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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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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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A likely paleo-autotetraploidization event shaped the high conservation of Nyssaceae genome

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Horticultural Plant Journal 2024年第3期10卷 911-930页

作者： Yishan Feng Zhenyi Wang Qimeng Xiao Jia Teng Jianyu Wang Zijian Yu Jiaqi Wang Qiang Xu Yan Zhang Shaoqi Shen Shoutong Bao Yu Li Zimo Yan Yue Ding Zihan Liu Yuxian Li Tianyu Lei Min Yuan Xiu-Qing Li Jinpeng Wang Department of Bioinformatics School of Life SciencesNorth China University of Science and TechnologyTangshanHebei 063000China Fredericton Research and Development Centre Agriculture and Agri-Food CanadaFrederictonNew Brunswick E3B 4Z7Canada State Key Laboratory of Systematic and Evolutionary Botany Institute of BotanyChinese Academy of ScienceBeijing 100093China University of Chinese Academy of Sciences Beijing 100049China

Scientific knowledge about the ancestral genome of core eudicot plant kingdom can potentially have profound impacts on both basic and applied research,including evolution,genetics,genomics,ecology,agriculture,forestry,and global *** investigate which plant conserves best the core eudicots common ancestor genome,we compared Arcto-Tertiary relict Nyssaceae and 30 other eudicot plant *** genomes of Davidia involucrata(a known living fossil),Camptotheca acuminata and Nyssa sinensis,one per existent genus of Nyssaceae,were performed comparative genomic *** found that Nyssaceae originated from a single Nyssaceae common tetraploidization event(NCT)-autotetraploidization 28-31 Mya after the core eudicot common hexaploidization(ECH).We identified Nyssaceae orthologous and paralogous genes,determined its chromosomal evolutionary trajectory,and reconstructed the Nyssaceae most recent ancestor *** genome contained the entire seven paleochromosomes and 17 ECH-generated eudicot common ancestor chromosomes and was the slowest in mutation among the analyzed 42 species of 31 plant *** both its high retention of paleochromosomes and its low mutation rate,*** provides the best case in conservation of the core eudicot paleogenome.

关键词： Nyssaceae Polyploidization Multigenome alignment Evolutionary rate Autotetraploidization Karyotype evolution

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Inhibitory effect and mechanism of tannic acid against two starch digestive enzymes

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food Quality and Safety 2024年第1期8卷 115-123页

作者：钟毓秀倪德让杨玉波李元一王莉田金虎杨帆叶兴乾 Department of food Science and Nutrition Zhejiang Key Laboratory for Agri-Food ProcessingFuli Institute of Food ScienceZhejiang R&D Centre for Food Technology and EquipmentZhejiang UniversityHangzhouChina Institute of Science and Technology Moutai GroupZunyiChina Key Laboratory of Industrial Microbial Resources Development Kweichow Moutai Co.Ltd.RenhuaiChina

Backgrounds:Tannic acid(TA),as a plant-derived phenolic substance,is involved in regulating the activity of starch digestive enzymes,but its underlying mechanism remains *** and Results:In the present study,inhibition rate and inhibition kinetics assays were performed and confrmed that TA had a strong inhibitory effect on bothα-amylase andα-glucosidase with IC50 values of 0.1585 mg/mL and 0.00542 mg/mL,respectively,through a mixed inhibition *** secondary structures of both enzymes were confrmed to be modifed by TA through circular dichroism(CD)*** quenching analysis revealed that the interaction between TA and two enzymes was a static process of pontaneous complex ***,molecular docking revealed that non-covalent bonds were the main interaction forces between TA and both ***:Thus,TA was a promising candidate for the inhibition of starch-digesting enzymes,and the present research provided insight into postprandial glucose regulation through polyphenols.

关键词： Tannic acid α-amylase α-glucosidase inhibition starch digestion.

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Advancements in assessing soil health through functional traits and energy flow analysis of soil

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Soil Ecology Letters 2024年第2期6卷 21-30页

作者： Jingnan Zhang Shiyu Li Elly Morrien Neil B.McLaughlin Shixiu Zhang School of Life Sciences Zhengzhou UniversityZhengzhou 450001China State Key Laboratory of Black Soils Conservation and Utilization Northeast Institute of Geography and AgroecologyChineseAcademy of SciencesChangchun 130012China Key Laboratory of Mollisols Agroecology Northeast Institute of Geography and AgroecologyChinese Academy of SciencesChangchun 130012China Institute of Biodiversity and Ecosystem Dynamics(IBED-ELD) Department of Ecosystem and Landscape DynamicsUniversity of AmsterdamScience Park 9041098 XHA msterdamThe Netherlands Ottawa Research and Development Centre Agriculture and Agri-Food CanadaOttawa K1AoC6Canada University of Chinese Academy of Sciences Bejing 100049China

