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Evaluating the performance of genomic selection on purebred population by incorporating crossbred data in pigs

Journal of Integrative Agriculture 2024年第2期23卷 639-648页

作者： Jun Zhou Qing Lin Xueyan Feng Duanyang Ren Jinyan Teng Xibo Wu Dan Wu Xiaoke Zhang Xiaolong Yuan Zanmou Chen Jiaqi Li Zhe Zhang Hao Zhang College of animal Science South China Agricultural University/State Key Laboratory of Swine and Poultry Breeding Industry/National Engineering Research Center for Breeding Swine IndustryGuangzhou 510642China Guangxi State Farms Yongxin animal Husbandry group Co. Ltd.Nanning 530022China

Genomic selection(GS)has been widely used in livestock,which greatly accelerated the genetic progress of complex *** population size was one of the significant factors affecting the prediction accuracy,while it was limited by the purebred *** to directly combining two uncorrelated purebred populations to extend the reference population size,it might be more meaningful to incorporate the correlated crossbreds into reference population for genomic *** this study,we simulated purebred offspring(PAS and PBS)and crossbred offspring(CAB)base on real genotype data of two base purebred populations(PA and PB),to evaluate the performance of genomic selection on purebred while incorporating crossbred *** results showed that selecting key crossbred individuals via maximizing the expected genetic relationship(REL)was better than the other methods(individuals closet or farthest to the purebred population,CP/FP)in term of the prediction ***,the prediction accuracy of reference populations combining PA and CAB was significantly better only based on PA,which was similar to combine PA and ***,the rank correlation between the multiple of the increased relationship(MIR)and reliability improvement was *** for individuals with low correlation(Cor(Pi,PA or B),the reliability improvement was significantly lower than other *** findings suggested that incorporating crossbred into purebred population could improve the performance of genetic prediction compared with using the purebred population *** genetic relationship between purebred and crossbred population is a key factor determining the increased reliability while incorporating crossbred population in the genomic prediction on pure bred individuals.

关键词： pigs crossbred population genomic selection reference population construction relationship

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Design and verification of an FPGA programmable logic element based on Sense-Switch pFLASH

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Frontiers of Information Technology & Electronic Engineering 2024年第4期25卷 485-499页

作者： Zhengzhou CAO Guozhu LIU Yanfei ZHANG Yueer SHAN Yuting XU No.58 research Institute China Electronics Technology Group CorporationWuxi 214035China

This paper proposes a kind of programmable logic element(PLE)based on Sense-Switch pFLASH *** programming Sense-Switch pFLASH,all three-bit look-up table(LUT3)functions,partial four-bit look-up table(LUT4)functions,latch functions,and d flip flop(DFF)with enable and reset functions can be *** PLE uses a choice of operational logic(COOL)approach for the operation of logic functions,it allows any logic circuit to be implemented at any ratio of combinatorial logic to *** intrinsic property makes it close to the basic application specific integrated circuit(ASIC)cell in terms of fine granularity,thus allowing ASIC-like cell-based mappers to apply all their optimization *** measuring Sense-Switch pFLASH and PLE circuits,the results show that the“on”state driving current of the Sense-Switch pFLASH is about 245.52μA,and that the“off”state leakage current is about 0.1 *** programmable function of PLE works *** delay of the typical combinatorial logic operation AND3 is 0.69 ns,and the delay of the sequential logic operation DFF is 0.65 ns,both of which meet the requirements of the design technical index.

关键词： Field programmable gate array(FPGA) Programmable logic element(PLE) Boolean logic operation Look-up table Sense-Switch pFLASH Threshold voltage

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Large‑scale transcriptomic and genomic analyses reveal a novel functional gene SERPINB6 for chicken carcass traits

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Journal of animal Science and Biotechnology 2024年第4期15卷 1466-1481页

作者： Di Zhao Ranran Liu Xiaodong Tan Huimin Kang Jie Wang Zheng Ma Haiquan Zhao Hai Xiang Zhengfen Zhang Hua Li Guiping Zhao Guangdong Provincial Key Laboratory of animal Molecular Design and Precise Breeding School of Life Science and EngineeringFoshan UniversityFoshanChina State Key Laboratory of animal Biotech Breeding Institute of Animal SciencesChinese Academy of Agricultural SciencesBeijingChina Guangdong Tinoo’s Foods group Co. Ltd.QingyuanChina

