Local cattle breeds play a critical role in breeding programs due to their genetic adaptations to diverse environmental conditions.However,the genomic architecture of local cattle breeds in Kazakhstan remains largely ...Local cattle breeds play a critical role in breeding programs due to their genetic adaptations to diverse environmental conditions.However,the genomic architecture of local cattle breeds in Kazakhstan remains largely unexplored.This study utilized whole-genome sequencing data from Kazakh cattle to elucidate their genetic composition,uncovering three primary ancestral components:European,Eurasian,and East Asian taurine.The East Asian taurine lineage likely represents the earliest genetic contribution to Kazakh cattle but was largely replaced by subsequent waves of cattle migrations across Eurasia,leaving only a minor genetic signature in the current cattle population.In contrast,Eurasian taurine ancestry predominated in the Alatau and Kazakh local breeds,while the European taurine component was most prevalent in Kazakh white-headed cattle,consistent with their documented breeding history.Kazakh cattle exhibited higher genetic diversity and lower inbreeding coefficients compared to European commercial breeds,reflecting reduced exposure to intense artificial selection.A strong selection signal was identified on chromosome 6 at a locus encompassing PDGFRA,KIT,and KDR,which may be associated with the white-headed pigmentation characteristic of Kazakh white-headed cattle.Additional genes under selection were linked to lipid metabolism(IRS1,PRKG1,and ADCY8),meat production traits(KCNMA1,PDGFRA,HIF1A,and ANTXR1),and dairy production(ATP2B1,DHX15,FUK,NEGR1,CCDC91,COG4,and PTK2B).This study represents the first comprehensive analysis of nuclear genome data from local Kazakh cattle.It highlights the impact of historical cattle migrations across Eurasia on their genetic landscape and identifies key genomic regions under selection.These findings advance our understanding of the evolutionary history of cattle and offer valuable genetic resources for future breeding strategies.展开更多
Facing the severe decline in beef cattle market prices and leveraging its status as a major cattle-raising city,Binzhou City has actively utilized the superior genetic resources of Bohai Black Cattle.The city has prog...Facing the severe decline in beef cattle market prices and leveraging its status as a major cattle-raising city,Binzhou City has actively utilized the superior genetic resources of Bohai Black Cattle.The city has progressively transitioned from small-scale cattle farming to specialized and large-scale breeding communities by collaborating with experts from national and provincial industrial technology systems including the Chinese Academy of Agricultural Sciences,Shandong Academy of Agricultural Sciences,and Shandong Agricultural University.The breeding focus has shifted from Simmental crossbred cattle to purebred Bohai Black Cattle,hybrid cattle,Angus Cattle,and Hereford Cattle,driving the transformation and upgrading of the beef cattle industry.Emphasizing"germplasm source security",Binzhou has capitalized on the unique advantages of Bohai Black Cattle to achieve doubling in quantity,quality,and profitability of high-grade beef cattle breeds.This initiative supports ecological conservation and high-quality development in the Yellow River Basin.A Qilu Model will be established for national modern animal husbandry,further strengthening Shandong's first beef market.展开更多
Methane contributes to global warming,and livestock is one of the sources of methane production.However,methane emission studies using bibliometric tools in livestock are lacking.Given the negative impact of climate c...Methane contributes to global warming,and livestock is one of the sources of methane production.However,methane emission studies using bibliometric tools in livestock are lacking.Given the negative impact of climate change on the ecosystem and the rise in methane emissions,it is essential to conduct a bibliometrics study to provide an overview and research trends.We used the Bibliometrix package and VOSviewer to decipher bibliometric indices for methane emissions in cattle farms(MECF).Current dataset were collected from the Web of Science(Core Collection)database,and 8,998 publications were analyzed.The most co-occurring keywords scientists preferred were methane(1,528),greenhouse