We examined the development of soil nematodes ecological indices from the perspective off *** found that soil nematode energy flow analyses based on multiple functional traits quantify the dynamics of energy flow across multipletrophic levels to provide a more comprehensive *** conducted comparative analyses of the sensitivities of NMF and energy flow to verify that the energy flow analyses are more sensitive and have greater potential to reveal soil health and ecosystem *** in-depth studies of functional traits and energy flow analysis can help us achieve informed soil management practices,sustainable agriculture,*** Tess CT Nematode ecological index based on functional traits:MI El,S,BI,C1 NMF Bongen.1990 Ferrisetal,2001 Ferris,2010 energs low analysis of soil nematodes Compare thecological index(NMf)and Bacterivores(Ba)Functional traits Energy flux Fungihores(Fn)rahn Soilnematodes latitude Lindicator Plant-parasites(PP)PF Energflus Soilhealth Omnivores-predators(oP)latitude Energy flow analysis of soil nematodes:By quantifying energy fux among trophic groups Barbes et al.,2014,2018 This paper examines the development of ecological indices for soil nematodes from the perspective of functional *** emphasizes the increasing significance of integrating multiple functional traits to achieve a more accurate assessment of soil *** indices based on life history strategies,feeding habits,and body size provide useful tools for assessing soil ***,these indices do not fully capture the dynamics ofenergyflow across multiple-trophic levels inthesoil foodweb,which is critical fora deeperunderstanding of the intrinsic properties of soil *** combining functional traits such as functional group,body size,feeding preference and metabolic rate,nematode energy flow analyses provide a more comprehensive *** approach establishes a direct correlation between changes

关键词： soil nematodes soil health nematodefoodweb functional traits energyflux

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Effect of simulated gastrointestinal digestion on antioxidant,and anti-inflammatory activities of bioactive peptides generated in sausages fermented with Staphylococcus simulans QB7

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food Science and Human Wellness 2024年第3期13卷 1662-1671页

作者： Hongying Li Hongbing Fan Zihan Wang Qiujin Zhu Jianping Wu Laboratory of Animal Genetics Breeding and Reproduction in the Plateau Mountainous RegionMinistry of EducationCollege of Life SciencesGuizhou UniversityGuiyang 550025China Department of agricultural Food and Nutritional ScienceUniversity of AlbertaAlberta T6G 2P5Canada Department of Animal and food Sciences University of KentuckyLexington 40546United States School of Liquor and food Engineering Guizhou UniversityGuiyang 550025China

Dry-fermented sausages are a good source of bioactive peptides,whose stability against gastrointestinal(GI)digestion determines their *** study focused on evaluating the effect of peptide extracts from sausages fermented with Staphylococcus simulans QB7 during in vitro simulated GI digestion,including peptide profiles and antioxidant and anti-inflammatory *** present in sausages were degraded during digestion,with molecular weight reduced from>12 kDa to<1.5 ***,the content of amino acids increased from 381.15 to 527.07 mg/g,especially tyrosine being found only after GI *** anti-inflammatory activities were increased after GI digestion,however,the changes in antioxidant activities were the opposite.A total number of 255,252 and 386 peptide sequences were identified in undigested,peptic-digested and GI-digested samples,***,BIOPEP-UWM and admetSAR were used to further predict the functional properties and intestinal absorption of the identified peptide sequences from GI ***,18 peptides were discovered to possess either antioxidant or anti-inflammatory capacities.

关键词： Gastrointestinal digestion Sausages Bioaccessibility Anti-inflammatory activities

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家禽红螨(鸡皮刺螨)的杀螨剂抗药性及其管理方法

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养禽与禽病防治 2024年第2期 18-28页

作者： R.Z.Abbas D.D.Colwell Z.Iqbal A.Khan 刘红(校对) Department of Parasitology University of AgricultureFaisalabad-38040Pakistan Livestock Parasitology Agriculture and Agri-Food CanadaLethbridge Research Centre54031st Ave.S.LethbridgeAB.T1J 4B1Canada Department of Pathology University of AgricultureFaisalabad-38040Pakistan 默沙东动物保健品(上海)有限公司

家禽红螨(鸡皮刺螨)是一种危害养鸡业的吸血害虫,是世界许多地方家禽生产中的重要问题。尽管免疫学、生物技术和遗传学方法取得了进展,但控制家禽红螨却通常仍依赖于合成杀螨剂。随着这些化合物的反复长期使用导致了家禽螨虫抗药性种群... 详细信息

