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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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Resident immune responses to spinal cord injury:role of astrocytes and microglia

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Neural Regeneration research 2024年第8期19卷 1678-1685页

作者： Sydney Brockie Cindy Zhou Michael G.Fehlings Division of Genetics and development Krembil Research InstituteUniversity Health NetworkTorontoONCanada Institute of Medical Science University of TorontoTorontoONCanada Division of Neurosurgery and Spine Program Department of SurgeryUniversity of TorontoTorontoONCanada

Spinal cord injury can be traumatic or non-traumatic in origin,with the latter rising in incidence and prevalence with the aging demographics of our *** r,as the global population ages,individuals with co-existent degenerative spinal pathology comprise a growing number of traumatic spinal cord injury cases,especially involving the cervical spinal *** makes recovery and treatment approaches particula rly challenging as age and comorbidities may limit regenerative *** these reasons,it is critical to better understand the complex milieu of spinal cord injury lesion pathobiology and the ensuing inflammatory *** review discusses microglia-specific purinergic and cytokine signaling pathways,as well as microglial modulation of synaptic stability and plasticity after ***,we evaluate the role of astrocytes in neurotransmission and calcium signaling,as well as their border-forming response to neural *** the inflammatory and reparative roles of these cells have eluded our complete understanding and remain key therapeutic targets due to their extensive structural and functional roles in the nervous *** advances have shed light on the roles of glia in neurotransmission and reparative injury responses that will change how interventions are *** key processes and existing knowledge gaps will allow future research to effectively target these cells and harness their regenerative potential.

关键词： astrocytes glial signaling microglia spinal cord injury synaptic transmission

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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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Fracture behavior and mechanism of highly fragmented steel cylindrical shell under explosive loading

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defence Technology（防务技术） 2024年第6期36卷 122-132页

作者： Kang Wang Peng Chen Xingyun Sun Yufeng Liu Jiayu Meng Xiaoyuan Li Xiongwei Zheng Chuan Xiao Xi'an Modern Chemistry research Institute Xi'an 710065China Shanxi Jiangyang Chemical Company Limited Taiyuan 030051China Central Iron&Steel research Institute Company Limited Beijing 100081China China research and development Academy of Machinery Equipment Beijing 100089China

An in-depth understanding of the fracture behavior and mechanism of metallic shells under internal explosive loading can help develop material designs for warheads and regulate the quantity and mass distribution of the fragments *** study investigated the fragmentation performance of a new high-carbon silicon-manganese(HCSiMn)steel cylindrical shell through fragment recovery *** with the conventional 45Cr steel shell,the number of small mass fragments produced by the HCSi Mn steel shell was significantly increased with a scale parameter of 0.57 g fitted by the Weibull distribution *** fragmentation process of the HCSi Mn shell exhibited more brittle tensile fracture characteristics,with the microcrack damage zone on the outer surface being the direct cause of its high *** the one hand,the doping of alloy elements resulted in grain refinement by forming metallographic structure of tempered sorbite,so that microscopic intergranular fracture reduces the characteristic mass of the fragments;on the other hand,the distribution of alloy carbides can exert a"pinning"effect on the substrate grains,causing more initial cracks to form and propagate along the brittle carbides,further improving the shell *** the killing power radius for light armored vehicles was slightly reduced by about 6%,the dense killing radius of HCSiMn steel projectile against personnel can be significantly increased by about 26%based on theoretical *** results provided an experimental basis for high fragmentation warhead design,and to some extent,revealed the correlation mechanism between metallographic structure and shell fragmentation.

关键词： Projectile fragmentation Fragment mass distribution Fracture mode Metallographic structure Damage power

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Automatic modulation recognition of radio fuzes using a DR2D-based adaptive denoising method and textural feature extraction

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defence Technology（防务技术） 2024年第4期34卷 328-338页

作者： Yangtian Liu Xiaopeng Yan Qiang Liu Tai An Jian Dai Science and Technology on Electromechanical Dynamic Control Laboratory School of Mechatronical EngineeringBeijing Institute of TechnologyBeijing 100081China China research and development Academy of Machinery Equipment Beijing 100089China

