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Multi‑omics integration identifies regulatory factors underlying bovine subclinical mastitis

Journal of Animal Science and Biotechnology 2024年第3期15卷 987-1007页

作者： Mengqi Wang Naisu Yang Mario Laterriere David Gagne Faith Omonijo Eveline M.Ibeagha‑Awemu agriculture and agri‑food canada Sherbrooke Research and Development CentreSherbrookeQCCanada Department of Animal Science Universite LavalQuebec CityQCCanada Quebec Research and Development Centre Agriculture and Agri-Food CanadaQuebec CityQCCanada

Background Mastitis caused by multiple factors remains one of the most common and costly disease of the dairy ***-omics approaches enable the comprehensive investigation of the complex interactions between mul-tiple layers of information to provide a more holistic view of disease ***,this study investigated the genomic and epigenomic signatures and the possible regulatory mechanisms underlying subclinical mastitis by integrating RNA sequencing data(mRNA and lncRNA),small RNA sequencing data(miRNA)and DNA methylation sequencing data of milk somatic cells from 10 healthy cows and 20 cows with naturally occurring subclinical mastitis caused by Staphylococcus aureus or Staphylococcus *** Functional investigation of the data sets through gene set analysis uncovered 3458 biological process GO terms and 170 KEGG pathways with altered activities during subclinical mastitis,provided further insights into subclin-ical mastitis and revealed the involvement of multi-omics signatures in the altered immune responses and impaired mammary gland productivity during subclinical *** abundant genomic and epigenomic signatures with sig-nificant alterations related to subclinical mastitis were observed,including 30,846,2552,1276 and 57 differential methylation haplotype blocks(dMHBs),differentially expressed genes(DEGs),lncRNAs(DELs)and miRNAs(DEMs),***,5 factors presenting the principal variation of differential multi-omics signatures were *** important roles of Factor 1(DEG,DEM and DEL)and Factor 2(dMHB and DEM),in the regulation of immune defense and impaired mammary gland functions during subclinical mastitis were *** of the omics within Factors 1 and 2 explained about 20%of the source of variation in subclinical ***,networks of impor-tant functional gene sets with the involvement of multi-omics signatures were demonstrated,which contributed to a comprehensive view of the possible regu

关键词： Candidate discriminant multi-omics signature Gene Long non-coding RNA Methylation haplotype block MicroRNA Multi-omics integration Natural killer cell mediated cytotoxicity pathway Staphylococcus aureus infection pathway

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Studies on the temporal,structural,and interacting features of the clubroot resistance gene Rcr1 using CRISPR/Cas9-based systems

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Horticultural Plant Journal 2024年第4期10卷 1035-1048页

作者： Hao Hu Fengqun Yu agriculture and agri-food canada Saskatoon Research and Development Centre107 Science PlaceSaskatoonSKS7N OX2Canada

Clubroot disease is a severe threat to Brassica crops globally,particularly in western *** resistance,achieved through pyramiding clubroot resistance(CR)genes with different modes of action,is the most important strategy for managing the ***,studies on the CR gene functions are quite *** this study,we have conducted investigations into the temporal,structural,and interacting features of a newly cloned CR gene,Rcr1,using CRISPR/Cas9 *** temporal functionality,we developed a novel CRISPR/Cas9-based binary vector,pHHIGR-Hsp18.2,to deliver Rcr1 into a susceptible canola line(DH12075)and observed that early expression of Rcr1 is critical for conferring *** structural functionality,several independent mutations in specific domains of Rcr1 resulted in loss-offunction,highlighting their importance for CR *** the study of the interacting features of Rcr1,a cysteine protease gene and its homologous allele in canola were successfully disrupted via CRISPR/Cas9 as an interacting component with Rcr1 protein,resulting in the conversion from clubroot resistant to susceptible in plants carrying intact *** results indicated an indispensable role of these two cysteine proteases in Rcr1-mediated resistance *** study,the first of its kind,provides valuable insights into the functionality of ***,the new vector p HHIGR-Hsp18.2 demonstrated an inducible feature on the removal of add-on traits,which should be useful for functional genomics and other similar research in brassica crops.