Background Carcass traits are crucial indicators of meat production ***,the molecular regulatory mechanisms associated with these traits remain *** In this study,we conducted comprehensive transcriptomic and genomic analyses on 399 Tiannong partridge chickens to identify key genes and variants associated with carcass traits and to elucidate the underlying regulatory *** on association analyses with the elastic net(EN)model,we identified 12 candidate genes(AMY1A,AP3B2,CEBPG,EEF2,EIF4EBP1,FGFR1,FOXD3,GOLM1,LOC107052698,PABPC1,SERPINB6 and TBC1D16)for 4 carcass-related traits,namely live weight,dressed weight,eviscerated weight,and breast muscle ***6 was identified as the only overlapping gene by 3 analyses,EN model analysis,weighted gene co-expression network analysis and differential expression ***-level experiments confirmed that SERPINB6 promotes the proliferation of chicken DF1 cells and primary *** expression genome-wide association study and association analysis indicated that rs317934171 is the critical site that enhances SERPINB6 ***,a dual-luciferase reporter assay proved that gga-miR-1615 targets the 3′UTR of *** Collectively,our findings reveal that SERPINB6 serves as a novel gene for chicken carcass traits by promoting fibroblast and myoblast ***,the downstream variant rs317934171 regulates SERPINB6 *** results identify a new target gene and molecular marker for the molecular mechanisms of chicken carcass traits.

关键词： Carcass traits Chicken Genome SERPINB6 Transcriptome

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Towards an integrated risk analysis security framework according to a systematic analysis of existing proposals

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Frontiers of Computer Science 2024年第3期18卷 199-216页

作者： Antonio SANTOS-OLMO Luis Enrique SÁNCHEZ David G.ROSADO Manuel A.SERRANO Carlos BLANCO Haralambos MOURATIDIS Eduardo FERNÁNDEZ-MEDINA GSyA research group University of Castilla-La ManchaCiudad Real 13071Spain Institute for Analytics and Data Science University of EssexColchester CO43SQUK Alarcos research group University of Castilla-La ManchaCiudad Real 13071Spain ISTR research group Department of Computer Science and ElectronicsUniversity of CantabriaSantander 39005Spain

The information society depends increasingly on risk assessment and management systems as means to adequately protect its key information *** availability of these systems is now vital for the protection and evolution of ***,several factors have led to an increasing need for more accurate risk analysis *** are:the speed at which technologies evolve,their global impact and the growing requirement for companies to *** analysis processes must consequently adapt to these new circumstances and new technological *** objective of this paper is,therefore,to present the results of an exhaustive analysis of the techniques and methods offered by the scientific community with the aim of identifying their main weaknesses and providing a new risk assessment and management *** analysis was carried out using the systematic review protocol and found that these proposals do not fully meet these new *** paper also presents a summary of MARISMA,the risk analysis and management framework designed by our research *** basis of our framework is the main existing risk standards and proposals,and it seeks to address the weaknesses found in these *** is in a process of continuous improvement,as is being applied by customers in several European and American *** consists of a risk data management module,a methodology for its systematic application and a tool that automates the process.

关键词： information security management security system security risk assessment and management

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Molybdenum and cadmium co-induce necroptosis through Th1/Th2 imbalance-mediated endoplasmic reticulum stress in duck ovaries

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Journal of Environmental Sciences 2024年第8期142卷 92-102页

作者： Ting Cui Xueyan Dai Huiling Guo Dianyun Wang Bingyan Huang Wenjing Pu Xuesheng Chu Caiying Zhang Jiangxi Provincial Key Laboratory for animal Health Institute of Animal Population HealthCollege of Animal Science and TechnologyJiangxi Agricultural UniversityNanchang 330045China