家禽红螨(鸡皮刺螨)是一种危害养鸡业的吸血害虫,是世界许多地方家禽生产中的重要问题。尽管免疫学、生物技术和遗传学方法取得了进展,但控制家禽红螨却通常仍依赖于合成杀螨剂。随着这些化合物的反复长期使用导致了家禽螨虫抗药性种群的形成,可用的有效杀螨剂正在迅速减少。因此需要不断研制新型的化学杀螨剂来取代旧的杀螨剂,但新型杀螨剂的开发和注册是一个漫长且昂贵的过程,故保持和维持现有杀螨剂的有效性至关重要。本综述分为2部分:第一部分提供了对鸡皮刺螨杀螨剂抗药性的基本认识;第二部分提供了关于保持现有杀螨剂有效性的抗药性管理的详细信息。

关键词：家禽红螨杀螨剂杀螨剂抗药性抗药性管理

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Innovations in measuring and mitigating phytohemagglutinins,a key food safety concern in beans

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food Quality and Safety 2024年第1期8卷 1-11页

作者：吕晨泽房智慧杨素宁康徐敏 Arnaud Buhot Yanxia Hou 胡培雅徐沛 Key Laboratory of Specialty agri-products Quality and Hazard Controlling Technology of Zhejiang Province College of Life SciencesChina Jiliang UniversityHangzhouChina University Grenoble Alpes CEACNRSINAC-SyMMESGrenobleFrance

Phytohemagglutinin(PHA)is a seed storage protein and a type of lectin originally discovered in the common bean(Phaseolus vulgaris)for its blood-agglutinating *** to its interactions with gut epithelia and digestive enzymes and its potential to trigger allergic reactions,PHA can lead to various symptoms in the human *** a result,it has been regarded as a signifcant antinutritional factor in beans and other *** several published works have summarized its structural,biochemical,and toxicological features,there is a scarcity of literature that reviews the detection,quantifcation,and reduction of PHA in beans,which is fundamental for the development of safer bean *** this review,we present a comprehensive analysis of traditional and innovative bio-sensing methods for measuring PHA,including the recently available ultrapure liquid chromatography–tandem mass spectrometry and emerging aptamer sensor-based techniques,while discussing their respective advantages and *** also revisit existing studies dedicated to creating PHA-depleted common bean varieties and explore the potential for reducing PHA content in beans without compromising their resistance to biotic ***,we offer insights into the potential for controlling PHA content using the latest biotechnologies and breeding ***,this review compiles rare and valuable information from studies that solely focuses on detection and depletion of PHA to shed light on and apply technological advancements in addressing potential food safety risks associated with the consumption of common beans.

关键词： Phytohemagglutinin common bean food safety breeding quantifcation.

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Preventive effects of Bifidobacterium lactis Probio-M8 on ovalbumin-induced food allergy in mice

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food Science and Human Wellness 2024年第4期13卷 2346-2352页

作者： Jialu Shi Yan Xu Cheng Liu Shizhi Wang Jin Wang Vijaya Raghavan Key Laboratory of Environmental Medicine and Engineering Ministry of Educationand Department of Nutrition and Food HygieneSchool of Public HealthSoutheast UniversityNanjing 210009China Department of Bioresource Engineering Faculty of Agricultural and Environmental SciencesMcGill UniversitySainte-Anne-de-BellevueQC H9X3V9Canada

food allergy is a significant public health concern *** probiotics have been found to enhance food allergy by regulating immune-microbe interactions in animal models and ***,the effects of Bifidobacterium lactis Probio-M8 on food allergy have not been thoroughly *** present study examined the anti-allergic properties of Probio-M8,particularly in relation to immune response and gut microbiota *** demonstrate that oral administration of Probio-M8 effectively mitigated the allergy symptoms triggered by ovalbumin(OVA)by ameliorating the morphological damage in the jejunum,reducing OVA-specific IgE and histamine levels in the serum,and suppressing Th2 cytokines(interleukin(IL)4 and IL-13)while increasing Th1 cytokines(interferon(IFN)γ)and regulatory T(Treg)cytokines(IL-10 and transforming growth factor(TGF)β1)in the culture supernatants of splenic ***,Probio-M8 effectively altered the diversity and composition of gut microbiota,particularly the relative abundances of Akkermansia_muciniphila in OVA-induced *** to the OVA group,the Probio-M8 group showed a decrease in the relative abundance of Akkermansia_*** conclusion,Probio-M8 demonstrates the potential to alleviate food allergy by regulating the Th1/Th2 response and modulating gut microbiota,thereby offering a novel therapeutic strategy for patients with food allergy.

关键词： food allergy Bifidobacterium lactis Probio-M8 T cell immune response Gut microbiota

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