关键词： Clubroot resistance Brassica crops Canola Rcr1 CRISPR/Cas9 system Gene knock-out Timing control Non-synonymous mutation Protein-protein interaction

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Transcriptomics integrated with metabolomics reveals the mechanism of CaCl_(2)-HCl electrolyzed water-induced glucosinolate biosynthesis in broccoli sprouts

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food Science and Human Wellness 2024年第2期13卷 801-812页

作者： Cui Li Shuhui Song Yanan He Haijie Liu College of food Science and Nutritional Engineering China Agricultural UniversityBeijing 100083China Institute of agri-food Processing and Nutrition Beijing Academy of Agriculture and Forestry SciencesBeijing 100097China

Glucosinolates are important phytochemicals in *** investigated the effect of CaCl_(2)-HCl electrolyzed water(CHEW)on glucosinolates biosynthesis in broccoli *** results showed that CHEW treatment significantly decreased reactive oxygen species(ROS)and malondialdeh yde(MDA)contents in broccoli *** the the 8^(th)day,compared to tap water treatment,the the total glucosinolate content of broccoli sprouts with CHEW treatment increased by 10.6%and calcium content was dramatically enhanced from 14.4 mg/g DW to 22.7 mg/g *** transcriptome and metabolome analyses revealed that CHEW treatment activated ROS and calcium signaling transduction pathways in broccoli sprouts and they interacted through MAPK ***,CHEW treatment not only promoted the biosynthesis of amino acids,but also enhanced the expression of structural genes in glucosinolate synthesis through transcription factors(MYBs,bHLHs,WRKYs,etc.).The results of this study provided new insights into the regulatory network of glucosinolates biosynthesis in broccoli sprouts under CHEW treatment.

关键词： Broccoli sprouts CaCl_(2)-HCl electrolyzed water Glucosinolates Transcriptomics Metabolomics

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Fractal image analysis and bruise damage evaluation of impact damage in guava

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Information Processing in agriculture 2024年第2期11卷 217-227页

作者： Than Htike Rattapon Saengrayap Hiroaki Kitazawa Saowapa Chaiwong School of Agro-Industry Mae Fah Luang UniversityChiang Rai 57100Thailand Department of agriculture Ministry of AgricultureLivestock and Irrigation 11181Myanmar Integrated agri-Tech Ecosystem Research Group Mae Fah Luang UniversityChiang Rai 57100Thailand Institute of food Research National Agriculture and Food Research OrganizationIbaraki 305-8642Japan

Impact bruise damage and quality of‘Gim Ju’guava were investigated for different drop heights and number of drops using fractal image *** the impact test,a stainless-steel metal ball(250 g)was dropped on fruit from three drop heights(0,0.3,0.6 m)either once or five *** quality was evaluated for impact energy,bruise area(BA),bruise volume(BV),bruise susceptibility,bruise score and pulp color(L*,a*,b*and C values).The fractal dimension(FD)value using fractal image analysis was analyzed at the bruise *** showed that five drops(0.3 m)with a high impact energy(3678.75 J)and a single drop(0.6 m)with a low impact energy(1471.50 J)exhibited no significant in BA,BV,bruise score as well as all color values(L*,a*,b*and C).While the FD value of a single drop from 0.6 m had a higher FD value than that of five drops from 0.3 *** is indicated that FD exhibited a better performance to classify impact bruising level of guava than BA,BV and color *** FD value gradually decreased with increase of storage time and bruise *** correlation coefficient(r)values of FD(r=−0.794 and−0.745)between BA and BV were more significant than those L*(r=−0.660 and−0.615)and a*(r=0.579 and 0.473).The coefficient of determination(R^(2))of the polynomial equation in bruised fruit(R^(2)=0.85 to 0.99)was greater than the control(no bruise)(R^(2)=0.80).A higher R^(2)val(0.88 and 0.92)was exhibited at five ***,FD analysis showed greater potential than color measurement to assess bruise impact damage in guava.