Cadmium(Cd)and excess molybdenum(Mo)pose serious threats to animal *** previous study has determined that Cd and/or Mo exposure can cause ovarian damage of ducks,while the specific mechanism is still *** further investigate the toxic mechanism of Cd and Mo co-exposure in the ovary,forty 8-day-old female ducks were randomly allocated into four groups for 16 weeks,and the doses of Cd and Mo in basic diet per kg were as follows:control group,Mo group(100 mg Mo),Cd group(4 mg Cd),and Mo+Cd group(100 mg Mo+4 mg Cd).Cadmium sulfate 8/3-hydrate(CdSO_(4)·8/3H_(2)O)and hexaammonium molybdate((NH_(4))_(6)Mo_(7)O_(24)·4H_(2)O)were the origins of Cd and Mo,*** the 16th week of the experiment,all ovary tissues were collected for the detection of related *** data indicated that Mo and/or Cd induced trace element disorders and Th1/Th2 balance to divert toward Th1 in the ovary,which activated endoplasmic reticulum(ER)stress and then provoked necroptosis through triggering RIPK1/RIPK3/MLKL signaling pathway,and eventually caused ovarian pathological injuries and necroptosis *** alterations of above indicators were most apparent in the joint *** all,this research illustrates that Mo and/or Cd exposure can initiate necroptosis through Th1/Th2 imbalance-modulated ER stress in duck ovaries,and Mo and Cd combined exposure aggravates ovarian *** research explores the molecular mechanism of necroptosis caused by Mo and/or Cd,which reveals that ER stress attenuation may be a therapeutic target to alleviate necroptosis.

关键词： Molybdenum Cadmium Th1/Th2 imbalance Endoplasmic reticulum stress Necroptosis Ovary

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Evolution of biomass particles during pelletization process

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Particuology 2024年第3期86卷 182-187页

作者： Hamid Rezaei Maryam Tajilrou Jun Sian Lee Kanages Singaraveloo Anthony Lau Shahab Sokhansanj Biomass and Bioenergy research group Department of Chemical and Biological EngineeringUniversity of British ColumbiaVancouverCanada

Pulverizing is an essential unit operation in co-firing biomass with *** are only compatible with pellet forms of fibrous biomass materials and crush them down to their original forming particle *** is why the data on the size distribution of the particles forming a biomass pellet is crucial to achieving optimum combustion *** current study determines the internal particle size distribution of pellets after wet disintegration,following Iso 17830 standard,and aims to suggest improvements to the mentioned standard based on new measured *** were carried out on white wood pellets(no bark)and brown wood pellets containing bark at four water temperatures:20,40,60,and 95℃,with or without *** particle size distribution of the pre-pelletizer wood particles was also measured and compared with particles in the formed *** water temperature of 20℃ was found to be adequate for the complete disintegration of pellets,and no mechanical stirring was *** 30% of particles in the disintegrated pellets were 0.5-1.0 *** changes the particle size distribution to smaller *** disintegrated bark pellets contained more fines than white pellets.

关键词： Wood pellets Particle sizes distribution Wet disintegration Stirring Water temperature

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Incense smoke(IS)inhalation exposure system:Physicochemical characterization,IS particle deposition and clearance in human airway using MPPD model

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Particuology 2024年第4期87卷 271-285页

作者： Vyas Kumar Hafsa Hashmi Anshita Nasreen Ghazi Ansari Jyotsna Singh Inhalation Toxicology Facility Regulatory Toxicology GroupCSR-Indian Institute of Toxicology ResearchLucknow22001UPIndi Academy of Scientific and Innovative research(AcsSIR) Ghaziabad201002UPIndia Analytical Chemistry Regulatory Toxicology GroupCSIR-Indian Institute of Toxicology ResearchLucknow226001UPIndia

