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Genome wide association analysis identifies candidate genes for fruit quality and yield in Actinidia eriantha

Journal of Integrative Agriculture 2024年第6期23卷 1929-1939页

作者： Yingzhen Wang Ying Wu Xinlei Wang Wangmei Ren Qinyao Chen Sijia Zhang Feng Zhang Yunzhi Lin Junyang Yue Yongsheng Liu School of Horticulture Anhui Agricultural UniversityHefei 230036China School of Forestry science and Technology Lishui Vocational and Technical CollegeLishui 323000China College of Life science Sichuan UniversityChengdu 610064China

Quality and yield are the primary concerns in kiwifruit breeding,but research on the genetic mechanisms of fruit size,shape,and ascorbic acid(ASA)content is currently very limited,which restricts the development of kiwifruit molecular *** this study,we obtained a total of 8.88 million highly reliable single nucleotide polymorphism(SNP)markers from 140 individuals from the natural hybrid offspring of Actinidia eriantha cv.‘White’using whole genome resequencing technology.A genome-wide association study was conducted on eight key agronomic traits,including single fruit weight,fruit shape,ASA content,and the number of inflorescences per branch.A total of 59 genetic loci containing potential functional genes were located,and candidate genes related to single fruit weight,fruit length,ASA content,number of inflorescences per branch and other traits were identified within the candidate interval,such as AeWUSCHEL,AeCDK1(cell cycle dependent kinase),AeAO1(ascorbic oxidase)and AeCO1(CONSTANS-like 4).After constructing an RNAi vector for AeAO1 and injecting it into the fruit of cv.‘Midao 31’to interfere with the expression of the AeAO1 gene,the results showed that the activity of ascorbic oxidase in the fruit of‘Midao 31’significantly decreased,while the content of ASA significantly *** study provides valuable insights into the genetic basis of variation in *** fruit traits,which may benefit molecular marker-assisted breeding efforts.

关键词： Actinidia eriantha GWAS SNP QTLs fruit quality

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Acidic/hypoxia dual-alleviated nanoregulators for enhanced treatment of tumor chemo-immunotherapy

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Asian Journal of Pharmaceutical sciences 2024年第2期19卷 136-152页

作者： Xiaoju Guo Xiaoxiao Chen Jiayi Ding Feng Zhang Shunyang Chen Xin Hu Shiji Fang Lin Shen Chenying Lu Zhongwei Zhao Jianfei Tu Gaofeng Shu Minjiang Chen Jiansong Ji lishui Central Hospital Shaoxing UniversityShaoxing 312000China Zhejiang Key Laboratory of Imaging and Interventional Medicine Imaging Diagnosis and Interventional Minimally Invasive InstituteThe Fifth Affiliated Hospital of Wenzhou Medical UniversityLishui 323000China Clinical College of The Affiliated Central Hospital School of MedicineLishui UniversityLishui 323000China Key Laboratory of Precision Medicine of lishui Lishui 323000China

Chemotherapy plays a crucial role in triple-negative breast cancer (TNBC) treatment as it not only directly kills cancer cells but also induces immunogenic cell death. However, the chemotherapeutic efficacy was strongly restricted by the acidic and hypoxic tumor environment. Herein, we have successfully formulated PLGA-based nanoparticles concurrently loaded with doxorubicin (DOX), hemoglobin (Hb) and CaCO3 by a CaCO3-assisted emulsion method, aiming at the effective treatment of TNBC. We found that the obtained nanomedicine (DHCaNPs) exhibited effective drug encapsulation and pH-responsive drug release behavior. Moreover, DHCaNPs demonstrated robust capabilities in neutralizing protons and oxygen transport. Consequently, DHCaNPs could not only serve as oxygen nanoshuttles to attenuate tumor hypoxia but also neutralize the acidic tumor microenvironment (TME) by depleting lactic acid, thereby effectively overcoming the resistance to chemotherapy. Furthermore, DHCaNPs demonstrated a notable ability to enhance antitumor immune responses by increasing the frequency of tumor-infiltrating effector lymphocytes and reducing the frequency of various immune-suppressive cells, therefore exhibiting a superior efficacy in suppressing tumor growth and metastasis when combined with anti-PD-L1 (αPD-L1) immunotherapy. In summary, this study highlights that DHCaNPs could effectively attenuate the acidic and hypoxic TME, offering a promising strategy to figure out an enhanced chemo-immunotherapy to benefit TNBC patients.

