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Advances in DNA methylation and its role in cytoplasmic male sterility in higher plants

Journal of Integrative Agriculture 2024年第1期23卷 1-19页

作者： Atiqur Rahman Hasan Sofiur Rahman Shakil Uddin Naima Sultana Shirin Akhter Ujjal Kumar Nath Shamsun Nahar Begum Mazadul Islam Afroz Naznin Nurul Amin Sharif Ahmed Akbar Hossain Department of Genetics and Plant breeding Bangladesh Agricultural UniversityMymensingh 2202Bangladesh Plant breeding Division Bangladesh Institute of Nuclear AgricultureMymensingh 2202Bangladesh Tuber Crop Research Centre Bangladesh Agricultural Research Institute(BARI)Joydebpur 1701Bangladesh Horticulture Research Centre Bangladesh Agricultural Research Institute(BARI)Joydebpur 1701Bangladesh Biotechnology Division Bangladesh Agricultural Research Institute(BARI)Joydebpur 1701Bangladesh International Rice Research institute Bangladesh OfficeDhaka 1213Bangladesh Division of Soil science Bangladesh Wheat and Maize Research InstituteDinajpur 5200Bangladesh

The impact of epigenetic modifications like DNA methylation on plant phenotypes has expanded the possibilities for crop development.DNA methylation plays a part in the regulation of both the chromatin structure and gene expression,and the enzyme involved,DNA methyltransferase,executes the methylation process within the plant genome.By regulating crucial biological pathways,epigenetic changes actively contribute to the creation of the phenotype.Therefore,epigenome editing may assist in overcoming some of the drawbacks of genome editing,which can have minor off-target consequences and merely facilitate the loss of a gene’s function.These drawbacks include gene knockout,which can have such off-target effects.This review provides examples of several molecular characteristics of DNA methylation,as well as some plant physiological processes that are impacted by these epigenetic changes in the plants.We also discuss how DNA alterations might be used to improve crops and meet the demands of sustainable and environmentally-friendly farming.

关键词： DNA methylation epigenetics CMS male sterility chromatin architecture gene expression higher plants

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The gene encoding flavonol synthase contributes to lesion mimic in wheat

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The Crop Journal 2024年第3期12卷 814-825页

作者： Tingting Dong Hongchun Xiong Huijun Guo Yongdun Xie Linshu Zhao Jiayu Gu Huiyuan Li Shirong Zhao Yuping Ding Xiyun Song Luxiang Liu College of Life sciences Key Laboratory of Major Crop Germplasm Innovation and Application in QingdaoQingdao Agricultural UniversityQingdao 266109ShandongChina State Key Laboratory of Crop Gene Resources and breeding/National Engineering Laboratory of Crop Molecular breeding/CAEA Research and Development Centre on nuclear Technology Applications for Irradiation Mutation breeding Institute of Crop SciencesChinese Academy of Agricultural SciencesBeijing 100081China

Lesion mimic often exhibits leaf disease-like symptoms even in the absence of pathogen infection,and is characterized by a hypersensitive-response(HR)that closely linked to plant disease resistance.Despite this,only a few lesion mimic genes have been identified in wheat.In this investigation,a lesion mimic wheat mutant named je0297 was discovered,showing no alteration in yield components when compared to the wild type(WT).Segregation ratio analysis of the F_(2)individuals resulting from the cross between the WT and the mutant revealed that the lesion mimic was governed by a single recessive gene in je0297.Using Bulked segregant analysis(BSA)and exome capture sequencing,we mapped the lesion mimic gene designated as lm6 to chromosome 6BL.Further gene fine mapping using 3315 F_(2)individuals delimited the lm6 within a 1.18 Mb region.Within this region,we identified 16 high-confidence genes,with only two displaying mutations in je0297.Notably,one of the two genes,responsible for encoding flavonol synthase,exhibited altered expression levels.Subsequent phenotype analysis of TILLING mutants confirmed that the gene encoding flavonol synthase was indeed the causal gene for lm6.Transcriptome sequencing analysis revealed that the DEGs between the WT and mutant were significantly enriched in KEGG pathways related to flavonoid biosynthesis,including flavone and flavonol biosynthesis,isoflavonoid biosynthesis,and flavonoid biosynthesis pathways.Furthermore,more than 30 pathogen infection-related(PR)genes exhibited upregulation in the mutant.Corresponding to this expression pattern,the flavonoid content in je0297 showed a significant decrease in the 4^(th)leaf,accompanied by a notable accumulation of reactive oxygen,which likely contributed to the development of lesion mimic in the mutant.This investigation enhances our comprehension of cell death signaling pathways and provides a valuable gene resource for the breeding of disease-resistant wheat.