关键词： Bruise susceptibility Impact bruise Mechanical injury Transportation

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Assessment of the piroxicam-incited model of synchronized colitis in T-cell receptor alpha chain-deficient mice

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Animal Models and Experimental Medicine 2024年第4期7卷 533-543页

作者： Maximo E.Lange Danisa M.Bescucci Valerie F.Boras Tony Montina G.Douglas Inglis douglas inglis 11 lethbridge research and development centre agriculture and agri-food canadalethbridgealbertacanada alberta health services chinook regional hospitallethbridgealbertacanada department of chemistry and biochemistry university of lethbridgelethbridgealbertacanada southern alberta genome sciences centre university of lethbridgelethbridgealbertacanada

Background:A multitude of mouse models are utilized to emulate and study intestinal inflammation.T-cell receptor alpha chain(TCRα)-deficient mice are used as a model of spontaneous colitis that has similarities with human ulcerative ***,colitis is triggered late in the life of the mouse(age:4-5 months),and inflammation does not develop at the same time in different mice.A previously conducted study reported that the administration of the drug piroxicam triggered predictable and early colitis in TCRα-deficient mice at the age of 6-8 ***,a detailed characterization of ensuing inflammation was not ***:We conducted an in-depth examination of piroxicam-triggered colitis in TCRα-deficient mice,with emphasis on spatial histopathologic changes and analysis of expression of inflammatory ***,we tested amelioration of colitis with ***:We confirmed that piroxicam induced a time-prescribed colitis and did so in the proximal colon as well as the cecum of TCRα-deficient *** adminis-tration was observed to induce epithelial hyperplasia,goblet cell loss,and leukocyte infiltration with occasional ulceration.A Swiss roll technique was used to examine the colon and cecum in its ***,we observed that inflammation was mul-tifocal segmental,with areas of tissue damage in between healthy *** addition,we observed variability in the severity of inflammation among replicate animals and treatments,and that the administration of dexamethasone only partially ameliorated inflammation in the proximal ***:Piroxicam consistently induced multifocal segmental colitis in the proxi-mal colon and cecum,although the degree of inflammation was reduced in the ***,spatial variability in inflammation in the large intestine and the inter-replicate variation in the severity of inflammation must be taken into consideration when utilizing this murine model of synchronized colitis.

关键词： colon dexamethasone histology induction inflammation knockout

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Effect of L-theanine combined with geniposide on depression-like behavior induced by the chronic unpredictable mild stress(CUMS) in mice

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food Science and Human Wellness 2024年

作者： Qi-Ming Yu Yan Zhu Tao Jiang Ying Gao Nan Ling Na Wang John Shi Wei-Chun Pan Qi-Zhen Du Jun-Feng Yin Tea Research Institute Chinese Academy of agricultural Sciences， Key Laboratory of Tea Biology and Resources Utilization， Ministry of agriculture College of food and Health Sciences， Zhejiang A & F University Zhejiang Gongshang University Guelph food Research Center， agriculture and agri-food canada College of Public Health， Guilin Medical University

Depression is a prevalent mental disorder with limited effective treatments， posing a significant global issue. This study explored L-theanine and geniposide， key components in "food-medicine homology" materials， to determine if their combination (TG) could alleviate depression-like behaviors and hippocampal neuronal damage in a chronic unpredictable mild stress (CUMS) mouse model. Male C57BL/6J mice were divided into control， CUMS model， and CUMS+TG groups with varying doses. The CUMS group displayed depression-like behaviors， including reduced activity and sucrose preference. TG treatment partially reversed these changes， significantly increasing antioxidant enzyme activities， decreasing pro-inflammatory cytokine levels， and improving neuromodulator levels. RNA-seq analysis identified the transthyretin (TTR) gene， upregulated in the model group but downregulated after TG treatment. TG treatment modulated intestinal microbiota composition compared to the CUMS group， including increased Firmicutes， reduced Bacteroidetes and Prevotella， and variable changes in Bifidobacterium abundance. In conclusion， our study indicates that CUMS exposure upregulates stress hormones and TTR expression， associated with neuroinflammation， oxidative stress， monoamine depletion， depression-like behaviors， and intestinal microbiota dysbiosis. TG treatment alleviates these effects and modulates intestinal microbiota， suggesting L-theanine and geniposide’s potential as a novel depression therapy.

