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Small RNAs and Transgenerational Epigenetic Variation

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American Journal of plant Sciences 2013年第3期4卷 641-646页

作者： Joanne R. M. Lee Zane Duxbury Ming-Bo Wang commonwealth scientific and industrial research organization plant industry Canberra Australia

Small RNAs are found in eukaryotes and are responsible for regulation of chromatin structure, RNA processing and stability, translation and transcription. 24-nt small interfering RNA (siRNA) are known to mediate gene inactivation via the RNA-directed DNA methylation pathway (RdDM) and are important for natural heritable changes in plant species. DNA cytosine methylation can be maintained between generations and this may be important for accelerated adaption to stress conditions. research is currently focused toward the epigenetic response to disease, the stability of DNA methylation over generations, the elucidation of newly discovered pathways for de novo DNA methylation, and the application of epigenetic variation to breeding programs. This review aims to give a brief but comprehensive examination on small RNAs and transgenerational epigenetic variation.

关键词： siRNA Epigenetics Arabidopsis Thaliana Transgenerational Epigenetic Variation RNA Directed DNA Methylation (RdDM)

Establishment of a system for screening and identification of novel bactericide targets in the plant pathogenic bacterium Xanthomonas oryzae pv. oryzae using Tn-seq and SPR

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Journal of Integrative Agriculture 2024年第5期23卷 1580-1592页

作者： Chaoyue Pang Ling Jin Haoyu Zang Damalk Saint-Claire SKoklannou Jiazhi Sun Jiawei Yang Yongxing Wang Liang Xu Chunyan Gu Yang Sun Xing Chen Yu Chen School of plant Protection Anhui Agricultural UniversityHefei 230036China Institute of plant Protection and Agro-Products Safety Anhui Academy of Agricultural SciencesHefei 230031China Anhui Province Laboratory for Green Pesticide Development and Application School of Plant ProtectionAnhui Agricultural UniversityHefei230036China Hefei research Center State Key Laboratory for Biology of Plant Diseases and Insect PestsHefei 230036China Key Laboratory of Integrated Crop Pest Management of Anhui Province School of Plant ProtectionAnhui Agricultural University Hefei230036China Shandong Vicome Greenland Chemical Co. Ltd.Jinan 250204China

Xanthomonas spp. cause severe bacterial diseases. However, effective strategies for prevention and management of these diseases are scarce. Thus, it is necessary to improve the efficiency of control of diseases caused by Xanthomonas. In this study, Xanthomonas oryzae pv. oryzae(Xoo), which causes rice bacterial leaf blight, has been studied as a representative. A transposon insertion library of Xoo, comprising approximately 200,000 individual insertion mutants, was generated. Transposon sequencing data indicated that the mariner C9 transposase mapped at 35.7–36.4% of all potential insertion sites, revealing 491 essential genes required for the growth of Xoo in rich media. The results show that, compared to the functions of essential genes of other bacteria, the functions of some essential genes of Xoo are unknown, 25 genes might be dangerous for the Xanthomonas group, and 3 are specific to Xanthomonas. High-priority candidates for developing broad-spectrum, Xanthomonas-specific, and environment-friendly bactericides were identified in this study. In addition, this study revealed the possible targets of dioctyldiethylenetriamine using surface plasmon resonance(SPR) in combination with high performance liquid chromatography–mass spectrometry(HPLC–MS). The study also provided references for the research of some certain bactericides with unknown anti-bacterial mode of action. In conclusion, this study urged a better understanding of Xanthomonas,provided meaningful data for the management of bacterial leaf blight, and disclosed selected targets of a novel bactericide.

关键词： rice bacterial leaf blight Xanthomonas essential genes Tn-seq dioctyldiethylenetriamine

Exploiting viral vectors to deliver genome editing reagents in plants

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aBIOTECH 2024年第2期5卷 247-261页

作者： Yilin Shen Tao Ye Zihan Li Torotwa Herman Kimutai Hao Song Xiaoou Dong Jianmin Wan State Key Laboratory of Crop Genetics and Germplasm Enhancement and Utilization Jiangsu Collaborative Innovation Centre for Modern Crop ProductionJiangsu Engineering Research Center for Plant Genome EditingNanjing Agricultural UniversityNanjing 210095China Zhongshan Biological Breeding Laboratory Nanjing 210014China Hainan Seed industry Laboratory Sanya 572025China State Key Laboratory of Crop Gene Resources and Breeding Institute of Crop SciencesChinese Academy of Agricultural SciencesBeijing 100081China

Genome editing holds great promise for the molecular breeding of plants,yet its application is hindered by the shortage of simple and effective means of delivering genome editing reagents into *** plant transformation-based methods for delivery of genome editing reagents into plants often involve prolonged tissue culture,a labor-intensive and technically challenging process for many elite crop *** this review,we describe various virus-based methods that have been employed to deliver genome editing reagents,including components of the CRISPR/Cas machinery and donor DNA for precision editing in *** update the progress in these methods with recent successful examples of genome editing achieved through virus-based delivery in different plant species,highlight the advantages and limitations of these delivery approaches,and discuss the remaining challenges.