关键词： Lesion mimic mutant Wheat Gene mapping Flavonol synthase gene Flavonoid

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Radiative capture of proton through the ^(14)N(p,γ)^(15)O reaction at low energy

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Chinese Physics C 2024年第4期48卷 183-192页

作者： B.F.Irgaziev Abdul Kabir Jameel-Un Nabi National University of Uzbekistan Tashkent 100174Uzbekistan space and Astrophysics Research lab National Centre of GIS and Space ApplicationsDepartment of Space ScienceInstitute of Space TechnologyIslamabad 44000Pakistan University of Wah Quaid AvenueWah Cantt 47040PunjabPakistan

The CNO cycle is the main source of energy in stars more massive than our Sun.This process defines the energy production,the duration of which can be used to determine the lifetime of massive stars.The cycle is an important tool for determining the age of globular clusters.Radiative proton capture via p+^(14)N→^(15)O+γ,at energies of astrophysical interest,is an important process in the CNO cycle.In this project,we apply a potential model to describe both non-resonant and resonant reactions in the channels where radiative capture occurs through electric E1 transitions.We employed the R-matrix method to describe the ongoing reactions via M1 resonant transitions,when it was not possible to correctly reproduce the experimental data using the potential model.The partial components of the astrophysical S-factor are calculated for all possible electric and magnetic dipole transitions in ^(15)O.The linear extrapolated S-factor at zero energy(S(0))agrees well with earlier reported values for all transition types considered in this work.Based on the value of the total astrophysical S-factor,depending on the collision energy,we calculate the nuclear reaction rates for p+^(14)N→^(15)O+γ.The computed rates agree well with the results reported in the NACRE II Collaboration and most recent existing measurements.

关键词： CNO cycle potential model R-matrix method cross-section astrophysical S-factor nuclear rates.

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Bayesian partial pooling to reduce uncertainty in overcoring rock stress estimation

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Journal of Rock Mechanics and Geotechnical Engineering 2024年第4期16卷 1192-1201页

作者： Yu Feng Ke Gao Suzanne Lacasse Norwegian Geotechnical institute OsloNorway Department of Earth and space sciences Southern University of Science and TechnologyShenzhenChina

The state of in situ stress is a crucial parameter in subsurface engineering,especially for critical projects like nuclear waste repository.As one of the two ISRM suggested methods,the overcoring(OC)method is widely used to estimate the full stress tensors in rocks by independent regression analysis of the data from each OC test.However,such customary independent analysis of individual OC tests,known as no pooling,is liable to yield unreliable test-specific stress estimates due to various uncertainty sources involved in the OC method.To address this problem,a practical and no-cost solution is considered by incorporating into OC data analysis additional information implied within adjacent OC tests,which are usually available in OC measurement campaigns.Hence,this paper presents a Bayesian partial pooling(hierarchical)model for combined analysis of adjacent OC tests.We performed five case studies using OC test data made at a nuclear waste repository research site of Sweden.The results demonstrate that partial pooling of adjacent OC tests indeed allows borrowing of information across adjacent tests,and yields improved stress tensor estimates with reduced uncertainties simultaneously for all individual tests than they are independently analysed as no pooling,particularly for those unreliable no pooling stress estimates.A further model comparison shows that the partial pooling model also gives better predictive performance,and thus confirms that the information borrowed across adjacent OC tests is relevant and effective.

关键词： Overcoring stress measurement Uncertainty reduction Partial pooling Bayesian hierarchical model nuclear waste repository

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Constraints on axion-like particles from the observation of Galactic sources by the LHAASO

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Chinese Physics C 2024年第6期48卷 232-239页

作者：李军毕效军高林青黄晓渊姚润民殷鹏飞 Key Laboratory of Dark Matter and space Astronomy Purple Mountain ObservatoryChinese Academy of SciencesNanjing 210033China School of Astronomy and space science University of Science and Technology of ChinaHefei 230026China Key Laboratory of Particle Astrophysics Institute of High Energy PhysicsChinese Academy of SciencesBeijing 100049China School of Physical sciences University of Chinese Academy of SciencesBeijing 100049China School of nuclear science and Technology University of South ChinaHengyang 421001China

High-energy photons may oscillate with axion-like particles(ALPs)when they propagate through the Milky Way's magnetic field,resulting in an alteration in the observed photon energy spectrum.Ultra-high energy gamma-ray spectra,measured by the Large High Altitude Air Shower Observatory(LHAASO)up to O(1)PeV,provide a promising opportunity to investigate the ALP-photon oscillation effect.In this study,we utilize the gamma-ray spectra of four Galactic sources measured by the LHAASO,that is,the Crab Nebula,LHAASO J2226+6057,LHAASO J1908+0621,and LHAASO J1825-1326,to explore this effect.We employ the CLsmethod to set constraints on the ALP parameters.Our analysis of the observations of the four sources reveals that the ALPphoton coupling gaγis constrained to be smaller than 1.4×10^(-1)0GeV^(-1)for an ALP mass of~4×10^(-7)eV at 95%C.L.Combining the observations of the Crab Nebula from the LHAASO and other experiments,we find that the ALP-photon coupling may be set to approximately 7.5×10^(-11)GeV^(-1)for an ALP mass of~4×10^(-7)eV,which is similar to the CAST constraint.