Incense smoke(IS)is source of indoor air pollution and key risk for diverse human *** in-formation is available regarding controlled IS rodent inhalation exposure system and IS particulate matter(PM)deposition in human *** aimed to demonstrate stable ISPM physicochemical parameters of 10 incense products inside the customized whole body inhalation exposure chamber(without animal)connected to smoke generation unit via aerosol mixing *** analyzed for size segregated PM emission,ISPM in vitro aerodynamics(MMAD and GSD determination),fine and ultrafine particle's SEM,SEM-EDX and PAH *** real life exposure scenario by utilizing MMAD,GSD and PM concentration after Tier 1 exposure assessment as key input parameters,ISPM dosimetry in infant(3 months)and adult(21 years male and female)human airways was calculated using multiple-path particle dosimetry(MPPD 3.04)*** median aerodynamic diameter(MMAD)and geo-metric standard deviation(GSD)ranged between 0.55 and 2.10μm and 1.22 to 1.77(polydisperse)***1.0 and PM0.1 showed multiple morphology and presence of heavy and trace *** like acenaphthylene,anthracene,fluorene,naphthalene and phenanthrene were detected(0.84-143.17μg/g).MPPD results showed higher ISPM deposition in pulmonary region and lowest in trachea bronchial *** deposition in tissue was higher in lower,peripheral lung as compared to upper and central lung *** body inhalation exposure system showed stable IS atmosphere(physi-cochemical parameters)indicating the device suitability in future inhalation *** ISPM deposition fraction and clearance data showed deep lung penetrating and retention behavior with higher risk in infant followed by female and then *** modeled particle deposition and clearance data may be useful in risk assessment analysis of IS.

关键词： Inhalation Incense smoke Multiple-path particle dosimetry(MPPD) Particle deposition Particulate matter(PM) Mass median aerodynamic diameter (MMAD) Human airway

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Effect of red clover isoflavones on hormone, immune, inflammatory,and plasma biochemistry in lactating dairy cows

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animal Nutrition 2024年第1期16卷 306-312页

作者： Shiqi Zhang Xiaoyin Zhang Zhanbo Xiong Kexin Li Yuan Gao Ying Bu Nan Zheng Shengguo Zhao Jiaqi Wang State Key Laboratory of animal Nutrition Institute of Animal Sciences Chinese Academy of Agricultural Sciences

This study was to conducted to investigate the effect of red clover isoflavones on the health indicated by immune status and blood biochemistry in dairy cows. Sixty-eight healthy Holstein lactating cows were randomly divided into four treatments(n = 17 per treatment) from 5 blocks according to milk yield using a randomized complete block design. No initial differences in parity(2.13 ± 1.21), days in milk(165 ± 21 d), and milk yield(33.93 ± 3.81 kg/d) between groups. Cows were fed the basal diet supplemented with 0, 2, 4, or 8 g/kg red clover extract(RCE) in diet(dry matter based). Feeding, refusal feed weights, and milk yield were recorded three consecutive days in weeks 0, 4, 8, and 12. Blood was collected from the tail vein of the cows on the last day of weeks 4, 8 and 12, 1 h after the morning feeding,and analyzed for hormones, immunoglobulins, inflammatory markers, and markers of liver and kidney activities. The dry matter intake was significantly decreased by 3.7% in the 8 g/kg group(P groups(P group(P groups(P group(P 0.05). These results recommend the supplementation of RCE at a level from 2 to4 g/kg DM.

关键词： Dairy cow Red clover isoflavone Immunity Anti-inflammatory

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Dynamic changes of rumen microbiota and serum metabolome revealed increases in meat quality and growth performances of sheep fed bio‑fermented rice straw

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Journal of animal Science and Biotechnology 2024年第3期15卷 1207-1226页

作者： Yin Yin Kyawt Min Aung Yao Xu Zhanying Sun Yaqi Zhou Weiyun Zhu Varijakshapanicker Padmakumar Zhankun Tan Yanfen Cheng Laboratory of Gastrointestinal Microbiology National Center for International Research on Animal Gut NutritionNanjing Agricultural UniversityNanjing 210095China Department of animal Nutrition University of Veterinary ScienceNay Pyi Taw 15013Myanmar International Livestock research Institute Nairobi 00100Kenya College of animal Science Tibet Academy of Agricultural and Animal Husbandry SciencesLhasa 850000China State Key Laboratory of Grassland Agro‑Ecosystems Center for Grassland MicrobiomeCollege of Pastoral Agriculture Science and TechnologyLanzhou UniversityLanzhou 730000China