关键词： plant genome engineering Genome editing CRISPR/Cas Virus-based delivery

Three decades and beyond:Breeding,biotech breakthroughs and future of China's GM insect-resistant cotton

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Journal of Integrative Agriculture 2024年第10期23卷 3243-3249页

作者： Chengzhen Liang Shuangxia Jin Youth Editorial Board of JIA Biotechnology research Institute Chinese Academy of Agricultural Sciences College of plant Science & Technology Huazhong Agricultural UniversityWuhan 430070China

Cotton(Gossypium spp.)is a pivotal crop in the global textile industry,providing essential natural ***,cottonseed offers significant value as a source of oil and as feed for livestock(Huang et al.2021;Wen et al.2023).The sector,dependent on cotton,features a comprehensive value chain extending from the processing of fibers to the production of finished textiles,and it employs tens of millions of individuals(Dorward et al.1970).

关键词： breakthrough cotton finished

Mitigating growth-stress tradeoffs via elevated TOR signaling in rice

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Molecular plant 2024年第2期17卷 240-257页

作者： Wei Li Jiaqi Liu Zeqi Li Ruiqiang Ye Wenzhen Chen Yuqing Huang Yue Yuan Yi Zhang Huayi Hu Peng Zheng Zhongming Fang Zeng Tao Shiyong Song Ronghui Pan Jian Zhang Jumim Tu Jen Sheen Hao Du State Key Laboratory of Rice Biology College of Agriculture and BiotechnologyZhejiang UniversityYu-Hang-Tang Road No.866Hangzhou 310058China ZJU-Hangzhou Global scientific and Technological Innovation Center Zhejiang UniversityHangzhou 311215China Hainan Institute of Zhejiang University Sanya 572025China National Key Laboratory of plant Molecular Genetics CASCenter for Excellence in Molecular Plant SciencesShanghai lnstitute of Plant Physiology and EcologyChineseAcademy of SciencesShanghai 200032China Key Laboratory of plant Resource Conservation and Germplasm Innovation in Mountainous Region(Ministry of Education) College of Agricultural SciencesGuizhouUniversityGuiyang 550025China State Key Laboratory of Rice Biology and Breeding China National Rice Research InstituteHangzhou 311400China Department of Molecular Biology and Center for Computational and Integrative Biology Massachusetts General Hospitaland Department of GeneticsHarvard Medical SchoolBostonMA02114USA

Rice production accounts for approximately half of the freshwater resources utilized in agriculture,result-ing in greenhouse gas emissions such as methane(CH4)from flooded paddy *** address this chal-lenge,environmentally friendly and cost-effective water-saving techniques have become widely adopted in rice ***,the implementation of water-saving treatments(WsTs)in paddy-field rice has been associated with a substantial yield loss of up to 50%as well as a reduction in nitrogen use efficiency(NUE).In this study,we discovered that the target of rapamycin(TOR)signaling pathway is compromised in rice under *** profiling-coupled transcriptome sequencing(polysome-seq)analysis unveiled a substantial reduction in global translation in response to WST associated with the downregulation of TOR ***,biochemical,and genetic analyses revealed new insights into the impact of the positive TOR-S6K-RPS6 and negative TOR-MAF1 modules on translation repression under ***,ammonium exhibited a greater ability to alleviate growth constraints under WsT by enhancing TOR signaling,which simultaneously promoted uptake and utilization of ammonium and nitrogen *** further demonstrated that TOR modulates the ammonium transporter AMT1;1 as well as the amino acid permease APP1 and dipeptide transporter NPF7.3 at the translational level through the 5'untranslated ***,these findings reveal that enhancing TOR signaling could mitigate rice yield penalty due to WST by regulating the processes involved in protein synthesis and *** study will contribute to the breeding of new rice varieties with increased water and fertilizer utilization efficiency.