关键词： axion-like particles gamma-ray Galactic sources

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Long radial coherence of electron temperature fluctuations in non-local transport in HL-2A plasmas

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Chinese Physics B 2024年第2期33卷 413-420页

作者：石中兵方凯锐李景春邹晓岚卢兆旸闻杰王占辉丁玄同陈伟杨曾辰蒋敏季小全佟瑞海李永高施陪万钟武律许敏 Southwestern institute of Physics Chengdu 610041China Department of Earth and space sciences Southern University of Science and TechnologyShenzhen 518055China Shenzhen Key Laboratory of nuclear and Radiation Safety College of Physics and Optoelectronic EngineeringShenzhen UniversityShenzhen 518060China CEA IRFMSaint-Paul-lez-Durance 13108France

The dynamics of long-wavelength(kθ<1.4 cm^(-1)),broadband(20 kHz–200 kHz)electron temperature fluctuations(Te/Te)of plasmas in gas-puff experiments are observed for the first time in HL-2A tokamak.In a relatively low density(ne(0)■0.91×10^(19)m^(-3)–1.20×10^(19)m^(-3))scenario,after gas-puffing the core temperature increases and the edge temperature drops.On the contrary,temperature fluctuation drops at the core and increases at the edge.Analyses show the non-local emergence is accompanied with a long radial coherent length of turbulent fluctuations.While in a higher density(ne(0)?1.83×10^(19)m^(-3)–2.02×10^(19)m^(-3))scenario,the phenomena are not observed.Furthermore,compelling evidence indicates that E×B shear serves as a substantial contributor to this extensive radial interaction.This finding offers a direct explanatory link to the intriguing core-heating phenomenon witnessed within the realm of non-local transport.

关键词： nuclear fusion non-local transport tokamak gas-puffing

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A novel semi-dominant allele of the transmembrane NAC transcription factor ZmNTL2 reduces the size of multiple maize organs

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The Crop Journal 2024年第3期12卷 676-687页

作者： Chuan Li Yun Bai Yuwei Hou Siyu Wang Yue Xin Tao Yu Jing Wang Xiaowei Liu Hongyang Yi Chao Xia Hai Lan Moju Cao State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China Maize Research InstituteSichuan Agricultural UniversityChengdu 611130SichuanChina Jilin Engineering Research Center for Crop Biotechnology breeding College of Plant ScienceJilin UniversityChangchun 130012JilinChina

Maize plant architecture influences planting density and,in turn,grain yield.Most of the plant architecture-related traits can be described as organ size.We describe a miniature maize mutant,Tiny plant 4(Tip4),which exhibits reduced size of multiple organs and exhibits a semi-dominant monofactorial inheritance characteristic.Positional cloning confirmed that a 4-bp deletion in the NAC TF with transmembrane motif 1-Like(NTL)gene ZmNTL2,denoted as ZmNTL2^(Δ),confers the Tip4 mutation.qRT-PCR showed that ZmNTL2 was expressed in all tested tissues.ZmNTL2 functions as a transcriptional activator and is located in both the nucleus and biomembranes.The mutation does not affect the mRNA abundance of ZmNTL2 locus,but it does result in the loss of transmembrane domain and confines the ZmNTL2^(Δ)protein to the nucleus.Knocking out ZmNTL2 has no effect on maize organ size development,indicating that the 4-bp deletion might be a gain-of-function mutation in organ size regulation.Combining transcriptome sequencing with cytokinin and auxin content determination suggests that the decreased organ size may be possibly mediated by changes in hormone homeostasis.

关键词： Organ size c-ray mutagenesis Membrane-bound NAC TF Hormone homeostasis Maize

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Revisiting the island of hexadecapoledeformation nuclei in the A≈150 mass region:focusing on the model application to nuclear shapes and masses

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Communications in Theoretical Physics 2024年第2期76卷 74-88页

作者： Xiao-Yang Wei Hua-Lei Wang Zhen-Zhen Zhang Min-Liang Liu School of Physics and Microelectronics Zhengzhou UniversityZhengzhou 450001China Key Laboratory of High Precision nuclear Spectroscopy Institute of Modern PhysicsChinese Academy of SciencesLanzhou 730000China School of nuclear science and Technology University of Chinese Academy of SciencesBeijing 100049China

Based on the potential-energy-surface calculation,the impact of different deformation degrees of freedom on a single-particle structure and binding energies in nuclei around^(152)Nd,located on one of the hexadecapole-deformation islands,is analyzed in a multi-dimensional deformation space.Various energy maps,curves and tables are presented to indicate nuclear properties.The calculated equilibrium deformations and binding energies with different potential parameters are compared with experimental data and other theories.It is found that the inclusion of the hexadecapole deformations,especially the axial one,can improve the theoretical description of both nuclear shapes and masses.In addition,our calculated potential-energy curve shows that a critical deformation-point,β_(2)≈0.4,exists—the triaxial(hexadecapole)deformation effect can be neglectable but the hexadecapole(triaxial)one plays an important role before(after)such a critical point.