gas(443),methane emissions(440),and cattle(369).Methane was the most frequently used keyword in the published scientific literature.Thematic evolution of research themes and trend results highlighted carbon dioxide,methane,dairy cattle,cattle,and risk factors during 1999–2017.Chinese Academy of Sciences ranked on top with 485 publications,followed by Agriculture&Agri-Food Canada,University of Colorado,National Oceanic and Atmospheric Administration,and Aarhus University.Chinese Academy of Sciences was also the most cited organization,followed by the University of Colorado,Agriculture&Agri-Food Canada,National Oceanic and Atmospheric Administration,and United States Geological Survey.Source analysis showed that the Science of the Total Environment was cited with the highest total link strength.Science of the Total Environment ranked first in source core 1 with 290 citation frequencies,followed by Journal of Dairy Science with 223 citation frequencies.Currently,no bibliometric study has been conducted on MECF,and to fill this knowledge gap,we carried out this study to highlight methane emissions in cattle farms,aiming at a climate change perspective.In this regard,we focused on the research productivity of countries authors,journals and institutions,co-occurrence of keywords,evolution of research trends,and collaborative networking.Based on relevance degree of centrality,methane emissions and greenhouse gases appeared as basic themes,cattle,and dairy cattle appeared as emerging/declining themes,whereas,methane,greenhouse gas and nitrous oxide appeared to fall amongst basic and motor themes.On the other hand,beef cattle,rumen and dairy cow seem to be between motor and niche themes,and risk factors lie in niche themes.The present bibliometric analysis provides research progress on methane emissions in cattle farms.Current findings may provide a framework for understanding research trends and themes in MECF research.展开更多
Background India harbors the world’s largest cattle population,encompassing over 50 distinct Bos indicus breeds.This rich genetic diversity underscores the inadequacy of a single reference genome to fully capture the...Background India harbors the world’s largest cattle population,encompassing over 50 distinct Bos indicus breeds.This rich genetic diversity underscores the inadequacy of a single reference genome to fully capture the genomic landscape of Indian cattle.To comprehensively characterize the genomic variation within Bos indicus and,specifically,dairy breeds,we aim to identify non-reference sequences and construct a comprehensive pangenome.Results Five representative genomes of prominent dairy breeds,including Gir,Kankrej,Tharparkar,Sahiwal,and Red Sindhi,were sequenced using 10X Genomics‘linked-read’technology.Assemblies generated from these linked-reads ranged from 2.70 Gb to 2.77 Gb,comparable to the Bos indicus Brahman reference genome.A pangenome of Bos indicus cattle was constructed by comparing the newly assembled genomes with the reference using alignment and graph-based methods,revealing 8 Mb and 17.7 Mb of novel sequence respectively.A confident set of 6,844 Non-reference Unique Insertions(NUIs)spanning 7.57 Mb was identified through both methods,representing the pange-nome of Indian Bos indicus breeds.Comparative analysis with previously published pangenomes unveiled 2.8 Mb(37%)commonality with the Chinese indicine pangenome and only 1%commonality with the Bos taurus pange-nome.Among these,2,312 NUIs encompassing~2 Mb,were commonly found in 98 samples of the 5 breeds and des-ignated as Bos indicus Common Insertions(BICIs)in the population.Furthermore,926 BICIs were identified within 682 protein-coding genes,54 long non-coding RNAs(lncRNA),and 18 pseudogenes.These protein-coding genes were enriched for functions such as chemical synaptic transmission,cell junction organization,cell-cell adhesion,and cell morphogenesis.The protein-coding genes were found in various prominent quantitative trait locus(QTL)regions,suggesting potential roles of BICIs in traits related to milk production,reproduction,exterior,health,meat,and carcass.Notably,63.21%of the bases within the BICIs call set contained interspersed repeats,predominantly Long Inter-spersed Nuclear Elements(LINEs).Additionally,70.28%of BICIs are shared with other domesticated and wild species,highlighting their evolutionary significance.Conclusions This is the first report unveiling a robust set of NUIs defining the pangenome of Bos indicus breeds of India.The analyses contribute valuable insights into the genomic landscape of desi cattle breeds.展开更多