Background Providing high-quality roughage is crucial for improvement of ruminant production because it is an essential component of their *** previous study showed that feeding bio-fermented rice straw(BF)improved the feed intake and weight gain of ***,it remains unclear why feeding BF to sheep increased their feed intake and weight ***,the purposes of this research were to investigate how the rumen micro-biota and serum metabolome are dynamically changing after feeding BF,as well as how their changes influence the feed intake,digestibility,nutrient transport,meat quality and growth performances of *** growing Hu sheep were allocated into 3 groups:alfalfa hay fed group(AH:positive control),rice straw fed group(RS:negative control)and BF fed group(BF:treatment).Samples of rumen content,blood,rumen epithelium,muscle,feed offered and refusals were collected for the subsequent *** Feeding BF changed the microbial community and rumen fermentation,particularly increasing(P<0.05)relative abundance of Prevotella and propionate production,and decreasing(P<0.05)enteric methane *** histomorphology(height,width,area and thickness)of rumen papillae and gene expression for carbohydrate trans-port(MCT1),tight junction(claudin-1,claudin-4),and cell proliferation(CDK4,Cyclin A2,Cyclin E1)were improved(P<0.05)in sheep fed ***,serum metabolome was also dynamically changed,which led to up-regulating(P<0.05)the primary bile acid biosynthesis and biosynthesis of unsaturated fatty acid in sheep fed *** a result,the higher(P<0.05)feed intake,digestibility,growth rate,feed efficiency,meat quality and mono-unsaturated fatty acid concentration in muscle,and the lower(P<0.05)feed cost per kg of live weight were achieved by feeding *** Feeding BF improved the growth performances and meat quality of sheep and reduced their feed ***,bio-fermentation of rice straw could be an innovative way for improving rum

关键词： Bio-fermentation Growth rate Meat quality Metabolome Microbiota Rice straw

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Organic petrographic and mineralogical composition of the No. 6 coal seam of the Soutpansberg Coalfield, South Africa: Insights into paleovegetation and depositional environment

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International Journal of Coal Science & Technology 2024年第3期11卷 190-207页

作者： Sanki Biswas Nicola J.Wagner Ofentse M.Moroeng DSI-NRF CIMERA/PPM research group Department of GeologyUniversity of JohannesburgJohannesburgSouth Africa

This study investigates the paleodepositional conditions of the No.6 Seam of the Madzaringwe Formation in Makhado and Voorburg south area of the Soutpansberg Coalfield(Limpopo Province,South Africa)utilizing organic petrography and inorganic geochemical *** coals are predominantly high-volatile bituminous B-A rank with high ash yields(avg.36.1 wt%),characterized by high-vitrinite(~41.5 vol%),moderate-to-high inertinite(9.8 vol%–33.7 vol%)and low liptinite(~2.3 vol%).The distribution of inertinite varies among different coal horizons(from bottom-lower to middle-upper),suggesting differential oxidation conditions and/or paleofire ***-to-inertinite(V/I)ratio,tissue preservation–gelification index(TPI–GI),and groundwater–vegetation index(GWI–VI)plots,indicate that the peat-forming forest-swamp vegetation accumulated under mesotrophic-to-rheotrophic hydrological *** presence of structured macerals(i.e.,telinite,collotelinite,fusinite,and semifusinite)suggests well-preserved plant tissues,whereas framboidal pyrite and sulphur content(0.24 wt%–2.16 wt%)point to brackish-water influence at the peat *** coals contain quartz,kaolinite,siderite,muscovite,dolomite,calcite,and pyrite minerals,most of which were likely sourced from felsic igneous *** Al/(Al+Fe+Mn)and(Fe+Mn)/Ti ratios for the studied samples range between 0.24–0.97 and 0.57–70.10,*** ratios,Al–Fe–Mn plot,and presence of massive botryoidal-type pyrite imply some influence of meteoric waters or fluids from hydrothermal activity ***,the chemical index of alteration(CIA:98.25–99.67),chemical index of weathering(CIW:92.04–97.66),and A–CN–K ternary diagram suggest inorganic matter suffered strong chemical weathering,indicating warm paleoclimatic conditions during the coal formation.

关键词： Macerals Coal facies Geochemical-indices Hydrothermal Madzaringwe formation Soutpansberg Coalfield

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