drought tolerance and development remains *** genome-wide association studies and transcriptome profiling,we identified a wheat atypical basic helix-loop-helix(b HLH)transcription factor(TF),Tab HLH27-A1,as a promising quantitative trait locus candidate for both relative root dry weight and spikelet number per spike in *** HLH27-A1/B1/D1 knockout reduced wheat drought tolerance,yield,and water use efficiency(WUE).Tab HLH27-A1 exhibited rapid induction with polyethylene glycol(PEG)treatment,gradually declining over *** activated stress response genes such as Ta CBL8-B1 and Ta CPI2-A1 while inhibiting root growth genes like Ta SH15-B1 and Ta WRKY70-B1 under short-term PEG *** distinct transcriptional regulation of Tab HLH27-A1 involved diverse interacting factors such as Ta ABI3-D1 and Tab *** variations of Tab HLH27-A1influence its transcriptional responses to drought stress,with Tab HLH27-A1^(Hap-II)associated with stronger drought tolerance,larger root system,more spikelets,and higher WUE in ***,the excellent Tab HLH27-A1^(Hap-II)was selected during the breeding process in China,and introgression of Tab HLH27-A1^(Hap-II)allele improved drought tolerance and grain yield,especially under water-limited *** study highlights Tab HLH27-A1's role in balancing root growth and drought tolerance,providing a genetic manipulation locus for enhancing WUE in wheat.

关键词： drought tolerance GWAS root growth wheat WUE

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Artificial selection of the Green Revolution gene Semidwarf 1 is implicated in upland rice breeding

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Journal of Integrative Agriculture 2024年第3期23卷 769-780页

作者： Shuliang Jiao Qinyan Li Fan Zhang Yonghong Tao Yingzhen Yu Fan Yao Qingmao Li Fengyi Hu Liyu Huang key laboratory of biology and Germplasm Innovation of Perennial Rice Ministry of Agriculture and Rural Affairs/School of AgricultureYunnan UniversityKunming 650091China State key laboratory of Crop Gene Resources and breeding Institute of Crop SciencesChinese Academy of Agricultural SciencesBeijing 100081China Wenshan Academy of Agricultural Sciences Wenshan 663000China

Semidwarf breeding has boosted crop production and is a well-known outcome from the first Green Revolution. The Green Revolution gene Semidwarf 1(SD1), which modulates gibberellic acid(GA) biosynthesis, plays a principal role in determining rice plant height. Mutations in SD1 reduce rice plant height and promote lodging resistance and fertilizer tolerance to increase grain production. The plant height mediated by SD1 also favors grain yield under certain conditions. However, it is not yet known whether the function of SD1 in upland rice promotes adaptation and grain production. In this study, the plant height and grain yield of irrigated and upland rice were comparatively analyzed under paddy and dryland conditions. In response to dryland environments, rice requires a reduction in plant height to cope with water deficits. Upland rice accessions had greater plant heights than their irrigated counterparts under both paddy and dryland conditions, and appropriately reducing plant height could improve adaptability to dryland environments and maintain high grain yield formation. Moreover, upland rice cultivars with thicker stem diameters had stronger lodging resistance, which addresses the lodging problem. Knockout of SD1 in the upland rice cultivar IRAT104 reduced the plant height and grain yield, demonstrating that the adjustment of plant height mediated by SD1 could increase grain production in dryland fields. In addition, an SD1 genetic diversity analysis verified that haplotype variation causes phenotypic variation in plant height. During the breeding history of rice, SD1 allelic mutations were selected from landraces to improve the grain yield of irrigated rice cultivars, and this selection was accompanied by a reduction in plant height. Thus, five known mutant alleles were analyzed to verify that functional SD1 is required for upland rice production. All these results suggest that SD1 might have undergone artificial positive selection in upland rice, which provides

关键词： Green Revolution Semidwarf 1 high-yield breeding upland rice plant height

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