Background MicroRNAs(miRNAs)are presented in the uterine lumen of many mammals,and in vitro experiments have determined that several miRNAs are important for the regulation of endometrial and trophoblast functions.Our...Background MicroRNAs(miRNAs)are presented in the uterine lumen of many mammals,and in vitro experiments have determined that several miRNAs are important for the regulation of endometrial and trophoblast functions.Our aim was to identify and contrast the miRNAs present in extracellular vesicles(EVs)in the uterine lumen fluid(ULF)at the onset of attachment in cattle pregnancies(gestation d 18)initiated by artificial insemination(AI)or by the trans-fer of an in vitro-produced blastocyst(IVP-ET).A third group had no conceptus after the transfer of an IVP embryo.Results The abundance of 263 annotated miRNAs was quantified in the EVs collected from ULF.There was an increase in the transcript abundance of 20 miRNAs in the ULF EVs from the AI pregnant group,while 4 miRNAs had a lower abundance relative to the group not containing a conceptus.Additionally,4 miRNAs were more abun-dant in ULF EVs in the AI pregnant group relative to IVP-ET group(bta-mir-17,bta-mir-7-3,MIR7-1,MIR18A).Specific miRNAs in the ULF EVs were co-expressed with messenger RNAs expressed in extra-embryonic tissues and endome-trium,including genes that are known to be their targets.Conclusions The results provide biological insights into the participation of miRNAs in the regulation of trophoblast proliferation and differentiation,as well as in endometrium receptivity.The knowledge that in vitro cultured embryos can contribute to the altered abundance of specific miRNAs in the uterine lumen can lead to the development of cor-rective approaches to reduce conceptus losses during the first month of pregnancy in cattle.展开更多
Cattle carcass traits are economically important in the beef industry.In the present study,we identified 184 significant genes and 822 alternative genes for 7 carcass traits using genome-wide association studies(GWAS)...Cattle carcass traits are economically important in the beef industry.In the present study,we identified 184 significant genes and 822 alternative genes for 7 carcass traits using genome-wide association studies(GWAS)in 1,566 Huaxi beef cattle.We then identified 5,860 unique cis-genes and 734 trans-genes in 227 longissimus dorsi muscle(LDM)samples to better understand the genetic regulation of gene expression.Our integration study of the GWAS and cis-eQTL analysis detected 13 variants regulating 12 identical genes,in which one variant was also detected in fine-mapping analysis.Moreover,using a transcriptome-wide association study(TWAS),we identified 4 genes(TTC30B,HMGA1,PRKD3 and FXN)that were significantly related to carcass chest depth(CCD),carcass length(CL),carcass weight(CW)and dressing percentage(DP).This study identified variants and genes that may be useful for understanding the molecular mechanism of carcass traits in beef cattle.展开更多
Coat color polymorphism in domestic animals provides a robust framework for elucidating mechanisms of species adaptation,domestication,and genomic diversity.Leiqiong cattle,a representative indicine breed from souther...Coat color polymorphism in domestic animals provides a robust framework for elucidating mechanisms of species adaptation,domestication,and genomic diversity.Leiqiong cattle,a representative indicine breed from southern China,are predominantly yellow-coated,although a subset exhibits a solid black phenotype.To determine the genetic basis of this variation,a genome-wide association study(GWAS)was performed in 212 Leiqiong bulls.A pronounced association signal was detected on chromosome 6 within the fifth intron of the CORIN gene,providing the first evidence of the potential influence of CORIN on bovine coat color variation.Integration of these results with publicly available genomic datasets and haplotype analyses indicated that the yellow coat phenotype is derived from Indian indicine ancestry,whereas the black coat phenotype emerged through introgression from wild bovine lineages and artificial hybridization with Wagyu cattle.Comparative analysis of Indian indicine cattle with divergent coat colors revealed distinct LEF1 haplotypes within a shared CORIN background,suggesting an ancient and complex domestication history underlying coat color variation.These findings provide direct evidence that introgression has shaped phenotypic variation in East Asian cattle and offer novel insights into the genetic architecture of pigmentation,with implications for future breeding strategies.展开更多