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Antibacterial mechanism of kojic acid and tea polyphenols against Escherichia coli O157:H7 through transcriptomic analysis

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food Science and Human Wellness 2024年第2期13卷 736-747页

作者： Yilin Lin Ruifei Wang Xiaoqing Li Keren Agyekumwaa Addo Meimei Fang Yehui Zhang Yigang Yu School of food Sciences and Engineering South China University of TechnologyGuangzhou 510640China Sericulture&agri-food Research Institute Guangdong Academy of agricultural Sciences Key Laboratory of Functional FoodsMinistry of Agriculture and Rural AffairsGuangdong Key Laboratory of Agricultural Products ProcessingGuangzhou 510610China Research Center of food Safety and Detection College of Food Science and EngineeringSouth China University of TechnologyGuangzhou 510640China

Escherichia coli O157:H7 is one of the major foodborne pathogenic bacterial that cause infectious diseases in *** previous found that a combination of kojic acid and tea polyphenols exhibited better activity against *** O157:H7 than using either *** study aimed to explore responses underlying the antibacterial mechanisms of kojic acid and tea polyphenols from the gene *** functional enrichment analysis by comparing kojic acid and tea polyphenols individually or synergistically against *** O157:H7 found that acid resistance systems in kojic acid were activated,and the cell membrane and genomic DNA were destructed in the cells,resulting in“oxygen starvation”.The oxidative stress response triggered by tea polyphenols inhibited both sulfur uptake and the synthesis of ATP,which affected the bacteria's life metabolic ***,we found that kojic acid combined with tea polyphenols hindered the uptake of iron that played an essential role in the synthesis of DNA,respiration,tricarboxylic acid *** results suggested that the iron uptake pathways may represent a novel approach for kojic acid and tea polyphenols synergistically against *** O157:H7 and provided a theoretical basis for bacterial pathogen control in the food industry.

关键词： Kojic acid Tea polyphenols Antibacterial mechanism Escherichia coli O157:H7 RNA-seq

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Phenolic Profile and Volatiles of in vitro Propagated Lavandula angustifolia ***

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Phyton-International Journal of Experimental Botany 2024年第3期93卷 427-444页

作者： Mir Abdullatif Yahya Fatma Tunali Dilek Killi Atalay Sökmen Biotechnology Department Konya Food and Agriculture UniversityKonya42080Türkiye Plant Production and Technologies Department Konya Food and Agriculture UniversityKonya42080Türkiye

An effective in vitro propagation protocol was designed for Lavandula angustifolia Miller,a medicinal aromatic plant that is a prominent source of volatile organic compounds(VOCs).Murashige and Skoog media were supplemented with various concentrations of Plant Growth Regulators(PGRs),and the growth parameters of the nodal segments were *** explants formed callus when they were supplemented with 2 mg/L of 6-Benzylaminopurine(BAP).The superior hormonal concentration of Murashige and Skoog(MS)media for the proliferation of shoots from callus cultures(39.33%)was 5 mg/L of 2-Isopentenyl adenine(2iP),and the favorable media for the growth of *** callus cultures was 1 and 2 mg/L of BAP,with a 98%for-mation rate in each *** callus cultures and in vitro propagated *** seedlings obtained from var-ious PGR concentrations of MS media were exposed to qualitative and quantitative analysis in terms of phenolic proﬁles,ﬂavonoids,High-performance liquid chromatography(HPLC)analysis of phenolic acids,and headspace-SPME analysis for *** analysis revealed that micropropagated seedlings grown in media containing 1 mg/L of 6-Furfurylaminopurine(KIN)accumulated the highest yield(11.95±0.01 mg GAE/g)of phenolic *** contrast,the lowest concentration(2.17±0.04 mg GAE/g)was detected in 0.5 mg/L of BAP+0.5 mg/L of Naphthaleneacetic acid(NAA)*** plantlets grown in 0.5 mg/L of BAP+0.5 mg/L of NAA media showed the highestﬂavonoid yield(31.67±0.06μg/g QE/g).In contrast,callus samples exhibited the lowest yield(11.59±0.02μg/g QE/g)ofﬂavonoids in MS media supplemented with a concentration of 0.5 mg/L of *** analysis revealed the variability of phenolic acid contents within the callus cultures as well as plantlets,with gallic acid,4-OH benzoic acid,chlorogenic acid,vanillic acid,caffeic acid,cinnamic acid,and rosmarinic acid being the prominent *** presence of twenty-two chemicals was revealed by headspace-SPME ***

关键词： Lavender indirect organogenesis micropropagation This

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Structural elucidation of mulberry leaf oligosaccharide and its selective promotion of gut microbiota to alleviate type 2 diabetes mellitus