The identification of intercepted radio fuze modulation types is a prerequisite for decision-making in interference ***,the electromagnetic environment of modern battlefields is complex,and the signal-to-noise ratio(SNR)of such environments is usually low,which makes it difficult to implement accurate recognition of radio *** solve the above problem,a radio fuze automatic modulation recognition(AMR)method for low-SNR environments is ***,an adaptive denoising algorithm based on data rearrangement and the two-dimensional(2D)fast Fourier transform(FFT)(DR2D)is used to reduce the noise of the intercepted radio fuze intermediate frequency(IF)***,the textural features of the denoised IF signal rearranged data matrix are extracted from the statistical indicator vectors of gray-level cooccurrence matrices(GLCMs),and support vector machines(SVMs)are used for *** DR2D-based adaptive denoising algorithm achieves an average correlation coefficient of more than 0.76 for ten fuze types under SNRs of-10 d B and above,which is higher than that of other typical *** trained SVM classification model achieves an average recognition accuracy of more than 96%on seven modulation types and recognition accuracies of more than 94%on each modulation type under SNRs of-12 d B and above,which represents a good AMR performance of radio fuzes under low SNRs.

关键词： Automatic modulation recognition Adaptive denoising Data rearrangement and the 2D FFT(DR2D) Radio fuze

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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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The effect of reactive plasticizer on viscoelastic and mechanical properties of solid rocket propellants based on different types of HTPB resin

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defence Technology（防务技术） 2024年第3期33卷 66-77页

作者： Tihomir Kovacevic Slavko Mijatov Jelena Grzetic Suzana Cakic Bojana Fidanovski Sasa Brzic Military Technical Institute Ministry of DefenceRatka Resanovica 1BelgradeSerbia Faculty of Technology University of NisBulevar osloboCenja 124LeskovacSerbia

Conventional plasticizers deteriorate mechanical and viscoelastic properties of the propellants due to their migration upon aging and long-term storage,which affects reliability and safety properties during *** address this issue,conventional plasticizer,dioctyl adipate(DOA),is replaced by reactive one,castor oil(CO).In addition,three different types of HTPB were used to obtain propellants with designed viscoelastic and mechanical *** CO increased propellants viscosity,without a significant impact on the propellant processability,regardless to the type of ***,mechanical properties were different depending on the type of resin,which were further analyzed by gel permeation chromatography(GPC).Addition of CO formed a denser polymer network and shifted T_(g) to higher values,compared to the compositions with *** tensile strength of CO-containing propellants was lower at +20℃ and +50℃ compared to the reference compositions,while the strain at maximum load and strain at break were significantly increased with pronounced plastic deformation,especially for samples at -30℃.The inclusion of CO in the propellants composition gives more room for adjusting a wide range of mechanical properties.

关键词： HTPB-based composite propellants Castor oil Reactive plasticizer Gel permeation chromatography Sol-gel analysis Mechanical and viscoelastic properties

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Characteristics and origin of low-organicmatter carbonate source rocks in the Middle-Upper Ordovician, Tarim Basin, northwestern China

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Journal of Palaeogeography 2024年第3期13卷 594-619页

作者： Jun-Qing Chen Fu-Jie Jiang Xiong-Qi Pang Hai-Jun Yang Kan-Yuan Shi Bo Pang Hong Pang Jian-Fa Chen Zhuo-Heng Chen Xin-Gang Zhang Song Wu State Key Laboratory of Petroleum Resources and Engineering China University of Petroleum(Beijing)Beijing 102249China Basic research Center for Energy Interdisciplinary College of ScienceChina University of Petroleum(Beijing)Beijing 102249China Beijing Key Laboratory of Optical Detection Technology for Oil and Gas China University of Petroleum(Beijing)Beijing 102249China College of Geosciences China University of Petroleum(Beijing)Beijing 102249China research Institute of Petroleum Exploration and development PetroChina Tarim Oilfield CompanyKorla 841000Xinjiang Uygur Autonomous RegionChina Geological Survey of canada Natural Resources CanadaCalgary T2L 2A7Canada

