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Uncovering key salt-tolerant regulators through a combined eQTL and GWAS analysis using the super pan-genome in rice

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national science Review 2024年第4期11卷 55-69页

作者： Hua Wei Xianmeng Wang Zhipeng Zhang Longbo Yang Qianqian Zhang Yilin Li Huiying He Dandan Chen Bin Zhang Chongke Zheng Yue Leng Xinglan Cao Yan Cui Chuanlin Shi Yifan Liu Yang Lv Jie Ma Wenchuang He Xiangpei Liu Qiang Xu Qiaoling Yuan Xiaoman Yu Tianyi Wang Hongge Qian Xiaoxia Li Bintao Zhang Hong Zhang Wu Chen Mingliang Guo Xiaofan Dai Yuexing Wang Xiaoming Zheng Longbiao Guo Xianzhi Xie Qian Qian Lianguang Shang Shenzhen Branch Guangdong Laboratory of Lingnan Modern AgricultureGenome Analysis Laboratory of the Ministry of Agriculture and Rural AffairsAgricultural Genomics Institute at ShenzhenChinese Academy of Agricultural Sciences institute of Wetland Agriculture and Ecology Shandong Academy of Agricultural Sciences State Key Laboratory of Rice Biology China National Rice Research Institute national Key Facility for Crop Gene Resources and Genetic Improvement Institute of Crop Science Chinese Academy of Agricultural Sciences Yazhouwan national Laboratory

For sessile plants, gene expression plays a pivotal role in responding to salinity stress by activating or suppressing specific genes. However, our knowledge of genetic variations governing gene expression in response to salt stress remains limited in natural germplasm. Through transcriptome analysis of the Global Mini-Core Rice Collection consisting of a panel of 202 accessions, we identified 22 345 and 27 610expression quantitative trait loci associated with the expression of 7787 and 9361 e Genes under normal and salt-stress conditions, respectively, leveraging the super pan-genome map. Notably, combined with genome-wide association studies, we swiftly pinpointed the potential candidate gene STG5—a major salt-tolerant locus known as q STS5. Intriguingly, STG5 is required for maintaining Na+/K+homeostasis by directly regulating the transcription of multiple members of the Os HKT gene family. Our study sheds light on how genetic variants influence the dynamic changes in gene expression responding to salinity stress and provides a valuable resource for the mining of salt-tolerant genes in the future.

关键词： super pan-genome expression quantitative trait loci GWAS salt tolerance rice

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Bio-screening and quantification of methyl paraben in vinegar and coconut juice separated by HPTLC

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Food science and Human Wellness 2024年第3期13卷 1602-1607页

作者： Yisheng Chen Xingjun Xi College of Food science and Engineering Shanxi Agricultural UniversityTaigu 030801China Insitute of Food Nutrition and Safety Shanxi Agricultural UniversityTaiyuan 030031China institute of agricultural Food Standardization China National Institute of StandardizationBeijing 100191China

As a widely used food preservative,methyl paraben was experimentally evidenced with serious hormonelike adverse ***,a high performance thin-layer chromatography platformed bioluminescent bioautography and image analysis for the selective quantification and confirmation of methyl paraben was proposed and validated in vinegar and coconut ***,the detectability of the bioautography to the analyte on different layer materials was estimated,revealing that normal silica gel was the best *** that,the liquid of sample extract and working solution were separated to overcome the background noises due to co-extracted *** separation result was then coupled to the optimized bioautography,enabling instant and straightforward screening of the targeted *** accurate quantification,bioluninescent inhibition pattern caused by the analyte was processed by image analysis,giving useful sensitivity(LOD>16 mg/kg),precision(RSD<10.1%)and accuracy(spike-recovery rate 76.9%-112.2%).Finally,the suspected result was confirmed by determining its MS fingerprint,further strengthening the reliability of screening.