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food Science and Human Wellness 2024年第4期13卷 2161-2173页

作者： Tenggen Hu Yuanshan Yu Jijun Wu Yujuan Xu Gengsheng Xiao Kejing An Erna Li Sentai Liao Yuxiao Zou Sericultural&agri-food Research Institute Guangdong Academy of Agricultural Sciences/Key Laboratory of Functional FoodsMinistry of Agriculture and Rural Affairs/Guangdong Key Laboratory of Agricultural Products ProcessingGuangzhou 510610China Huagongliya(Foshan)Technology Industry Co. Ltd.Foshan 528313China Heyuan Branch Guangdong Laboratory for Lingnan Modern AgricultureHeyuan 517001China Zhongkai University of agriculture and Engineering Guangzhou 510225China

Two oligosaccharide fractions(MLO 2-1 and 2-2)were purified from enzymatic hydrolysate of mulberry leaf *** results of simulated digestion showed that MLO 2-2 was a digestible oligosaccharide,which could be degraded by human digestive juice;while MLO 2-1 possessed the non-digestible property in the upper gastrointestinal tract and performed the function by regulating the gut ***,MLO 2-1 was selected for the further *** structure of MLO 2-1 was elucidated as follow:α-T-Glcp-(1→3)-β-Glcp-(1→5)-α-Araf-(1→5)-α-Araf-1→5)-α-Araf-(1→3)-α-(2-OAc)-*** in vitro fecal fermentation results showed that MLO 2-1 could modulate the composition of gut ***,MLO 2-1 was effectively metabolized by fecal bacteria to produce lactate and short chain fatty acids,especially acetate and *** specific metabolic pathways of MLO 2-1 by gut microbiota were further *** microbiota analysis revealed that MLO 2-1 selectively promoted the growth of Ligilactobacillus murinus,a commensal bacterium presented a reduced level in T2DM *** experiments indicated that MLO 2-1 and *** exhibited hypoglycemic *** results demonstrated that MLO 2-1 might alleviate T2DM by selectively accelerating the proliferation of ***.

关键词： Mulberry leaf oligosaccharide Characterization Gut microbiota Lactobacillus murinus Hypoglycemic activity

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Fabrication of telechelic DNA-bridged food emulsion gel as edible ink for 3D printing

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food Quality and Safety 2024年第1期8卷 158-165页

作者： Ruyuan Zhang Hao Huang Rong Ai Dong Li Yanqun Xu Weiwei Jin Zisheng Luo College of Biological Chemical Sciences and Engineering Jiaxing UniversityJiaxingChina College of Biosystems Engineering and food Science Zhejiang UniversityHangzhouChina College of Ecology Lishui UniversityLishuiChina Ningbo Innovation Center Zhejiang UniversityNingboChina Wenzhou Academy of agriculture Science Liuhongqiao Road 1000WenzhouChina Key Laboratory of Agro-Products Postharvest Handling of Ministry of agriculture and Rural Affairs Zhejiang Key Laboratory for Agri-Food ProcessingHangzhouChina

Objectives:Interdroplet interactions affect the properties and textures of *** this study,we creatively introduced telechelic DNA to link oil droplets directly at molecular scale to further improve the viscoelastic properties of *** and Methods:A stable emulsion with 70%oil fraction was prepared by adding 40 mg/mL of whey protein isolate and peach gum polysaccharide complex(WPI–PGP complex).The addition of telechelic DNA(0.125–0.375μmol/L)made the emulsion change from a cream-like state to a self-supporting ***:Rheological experiments confirmed that the telechelic DNA could improve the yield stress,storage modulus/loss modulus(Gʹ/Gʹʹ)and apparent viscosity of the emulsion gel in a concentration-dependent manner(0–0.375μmol/L).Inverted fluorescence images clearly showed the interdroplet network of the emulsion gel linked by telechelic *** 3D printing,the emulsion gel with a higher concentration(0.375μmol/L)of telechelic DNA displayed better surface quality and dimensional resolution,indicating improved ***:This study successfully designed a novel telechelic DNA-bridged emulsion gel,which showed great potential as edible ink for 3D printing.

关键词： Telechelic DNA WPI-PGP complex emulsion gel interdroplet interactions 3D printing.

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