Background In this study,the effects of L-leucine(Leu)on rumen fermentation parameters,rumen epithelium development,amino acid composition,rumen bacterial communities and rumen metabolites in beef cattle were investig...Background In this study,the effects of L-leucine(Leu)on rumen fermentation parameters,rumen epithelium development,amino acid composition,rumen bacterial communities and rumen metabolites in beef cattle were investigated.Twenty-four fattening Angus females of similar initial weight(575.5±22.1 kg)were randomly assigned to 2 treatments with 4 replicate pens(3 cattle per pen).They were fed either a basal diet or a basal diet supplemented with 6.0 g L-Leu/100 kg BW/d for 120 d.Results(1)Leu increased the ruminal concentrations of total volatile fatty acid(VFA)(P=0.017),propionate(P=0.023),isovalerate(P=0.001),and branched-chain volatile fatty acid(BCVFA)(P=0.01)at 4 h post-feeding.It also tended to increase acetate(P=0.083)and decrease the ammonia-N(NH_3-N)concentration(P=0.055),but it did not affect ruminal pH(P>0.1).Leu also increased microbial crude protein(MCP)(P=0.026)at 4 h post-feeding,but decreased MCP at 8 h post-feeding(P=0.010).(2)Supplementation with L-Leu increased the ruminal concentrations of phenylalanine(P=0.011),lysine(P=0.034),and tyrosine(P=0.033),while decreasing the cystine concentration(P=0.010).(3)Leu increased the thickness of the stratum spinosum and basal(P<0.05),while decreasing the thickness of the stratum granulosum(P<0.05).(4)Leu upregulated the relative mRNA abundance of genes involved in tight junction proteins(P<0.05)and VFA absorption and metabolism(P<0.01)in the rumen epithelium.This upregulation was positively correlated with the concentrations ruminal isovalerate and BCVFA(P<0.01).(5)L-Leu did not affect the diversity and richness of ruminal microbes(P>0.05),but differential bacterial biomarkers(LEfSe,LDA>2)were either positively or negatively correlated with ruminal MCP,NH_3-N,and BCVFA concentrations(P<0.001).Additionally,differential bacterial metabolites(OPLS-DA,VIP>1.5)were primarily enriched in the amino acid metabolism pathway and the cofactors and vitamins metabolism pathway(P<0.05).Conclusions Dietary supplementation with L-Leu altered rumen fermentation parameters and patterns,improved rumen epithelial morphology,and enhanced the expression of genes related to VFA absorption and metabolism in the rumen epithelium of beef cattle.展开更多
Dairy cattle slurry is a source of nitrogen(N)that can substitute for synthetic fertilizers.This study aimed to identify combinations of synthetic fertilizers and slurry optimal for maize growth and N dynamics in Nort...Dairy cattle slurry is a source of nitrogen(N)that can substitute for synthetic fertilizers.This study aimed to identify combinations of synthetic fertilizers and slurry optimal for maize growth and N dynamics in Northeast China.In a two-year field experiment testing synthetic-to-slurry N fertilization ratios,slurry application increased grain yield and yield components,net economic benefit,and N use efficiency relative to synthetic fertilization but led to higher nitrous oxide and ammonia emissions.A 1:1-1:3 synthetic N:slurry N ratio and slurry application at 60-90 t ha^(-1)balanced productivity with N losses.展开更多
This study examines the socio-economic profile of livestock farmers in coastal Côte d’Ivoire. A total of 43 people were interviewed using well-structured questionnaires. The collected data were analyzed using de...This study examines the socio-economic profile of livestock farmers in coastal Côte d’Ivoire. A total of 43 people were interviewed using well-structured questionnaires. The collected data were analyzed using descriptive methods. The results showed that local Lagoon breeders are divided into two zones: southwest and southeast. Breeders in the south-western region are generally located in two sub-prefectures of the Tabou Department (Grabo and Oulodio). Tabou’s department alone accounts for 42% of the Lagoon breed in Côte d’Ivoire. Agriculture in this area is traditionally sedentary, practiced for social reasons. On the other hand, the south-eastern zone, located in the departments of Aboisso, Adzopé, Agboville, Grand-Lahou, Jacqueville, Abidjan, Dabou and Sikensi, represents 58% of the Lagoon breeding area in Côte d’Ivoire. This second group is characterised by improved breeding. Most of the farmers interviewed in this zone breed for economic reasons. However, the risk of cross-breeding, which already affects the local Lagoon breed, could be increased by the presence of other species such as the Zebu and Ndamas, or even the Baoulé, in this south-eastern herd.展开更多