关键词： High performance thin-layer chromatography Bio-screening Bioluminescence Image analysis Methyl paraben

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Dynamic modulation of nodulation factor receptor levels by phosphorylation-mediated functional switch of a RING-type E3 ligase during legume nodulation

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Molecular Plant 2024年第7期17卷 1090-1109页

作者： Hao Li Yajuan Ou Jidan Zhang Kui Huang Ping Wu Xiaoli Guo Hui Zhu Yangrong Cao national Key Lab of agricultural Microbiology Hubei Hongshan LaboratoryHuazhong Agricultural UniversityWuhan 430070China national Key Lab of agricultural Microbiology College of Plant Science and TechnologyHuazhong Agricultural UniversityWuhan 430070China

The precise control of receptor levels is crucial for initiating cellular signaling transduction in response to specific ligands;however,such mechanisms regulating nodulation factor(NF)receptor(NFR)-mediated perception of NFs to establish symbiosis remain *** this study,we unveil the pivotal role of the NFR-interacting RING-type E3 ligase 1(NIRE1)in regulating NFR1/NFR5 homeostasis to optimize rhizobial infection and nodule development in Lotus *** demonstrated that NiRE1 has a dual function in this regulatory *** associates with both NFR1 and NFR5,facilitating their degradation through K48-linked polyubiquitination before rhizobial ***,following rhizobial inoculation,NFR1 phosphorylates NIRE1ata conserved residue,Tyr-109,inducing a functional switch in NIRE1,which enables NIRE1tomediateK63-linkedpolyubiquitination,thereby stabilizing NFR1/NFR5 in infected root *** introduction of phospho-dead NIRE1Y1osF leads to delayed nodule development,underscoring the significance of phosphorylation at Tyr-1o9 in orchestrating symbiotic ***,expression of the phospho-mimic NIRE1Y0E results in the formation of spontaneous nodules in ***,further emphasizing the critical role of the phosphorylation-dependent functional switch in *** summary,these findings uncover a fine-tuned symbiotic mechanism that a single E3 ligase could undergo a phosphorylationdependent functional switch to dynamically and precisely regulate NF receptor protein levels.

关键词： nodule symbiosis nodulation factor receptors E3 ligase ubiquitination phosphorylation protein degradation protein stabilization Lotus japonicus

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CsABF3-activated CsSUT1 pathway is implicated in pre-harvest water deficit inducing sucrose accumulation in citrus fruit

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Horticultural Plant Journal 2024年第1期10卷 103-114页

作者： Xiaochuan Ma Yuanyuan Chang Feifei Li Junfeng Yang Li Ye Tie Zhou Yan Jin Ling Sheng Xiaopeng Lu College of Horticulture Hunan Agricultural UniversityChangshaHunan 410128China national Center for Citrus Improvement ChangshaHunan 410128China institute of Horticulture Hunan Academy of Agricultural ScienceChangshaHunan 410125China

Pre-harvest water deficit(PHWD)plays an important role in sugar accumulation of citrus ***,the mechanism is not known ***,it was confirmed that PHWD promoted sucrose accumulation of citrus fruit,but had limited effect on fructose,glucose and total acid.A sucrose transporter,Cs SUT1,which localizes to the plasma membrane,was demonstrated to function in sucrose transport induced by *** to wild-type,Cs SUT1 overexpression in citrus calli stimulated sucrose,fructose and glucose accumulation,while its silencing in juice sacs reduced sucrose *** sugar accumulation in transgenic lines enhanced plant drought tolerance,and resulted in decreased electrolyte leakage,malondialdehyde and hydrogen peroxide contents,as well as increased superoxide dismutase activity and proline *** abscisic acid(ABA)-responsive transcription factor,Cs ABF3,was found with a same expression pattern with Cs SUT1 under *** one-hybrid,electrophoretic mobility shift assay and dual-luciferase assays all revealed that Cs ABF3 directly bound with the Cs SUT1 promoter by ABA responsive *** Cs ABF3 was overexpressed in citrus calli,the sucrose,fructose and glucose concentration increased ***,transgenic studies demonstrated that Cs ABF3 could affect sucrose accumulation by regulating Cs ***,this study revealed a regulation of Cs ABF3 promoting Cs SUT1 expression and sucrose accumulation in response to *** results provide a detail insight into the quality formation of citrus fruit.