关键词： target of rapamycin TOR water-saving rice low-carbon agriculture drought nitrogen use efficiency NUE

Biochar-based materials as remediation strategy in petroleum hydrocarbon-contaminated soil and water:Performances,mechanisms,and environmental impact

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Journal of Environmental Sciences 2024年第4期138卷 350-372页

作者： Zhuo Wei YiWei Yang Liu Shuai Niu Yaxi Xu Jong-Hwan Park Jim J.Wang Faculty of Environmental Science&Engineering Kunming University of Science&TechnologyKunming 650500China School of plant Environment&Soil SciencesLouisiana State University AgCenter.Baton RougeLA 70803USA Department of Life Resources industry Dong-A University37Nakdong-daero 550 beon-gilSaha-guBusan 49315South Korea

Petroleum contamination is considered as a major risk to the health of humans and *** as low-cost and eco-friendly carbon materials,have been widely used for the removal of petroleum hydrocarbon in the *** purpose of this paper is to review the performance,mechanisms,and potential environmental toxicity of biochar,modified biochar and its integration use with other materials in petroleum contaminated soil and ***,the use of biochar in oil-contaminated water and soil as well as the factors that could influence the removal ability of biochar were systematically *** addition,the modification and integrated use of biochar for improving the removal efficiency were summarized from the aspects of sorption,biodegradation,chemical degradation,and ***,the functional impacts and associated ecotoxicity of pristine and modified biochars in various environments were ***,some shortcoming of current approaches,and future research needs were provided for the future direction and challenges of modified biochar ***,this paper gain insight into biochar application in petroleum remediation from the perspectives of performance enhancement and environmental sustainability.

关键词： Petroleum contamination Adsorbent Bioremediation Biochar modification Ecotoxicity

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

CFD simulations for longwall gas drainage design optimisation

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International Journal of Mining Science and Technology 2017年第5期27卷 777-782页

作者： Qin Johnny Qu Qingdong Guo Hua Coal Mining research Program The Commonwealth Scientific and Industrial Research Organisation(CSIRO)Brisbane 883Australia

Computational fluid dynamics(CFD) simulation is an effective approach to develop and optimise gas drainage design for underground longwall coal mining. As part of the project supported by the Australian Government Coal Mining Abatement Technology Support Package(CMATSP), threedimensional CFD simulations were conducted to test and optimise a conceptual design which proposes using horizontal boreholes to replace vertical boreholes at an underground coal mine in *** performance between a vertical borehole and a horizontal borehole was first carried out to compare their capacity and effectiveness. Then a series of cases with different horizontal borehole designs were simulated to optimise borehole configuration parameters such as location, diameter, and number of boreholes. The study shows that the horizontal borehole is able to create low pressure sinks that protect the workings from goaf gas ingresses by changing goaf gas flow directions, and that it has the advantage to continuously maintain such low pressure sinks near the tailgate as the longwall advances. An example of optimising horizontal borehole locations in the longwall lateral direction is also given in this paper.

关键词： Goaf gas drainage Horizontal borehole CFD simulation Design optimisation Mining abatement technology

Sulfur and carbon co-doped g-C_(3)N_(4)microtubes with enhanced photocatalytic H2 production activity

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Frontiers in Energy 2024年第1期18卷 110-121页

作者： Yang GE Quanhao SHEN Qi ZHANG Naixu LI Danchen LU Zhaoming ZHANG Zhiwei FU Jiancheng ZHOU School of Chemistry and Chemical Engineering Southeast UniversityNanjing 211189China Shangdong Yellow Triangle Biotechnology industry research Institute Co. Ltd.Dongying 257091China Xuzhou B&C Chemical Co. Ltd.Xuzhou 221300China

Metal-free graphitic carbon nitride(g-C_(3)N_(4))has captured significant attention as a low-cost and efficient hydrogen production photocatalyst *** regulating the microstructure and accelerating the separation of photogenerated carriers remain crucial strategies for promoting the photocatalytic performance of this ***,a novel sulfur–carbon co-doped g-C_(3)N_(4)(SCCN)hierarchical microtubules filled with abundant nanosheets inside by thermal polymerization is *** nanosheets create abundant pores and cavities inside the SCCN microtubes,thereby increasing the specific surface area of g-C_(3)N_(4)and providing sufficient reactant attachment ***,the hierarchical structure of SCCN microtubules strengthens the reflection and scattering of light,and the utilization of visible light is favorably *** importantly,co-doping S and C has greatly improved the photocatalytic performance of graphitic carbon nitride,optimized the band gap structure and enhanced the photogenerated carrier ***,the SCCN exhibits a remarkable photocatalytic H_(2)evolution rate of 4868μmol/(g·h).This work demonstrates the potential of multi-nonmetal doped g-C_(3)N_(4)as the ideal photocatalyst for H2 evolution.

关键词： carbon nitride photocatalysis hydrogen production