Somatic cell nuclear transfer(SCNT)has been successfully employed across various mammalian species,yet cloned animals consistently exhibit low pregnancy rates,primarily due to placental abnormalities such as hyperplas...Somatic cell nuclear transfer(SCNT)has been successfully employed across various mammalian species,yet cloned animals consistently exhibit low pregnancy rates,primarily due to placental abnormalities such as hyperplasia and hypertrophy.This study investigated the involvement of the Hippo signaling pathway in aberrant placentaldevelopmentinSCNT-inducedbovine pregnancies.SCNT-derived cattle exhibited placental hypertrophy,including enlarged abdominal circumference and altered placental cotyledon morphology.RNA sequencing analysis indicated significant dysregulation of Hippo signaling pathway genes in SCNT placentas.Coexpression of YAP1 and CCND1 was observed in cloned blastocysts,placental tissues,and bovine placental mesenchymal stem cells(bPMSCs).Manipulation of YAP1expression demonstrated the capacity to regulate bPMSC proliferation.Experimental assays confirmed the direct binding of YAP1 to CCND1,which subsequently promoted CCND1 expression in bPMSCs.Furthermore,inhibition of CDK6,a downstream target of CCND1,attenuated SCNT bPMSC proliferation.This study identified YAP1 as a key regulatory component within the Hippo signaling pathway that drives placental hyperplasia in cloned cattle through up-regulation of CCND1-CDK6 expression,facilitating cell cycle progression.These findings offer potential avenues for enhancing cloning efficiency,with implications for evolutionary biology and the conservation of valuable germplasm resources.展开更多
[Objective]The paper was to improve the quality and growth rate of native yellow cattle in Wenzhou.[Method]Three groups of cattle were subjected to artificial insemination using frozen semen from Wagyu bull.The groups...[Objective]The paper was to improve the quality and growth rate of native yellow cattle in Wenzhou.[Method]Three groups of cattle were subjected to artificial insemination using frozen semen from Wagyu bull.The groups consisted of 20 native yellow cattle,20 Angus catle,and 20 Luxi yellow cattle.The heifers were subsequently evaluated for body size and body weight,and underwent treatment with estrus synchronization,artificial insemination,and early pregnancy diagnosis.[Result]The mean body size and body weight of native yellow cattle were found to be significantly lower than those of Angus cattle and Luxi yellow cattle(P<0.05).The estrus synchronization rate and mating rate of native yellow cattle were both 100%,while the corresponding rates for Angus cattle and Luxi yellow cattle were 90%and 95%,respectively.The ultrasound examination conducted on the 32m day following the mating revealed a distinct image of gestation sac,which,when considered alongside the findings of the rectal examination,may be indicative of pregnancy.The conception rates were 75%,72%,and 74%for native yllow cattle,Angus cattle,and Luxi yellow cattle,respectively.[Conclusion]The reproductive performance of native beef cattle is relatively superior.展开更多