关键词： Citrus Water deficit Pre-harvest Sucrose CsABF3 CsSUT1

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Low temperature-mediated repression and far-red light-mediated induction determine morning FLOWERING LOCUS T expression levels

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Journal of Integrative Plant Biology 2024年第1期66卷 103-120页

作者： Hayeon Kim Hye Won Kang Dae Yeon Hwang Nayoung Lee Akane Kubota Takato Imaizumi Young Hun Song Department of agricultural Biotechnology Seoul National UniversitySeoul 08826Korea Department of Biology Ajou UniversitySuwon 16499Korea Plant Genomics and Breeding institute Seoul National UniversitySeoul 08826Korea Graduate School of science and Technology Nara Institute of Science and TechnologyIkomaNara 630‐0192Japan Department of Biology University of WashingtonSeattleWA 98195USA institute of agricultural Life sciences Seoul National UniversitySeoul 08826Korea

In order to flower in the appropriate season,plants monitor light and temperature changes and alter downstream pathways that regulate florigen genes such as Arabidopsis(Arabidopsis thaliana)FLOWERING LOCUS T(FT).In Arabidopsis,FT messenger RNA levels peak in the morning and evening under natural long-day conditions(LDs).However,the regulatory mechanisms governing morning FT induction remain poorly *** morning FT peak is absent in typical laboratory LDs characterized by high red:far-red light(R:FR)ratios and constant ***,we demonstrate that ZEITLUPE(ZTL)interacts with the FT repressors TARGET OF EATs(TOEs),thereby repressing morning FT expression in natural *** LDs with simulated sunlight(R:FR=1.0)and daily temperature cycles,which are natural LD-mimicking environmental conditions,FT transcript levels in the ztl mutant were high specifically in the morning,a pattern that was mirrored in the toe1 toe2 double *** night-to-morning temperatures increased the inhibitory effect of ZTL on morning FT expression by increasing ZTL protein levels early in the ***-red light counteracted ZTL activity by decreasing its abundance(possibly via phytochrome A(phyA))while increasing GIGANTEA(GI)levels and negatively affecting the formation of the ZTL-GI complex in the ***,the phyA-mediated high-irradiance response and GI play pivotal roles in morning FT *** findings suggest that the delicate balance between low temperature-mediated ZTL activity and the far-red light-mediated functions of phyA and GI offers plants flexibility in fine-tuning their flowering time by controlling FT expression in the morning.

关键词： far-red light FLOWERING LOCUS T flowering time GIGANTEA low night-to-morning temperature natural long days phytochrome A red to far-red ratio ZEITLUPE

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Methane Emission from Rice Fields:Necessity for Molecular Approach for Mitigation

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Rice science 2024年第2期31卷 159-178页

作者： Sujeevan RAJENDRAN Hyeonseo PARK Jiyoung KIM Soon Ju PARK Dongjin SHIN Jong-Hee LEE Young Hun SONG Nam-Chon PAEK Chul Min KIM Department of Horticulture Industry Wonkwang UniversityIksan 54538Korea Plant Molecular Biology and Biotechnology Research Center Gyeongsang National UniversityJinju 52828Korea Department of Southern Area Crop science National Institute of Crop ScienceMiryang 50424Korea Department of agricultural Biotechnology Seoul National UniversitySeoul 08826Korea Department of Plant science Plant Genomics and Breeding InstituteResearch Institute of Agriculture and Life SciencesSeoul National UniversitySeoul 08826Korea