关键词： CaCO3-based nanoparticles Hypoxia attenuation Acidity neutralization Reversal of chemotherapy resistance Enhanced chemo-immunotherapy

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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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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 changes in physicochemical property,biogenic amines content and microbial diversity during the fermentation of Sanchuan ham

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Food science and Human Wellness 2024年第1期13卷 506-516页

作者： Zhongai Chen Hong Chen Huan Du Cong Chen Kaixiang Lu Qiaoli Xue Yongjin Hu College of Food science and Technology Yunnan Agricultural UniversityKunming 650000China institute of Food Processing Guizhou Academy of Agricultural SciencesGuiyang 550006China Editorial Department of Journal of Yunnan agricultural University Yunnan Agricultural UniversityKunming 650000China

Sanchuan ham is appreciated in Yunnan Province,China,for its characteristic flavor and taste,while the microbial community structure and biogenic amines content remain unclear during fermentation *** this study,we explored the physicochemical property,biogenic amines concentration and microbial diversity of external and internal Sanchuan ham by high-throughput sequencing during the processing of Sanchuan *** showed that the nitrite remained at a stable level of 0.15 mg/kg which was significantly lower than the national health standard safety level of 20 mg/*** addition,compared with fresh hams,the content of total free amino acids in ripe Sanchuan ham has grown 14 folds;sour and bitter were the main tastes of Sanchuan ***,the concentration of cadaverine was the highest of all biogenic amines during the entire fermentation *** the bacterial phyla level,Firmicutes and Actinobacteria were the two main phyla,while at the genus level,Staphylococcus was a significant strain throughout the whole ***,the dry stage has a great impact on the succession change of microbial community ***,the change trends and composition of bacteria in the interior have slight discrepancies with those of the exterior of Sanchuan ham.

关键词： Sanchuan ham Nitrite cont ent Free amino acids Cadaverine Staphylococcus

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Physiological and Transcriptome Analysis Illuminates the Molecular Mechanisms of the Drought Resistance Improved by Alginate Oligosaccharides in Triticum aestivum L.

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Phyton-International Journal of Experimental Botany 2024年第2期93卷 185-212页

作者： Yunhong Zhang Yonghui Yang Jiawei Mao institute of Plant Nutrition Agricultural Resource and Environmental ScienceHenan Academy of Agricultural SciencesZhengzhou450002China Henan Key Laboratory of agricultural Eco-Environment Henan Academy of Agricultural SciencesZhengzhou450002China

Alginate oligosaccharides(AOS)enhance drought resistance in wheat(Triticum aestivum L.),but the definite mechanisms remain largely *** physiological and transcriptome responses of wheat seedlings treated with AOS were analyzed under drought stress simulated with polyethylene *** results showed that AOS promoted the growth of wheat seedlings and reduced oxidative damage by improving peroxidase and superoxide dismutase activities under drought stress.A total of 10,064 and 15,208 differentially expressed unigenes(DEGs)obtained from the AOS treatment and control samples at 24 and 72 h after dehydration,respectively,were mainly enriched in the biosynthesis of secondary metabolites(phenylpropanoid biosynthesis,flavonoid biosynthesis),carbohydrate metabolism(starch and sucrose metabolism,carbon fixation in photosynthetic organisms),lipid metabolism(fatty acid elongation,biosynthesis of unsaturated fatty acids,alpha-linolenic acid metabolism,cutin,suberine and wax biosynthesis),and signaling transduction *** up-regulated genes were related to,for example,chlorophyll a-b binding protein,amylosynthease,phosphotransferase,peroxidase,phenylalanine ammonia lyase,flavone synthase,glutathione *** molecules(including MAPK,plant hormones,H_(2)O_(2) and calcium)and transcription factors(mainly including NAC,MYB,MYB-related,WRKY,bZIP family members)were involved in the AOS-induced wheat drought *** results obtained in this study help underpin the mechanisms of wheat drought resistance improved by AOS,and provides a theoretical basis for the application of AOS as an environmentally sustainable biological method to improve drought resistance in agriculture.

关键词： Alginate oligosaccharides Triticum aestivum L. drought resistance transcriptomic physiological analysis

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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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Associations of genome-wide structural variations with phenotypic differences in cross-bred Eurasian pigs

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Journal of Animal science and Biotechnology 2024年第1期15卷 68-87页

作者： Wencheng Zong Jinbu Wang Runze Zhao Naiqi Niu Yanfang Su Ziping Hu Xin Liu Xinhua Hou Ligang Wang Lixian Wang Longchao Zhang State Key Laboratory of Animal Biotech Breeding Institute of Animal SciencesChinese Academy of Agricultural SciencesBeijing 100193China College of Animal science Shanxi Agricultural UniversityJinzhong 030801China College of Animal science and Technology Qingdao Agricultural UniversityQingdao 266109China