关键词： hexadecapole deformation binding energy potential-energy-surface calculation nuclear property

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Design and prototyping of the readout electronics for the transition radiation detector in the high energy cosmic radiation detection facility

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nuclear science and Techniques 2024年第4期35卷 189-199页

作者： Jie-Yu Zhu Yang-Zhou Su Hai-Bo Yang Fen-Hua Lu Yan Yang Xi-Wen Liu Ping Wei Shu-Cai Wan Hao-Qing Xie Xian-Qin Li Cong Dai Hui-Jun Hu Hong-Bang Liu Shu-Wen Tang Cheng-Xin Zhao institute of Modern Physics Chinese Academy of SciencesLanzhou 730000China School of nuclear science and Technology University of Chinese Academy of SciencesBeijing 100049China Guangxi Key Laboratory for Relativistic Astrophysics School of Physical Science and TechnologyGuangxi UniversityNanning 530004China

The high energy cosmic-radiation detection(HERD)facility is planned to launch in 2027 and scheduled to be installed on the China space Station.It serves as a dark matter particle detector,a cosmic ray instrument,and an observatory for high-energy gamma rays.A transition radiation detector placed on one of its lateral sides serves dual purpose,(ⅰ)calibrating HERD's electromagnetic calorimeter in the TeV energy range,and(ⅱ)serving as an independent detector for high-energy gamma rays.In this paper,the prototype readout electronics design of the transition radiation detector is demonstrated,which aims to accurately measure the charge of the anodes using the SAMPA application specific integrated circuit chip.The electronic performance of the prototype system is evaluated in terms of noise,linearity,and resolution.Through the presented design,each electronic channel can achieve a dynamic range of 0–100 fC,the RMS noise level not exceeding 0.15 fC,and the integral nonlinearity was<0.2%.To further verify the readout electronic performance,a joint test with the detector was carried out,and the results show that the prototype system can satisfy the requirements of the detector's scientific goals.

关键词： HERD Dark matter particle detection TRD Readout electronics SAMPA Data acquisition Performance test

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Improve meat production and virus resistance by simultaneously editing multiple genes in livestock using Cas12i^(Max)

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science China(Life sciences) 2024年第3期67卷 555-564页

作者： Jilong Ren Tang Hai Yangcan Chen Ke Sun Zhiqiang Han Jing Wang Chongyang Li Qingwei Wang Leyun Wang Huabing Zhu Dawei Yu Wei Li Shanjiang Zhao State Key Laboratory of Animal Nutrition Key Laboratory of Animal GeneticsBreeding and Reproduction of Ministry of Agriculture and Rural AffairsInstitute of Animal ScienceChinese Academy of Agricultural SciencesBeijing 100193China State Key Laboratoryf Stem Cell and Reproductive Biology Instituteof ZooogyChinese Academyof SciencesBeijing 100101China Beijing institute for Stem Cell and Regenerative Medicine Beijing 100101China Beijing Farm Animal Research Center Institute of ZoologyChinese Academy of SciencesBeijing 100101China

The clustered regularly interspaced short palindromic repeats(CRISPR)/CRISPR-associated gene(Cas) system is continually optimized to achieve the most efficient gene editing effect. The Cas12i^(Max), a Cas12i variant, exhibits powerful DNA editing activity and enriches the gene editing toolbox. However, the application of Cas12i^(Max)in large domestic animals has not yet been reported. To verify the efficiency and feasibility of multiple gene editing in large animals, we generated porcine fibroblasts with simultaneous knockouts of IGF2, ANPEP, CD163,and MSTN via Cas12i^(Max)in one step. Phenotypically stable pigs were created through somatic cell nuclear transfer technology. They exhibited improved growth performance and muscle quality. Furthermore, we simultaneously edited three genes in bovine fibroblasts. A knockout of MSTN and PRNP was created and the amino acid Q-G in CD18 was precisely substituted. Meanwhile, no off-target phenomenon was observed by sum-type analysis or off-target detection. These results verified the effectiveness of Cas12i^(Max)for gene editing in livestock animals and demonstrated the potential application of Cas12i^(Max)in the field of animal trait improvement for agricultural production.

关键词： Cas12i^(Max) gene editing livestock multiple trait improvement

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