Anthropogenic methane emissions are a leading cause of the increase in global averagetemperatures,often referred to as global *** soils play a significant role in methaneproduction,where the anaerobic conditions promote the production of methane by *** fields contribute a considerable portion of agricultural methane emissions,as riceplants provide both factors that enhance and limit methane *** plants harbor both methaneproducingand methane-oxidizing *** from rice roots provide source for methaneproduction,while oxygen delivered from the root aerenchyma enhances methane *** haveshown that the diversity of these microorganisms depends on rice cultivars with some genes characterizedas harboring specific groups of microorganisms related to methane ***,there is still aneed for research to determine the balance between methane production and oxidation,as rice plantspossess the ability to regulate net methane *** agronomical practices,such as fertilizerand water management,have been employed to mitigate methane ***,studiescorrelating agronomic and chemical management of methane with productivity are ***,evidences for breeding low-methane-emitting rice varieties are scattered largely due to the absence ofcoordinated breeding *** has indicated that phenotypic characteristics,such as rootbiomass,shoot architecture,and aerenchyma,are highly correlated with methane *** reviewdiscusses available studies that involve the correlation between plant characteristics and *** emphasizes the necessity and importance of breeding low-methane-emitting rice varieties inaddition to existing agronomic,biological,and chemical *** review also delves into the idealphenotypic and physiological characteristics of low-methane-emitting rice and potential breeding techniques,drawing from studies conducted

关键词： methane emission rice breeding aerenchyma greenhouse gas radial oxygen loss

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Evaluation of soil loss severity and ecological restoration approach for sustainable agriculture in the Hindu Kush, Karakoram and Himalaya region

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Journal of Mountain science 2024年第5期21卷 1509-1521页

作者： Arshad ASHRAF Imran AHMAD Climate Energy and Water Research InstituteNational Agricultural Research Centre(NARC)Islamabad 44000Pakistan

Soil erosion has resulted in removal of the topsoils containing fine soil particles and plant nutrients, causing decrease in soil fertility in the Hindu Kush, Karakoram and Himalaya(HKH) region. The existing production of cereal crop grains has been reduced to one third of the potential crop grains production owing to land degradation and poor farming practices. It is necessary to assess risk of soil loss and identify appropriate controlling measures to address issues of low agriculture productivity and water insecurity in the region. In the present study, severity of soil loss was predicted using Revised Universal Loss Equation(RUSLE) and ecological measures were identified for sustainable mountain agriculture in the HKH region of Upper Indus Basin, Pakistan. Overall 62.6% area was found to have very low risk of soil loss, i.e., 100 t/(ha·yr) in about 6.8% and 7.4% areas respectively. The mean rate of soil loss was about 41.9 t/(ha·yr) in the Hindu Kush, 31.1 t/(ha·yr) in the Himalayas, 18.8 t/(ha·yr) in the Karakoram and overall 29.7 t/(ha·yr) in the three HKH ranges. As such no considerable measures have been adopted by the communities for restoration of the degraded areas except raising fruit/farm trees and supporting limited social forestry for their livelihoods. The slopes cleared for cultivation and susceptible to erosion may be stabilized through sowing/planting of multi-purpose plant species and formation of proper bench terraces. The conservation of forest ecosystem and pastures at higher elevations would help in reducing overland water flow, risk of flash flood hazard and minimizing sediment loads in the downstream. It is essential to adopt site-specific resource conservation techniques and restore possible ecosystem health for sustainable agriculture and economic developm

关键词： Climate change Erodibility Indus basin Land degradation Slope stabilization

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Temporal and spatial evolution of global major grain trade patterns

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Journal of Integrative Agriculture 2024年第3期23卷 1075-1086页

作者： Ziqi Yin Jiaxuan Hu Jing Zhang Xiangyang Zhou Lingling Li Jianzhai Wu agricultural Information institute Chinese Academy of Agricultural SciencesBeijing 100081China institute of Scientific and Technical Information of China Beijing 100038China Zibo agricultural science Research institute Zibo 255000China Zibo institute for Digital Agriculture and Rural Research Zibo 255000China