Background During approximately 10,000 years of domestication and selection,a large number of structural variations(SVs)have emerged in the genome of pig breeds,profoundly influencing their phenotypes and the ability to adapt to the local ***(≥50 bp)are widely distributed in the genome,mainly in the form of insertion(INS),mobile element insertion(MEI),deletion(DEL),duplication(DUP),inversion(INV),and translocation(TRA).While studies have investigated the SVs in pig genomes,genome-wide association studies(GWAS)-based on SVs have been rarely *** Here,we obtained a high-quality SV map containing 123,151 SVs from 15 Large White and 15 Min pigs through integrating the power of several SV tools,with 53.95%of the SVs being reported for the first *** high-quality SVs were used to recover the population genetic structure,confirming the accuracy of *** functional SV loci were then identified based on positional effects and breed ***,GWAS were performed for 36 traits by genotyping the screened potential causal loci in the F2 population according to their corresponding genomic *** identified a large number of loci involved in 8 carcass traits and 6 skeletal traits on chromosome 7,with FKBP5 containing the most significant SV locus for almost all *** addition,we found several significant loci in intramuscular fat,abdominal circumference,heart weight,and liver weight,*** We constructed a high-quality SV map using high-coverage sequencing data and then analyzed them by performing GWAS for 25 carcass traits,7 skeletal traits,and 4 meat quality traits to determine that SVs may affect body size between European and Chinese pig breeds.

关键词： Body size GWAS Pig Skeleton Structural variations

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Changes in milk fat globule membrane proteins along lactation stage of Laoshan dairy goat

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Journal of Integrative Agriculture 2024年第5期23卷 1737-1748页

作者： Chuozi Liang Zhongna Yu Guangming Zhu Yixuan Li Xueheng Sun Hongning Jiang Qijing Du Rongbo Fan Jun Wang Yongxin Yang Rongwei Han College of Food science and Engineering Qingdao Agricultural UniversityQingdao 266109China Bathurst Future Agri-Tech institute Qingdao Agricultural UniversityQingdao 266109China Haidu Cllege Qingdao Agricultural UniversityQingdao 266109China

The milk fat globule membrane(MFGM)is a complex structure with numerous functions,and its composition is affected by many *** have been few systematic investigations on goat MFGM proteome profiling during *** milk samples from 15 healthy dairy goats were obtained at six lactation time points for investigation of the MFGM proteome using both data-independent acquisition(DIA)and data-dependent acquisition(DDA)proteomics techniques combined with multivariate statistical *** the DIA method,890 variably abundant MFGM proteins were discovered throughout the lactation *** 1 to 240 d,butyrophilin subfamily 1 member A1,lipoprotein lipase,perilipin-2,and adipose triglyceride lipase were upregulated,while APOE,complement C3,clusterin,and IgG were ***,from 1 to 90 d,annexin A1,annexin A2,and antithrombin-ll were downregulated,then upregulated by d *** had a high degree of connectedness,indicating that it was a key protein,according to protein-protein interaction ***,our findings gave new insights into the biological features of MFGM protein in goat milk throughout lactation,which may aid in the creation of specialized MFGM products and infant formula.

关键词： goat milk fat globule membrane protein data-independent acquisition(DIA) data-dependent acquisition(DDA) lactation proteomics

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Priority effects of forbs arriving early:the role of root interaction and asymmetric competition

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Ecological Processes 2024年第1期13卷 53-65页

作者： Xiaohong Yan Xiliang Li Ke Jin institute of Grassland Research Chinese Academy of Agricultural Sciences

Background The priority effect of plant arrival is a key driver of community assembly and ecosystem succession during the restoration of degraded plant communities. However, the significance of the arrival order of different plant functional groups and their interactions with community assemblies remains unclear. Using a phytotron experiment with three fully crossed factors, we investigated the underlying mechanisms of priority effects and their relationships with the biomass and biodiversity effects in mixed plant communities by manipulating the order of arrival of species, isolation of roots, and removal of specific *** The results showed that the strength and direction of priority effects were influenced by arrival order, root interactions, asymmetric competition among species, and their interactions. The identities of early and late-sown species also determined the magnitude of priority effects. The priority effects were stronger in grass-first(24.76%) and legume-first communities(24.48%) than in forb-first communities. The pot biomass of the different priority treatments was highest in grass-first(5.85 g), followed by legume-first(3.94 g) and forb-first(2.48 g). The order of arrival in the mixture significantly affected the net biodiversity effects(P < 0.001), which were driven by dominance effects. The community had lower overall biomass when forbs were sown first, whereas the species grown later had fewer costs with an increased overall net benefit for the resulting *** Our results emphasize that root interactions and asymmetric competition are vital determinants of order-specific priority effects in community assemblies. In addition, the importance of the priority effect of forbs sown first is related to community assembly, which may be a key determinant in successfully establishing a highly diverse community in the early stages of restoration. Species with weak competition should be considered in the early stage of community ass

关键词： Community assembly Order of arrival Overyielding Plant functional group Root isolation

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