The continually-discovered large volumes of marine hydrocarbons indicate a huge exploration potential within the carbonate rocks of Ordovician in the Tarim Basin,northwestern *** Middle-Upper Ordovician(O2+3)carbonate source rocks are at a highly mature *** rocks presently contain a low amount of total organic carbon(TOC_(pd)≤0.5%)(TOC_(pd) means the present-day TOC).A mass balance approach is used to identify the source rocks that have expelled *** characteristics and origin of hydrocarbon expulsion from low-TOC_(pd) source rocks are studied,which are significant for oil exploration in the *** results showed that a low-TOC_(pd) O2+3 source rock having expelled hydrocarbons was type I and had a very narrow oil *** a high rock maturity and a high original TOC(TOCo)value exceeding 1%,nearly 80%of the generated hydrocarbons were *** content of gammacerane and C28 steranes in the oil and source rock extracts were relatively lean,with a V-shaped distribution of regular steranes,suggesting a possible genetic relation between the low-TOC_(pd) source rocks and the marine oil in the Tabei *** planktonic algae or acritarchs were the main hydrocarbon parent materials,distributed in the subsiding platform-slope *** matter was preserved under reducing conditions,and source rocks were formed with a favorable kerogen type and a moderate hydrocarbon generation *** study illustrates the hydrocarbon expulsion of low TOC_(pd) source rocks in northern Tarim Basin,which is greatly significant for analyzing the genesis of marine crude oil in Tarim Basin,and evaluating the distribution of marine source *** research method is theoretically significant for oil and gas exploration in the same type of highlymature carbonate paleobasins.

关键词： Carbonate source rock Mass balance approach Present-day TOC Genesis mechanism Tarim Basin

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Effects of dietary Clostridium butyricum and rumen protected fat on meat quality,oxidative stability,and chemical composition of finishing goats

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Journal of Animal Science and Biotechnology 2024年第2期15卷 911-924页

作者： Meimei Zhang Zhiyue Zhang Xinlong Zhang Changming Lu Wenzhu Yang Xiaolai Xie Hangshu Xin Xiaotan Lu Mingbo Ni Xinyue Yang Xiaoyang Lv Peixin Jiao College of Animal Science and Technology Northeast Agricultural UniversityHarbin 150030People’s Republic of China Lethbridge research and development Centre Lethbridge T1J 4B1Canada School of Agriculture and Food Sciences The University of QueenslandGattonQLD 4343Australia International Joint research Laboratory in Universities of Jiangsu Province of China for Domestic Animal Germplasm Resources and Genetic Improvement Yangzhou 225009China

Background Clostridium butyricum(CB)is a probiotic that can regulate intestinal microbial composition and improve meat *** protected fat(RPF)has been shown to increase the dietary energy density and provide essential fatty ***,it is still unknown whether dietary supplementation with CB and RPF exerts beneficial effects on growth performance and nutritional value of goat *** study aimed to investigate the effects of dietary CB and RPF supplementation on growth performance,meat quality,oxidative stability,and meat nutritional value of finishing ***-two goats(initial body weight,20.5±0.82 kg)were used in a completely randomized block design with a 2 RPF supplementation(0 vs.30 g/d)×2 CB supplementation(0 vs.1.0 g/d)factorial treatment *** experiment included a 14-d adaptation and 70-d data and sample collection *** goats were fed a diet consisted of 400 g/kg peanut seedling and 600 g/kg corn-based concentrate(dry matter basis).Result Interaction between CB and RPF was rarely observed on the variables measured,except that shear force was reduced(P<0.05)by adding CB or RPF alone or their combination;the increased intramuscular fat(IMF)content with adding RPF was more pronounced(P<0.05)with CB than without CB *** pH24h(P=0.009),a*values(P=0.007),total antioxidant capacity(P=0.050),glutathione peroxidase activities(P=0.006),concentrations of 18:3(P<0.001),20:5(P=0.003)and total polyunsaturated fatty acids(P=0.048)were increased,whereas the L*values(P<0.001),shear force(P=0.050)and malondialdehyde content(P=0.044)were decreased by adding ***,CB supplementation increased essential amino acid(P=0.027),flavor amino acid(P=0.010)and total amino acid contents(P=0.024)as well as upregulated the expression of lipoprotein lipase(P=0.034)and peroxisome proliferator-activated receptorγ(PPARγ)(P=0.012),and downregulated the expression of stearoyl-CoA desaturase(SCD)(P=0.034).The RPF supplementation increased dry

关键词： Chemical composition Clostridium butyricum Goats Meat quality Oxidative stability Rumen protected fat

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