The complex and volatile international landscape has significantly impacted global grain supply security. This study uses a complex network analysis model to examine the evolution and trends of the global major grain trade from 1990 to 2020, focusing on network topology, centrality ranking, and community structure. There are three major findings. First, the global major grain trade network has expanded in scale, with a growing emphasis on diversification and balance. During the study period, the United States, Canada, China, and Brazil were the core nodes of the network. Grain-exporting countries were mainly situated in Asia, the Americas, and Europe, and importing countries in Asia, Africa, and Europe. Second, a significant increase in the number of high centrality countries with high export capacity occurred, benefiting from natural advantages such as fertile land and favorable climates. Third, the main global grain trade network is divided into four communities, with the Americas-Europe community being the largest and most widespread. The formation of the community pattern was influenced by geographic proximity, driven by the core exporting countries. Therefore, the world needs to enhance the existing trade model, promote the multi-polarization of the grain trade network, and establish a global vision for the future community. Countries and regions should participate actively in global grain trade security governance and institutional reform, expand trade links with other countries, and optimize import and export policies to reduce trade risks.

关键词： grain trade pattern evolution complex network

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OsWRKY65 enhances immunity against fungal and bacterial pathogens in rice

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The Crop Journal 2024年第2期12卷 470-481页

作者： Seungmin Son Giha Song Suhyeon Nam Jinjeong Lee Duk-Ju Hwang Eun-Jung Suh Sang Ryeol Park national institute of agricultural sciences Rural Development AdministrationJeonju 54874Republic of Korea Department of Agriculture Forestry and BioresourcesPlant Genomics and Breeding InstituteResearch Institute of Agriculture and Life SciencesSeoul National UniversitySeoul 08826Republic of Korea Department of Crop science and Biotechnology Jeonbuk National UniversityJeonju 54896Republic of Korea

Diverse bacterial and fungal pathogens attack plants,causing biotic stress and severe yield losses *** losses are expected to become more serious as climate change improves conditions for many ***,identifying genes conferring broad-spectrum disease resistance and elucidating their underlying mechanisms provides important resources for plant *** transcription factors affect plant growth and stress ***,the functions of many WRKY proteins remain to be ***,we demonstrated the role of rice(Oryza sativa)WRKY groupⅢtranscription factor OsWRKY65 in ***65 localized to the nucleus and acted as transcriptional *** and molecular functional analyses showed that OsWRKY65 increases resistance to the fungal pathogen Fusarium fujikuroi through downregulation of GA signaling and upregulation of JA ***,OsWRKY65 modulated the expression of the key genes that confer susceptibility or resistance to Xanthomonas oryzae *** to enhance immunity against the *** particular,OsWRKY65directly bound to the promoter region of OsSWEET13 and repressed its *** together,our findings demonstrate that the OsWRKY65 enhances resistance to fungal and bacterial pathogens in rice.

关键词： Bacterial blight Bakanae disease Broad-spectrum disease resistance Oriza sativa OsWRKY65 Rice

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The application of protease in aquaculture: Prospects for enhancing the aquafeed industry

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Animal Nutrition 2024年第1期16卷 105-121页

作者： Shiyou Chen Sahya Maulu Jie Wang Xiaoze Xie Xiaofang Liang Hao Wang Junjun Wang Min Xue national Aquafeed Safety Assessment Center Institute of Feed Research Chinese Academy of Agricultural Sciences State Key Laboratory of Animal Nutrition College of Animal Science and Technology China Agricultural University School of Biological and Marine sciences Faculty of Science and Engineering University of Plymouth Centre for Innovative Approach Zambia (CIAZ)

Low-fishmeal and protein-saving diets are two prominent nutritional strategies utilized to address challenges related to the scarcity and sustainability of protein sources in aquaculture. However, these diets have been associated with adverse effects on the growth performance, feed utilization, and disease resistance of aquatic animals. To mitigate these challenges, exogenous protease has been applied to enhance the quality of diets with lower protein contents or fishmeal alternatives, thereby improving the bioavailability of nutritional ingredients. Additionally, protease preparations were also used to enzymatically hydrolyze fishmeal alternatives, thus enhancing their nutritional utilization. The present review aims to consolidate recent research progress on the use of protease in aquaculture and conclude the benefits and limitations of its application, thereby providing a comprehensive understanding of the subject and identifying opportunities for future research.

关键词： Protease Low-fishmeal diet Protein-saving diets Exogenous digestive enzyme Aquafeed

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