Agriculture is one of the priority sectors in Timor-Leste. Introducing new agriculture technology is crucial to enhance agricultural production. Practicing cattle fattening can increase beef cattle body weight and gen...Agriculture is one of the priority sectors in Timor-Leste. Introducing new agriculture technology is crucial to enhance agricultural production. Practicing cattle fattening can increase beef cattle body weight and generate income to the beef cattle farmers. As farmers face problems including agricultural production decline, lack of forages and information and weather unfavourable. The study’s purpose was to examine the impact of adoption of cattle fattening technology on farmer households in Atabae administrative post, Bobonaro municipality in Timor-Leste. There were 200 beef cattle farmers households where randomly selected in four villages in Atabae. It consisted of 65 farmers practicing cattle fattening and 135 farmers non-practicing cattle fattening. Face to face interviews used structured questionnaire. Statistical analysis such as t-test and descriptive analysis were used to examine impact adoption of cattle fattening technology by farmers and factor constraints of cattle production and the solutions of it. The results indicated the average value of cattle and profit were significant different from zero and it is associated with practicing of cattle fattening. The average of labour used on cattle activities, the average of cattle sold, and total cost spent on cattle were not significant different from zero. The percentage of farmers said that factors constraints cattle production were shortage of water and forage (53%) and spend time on culture ceremony and lack of capital (33%). The number of farmers said that they collected water from river, feed cattle with sago and forage (55.3%) and cultivated forage (23.4%). This finding contributes information to the farmers, traders, and Timorese government to continue implementing cattle fattening activities as it enhances farmers’ income and developing cattle production.展开更多
Understanding the genetic and metabolic elements that impact meat quality is crucial to improving production and meeting consumer demands in the beef sector.Differences in meat quality among various muscle areas in be...Understanding the genetic and metabolic elements that impact meat quality is crucial to improving production and meeting consumer demands in the beef sector.Differences in meat quality among various muscle areas in beef cattle can impact pricing in the market.Despite progress in genomics,the specific genes and metabolites that affect meat quality characteristics in Qinchuan cattle remain inadequately understood.Therefore,this study aims to evaluate the meat quality characteristics of four specific muscle locations(tenderloin,striploin,high rib,and ribeye muscles)in Qinchuan bulls,including 10 traits(total protein content(TPC),intramuscular fat(IMF),non-esterified fatty acid(NEFA),meat color(L*,a*,and b*),shear force(SF),cooking loss(CL),pH0,and pH24).This experiment uses transcriptome,metabolome sequencing,and sophisticated analytical methodologies such as weighted gene co-expression network analysis(WGCNA)and protein–protein interaction networks(PPI)to identify the key genes and metabolites associated with specific traits.The findings highlight three notable genes(NDUFAB1,NDUFA12,and NDUFB7)linked to intramuscular fat(IMF),three key genes(CSRP3,ACAA3,and ACADVL)correlated with non-esterified fatty acids(NEFA),and one crucial gene(CREBBP)influencing meat color.In conclusion,this investigation offers a new perspective on the differences in bovine muscle locations and contributes to the molecular understanding of bovine meat quality.Future research endeavors could delve deeper into the identified genes and pathways to enhance beef cattle’s quality and yield.展开更多
Background Genome editing has been considered as powerful tool in agricultural fields.However,genome editing progress in cattle has not been fast as in other mammal species,for some disadvantages including long gestat...Background Genome editing has been considered as powerful tool in agricultural fields.However,genome editing progress in cattle has not been fast as in other mammal species,for some disadvantages including long gestational periods,single pregnancy,and high raising cost.Furthermore,technically demanding methods such as microinjection and somatic cell nuclear transfer(SCNT)are needed for gene editing in cattle.In this point of view,electroporation in embryos has been risen as an alternative.Results First,editing efficiency of our electroporation methods were tested for embryos.Presence of mutation on embryo was confirmed by T7E1 assay.With first combination,mutation rates for MSTN and PRNP were 57.6%±13.7%and 54.6%±13.5%,respectively.In case of MSTN/BLG,mutation rates were 83.9%±23.6%for MSTN,84.5%±18.0%for BLG.Afterwards,the double-KO embryos were transferred to surrogates and mutation rate was identified in resultant calves by targeted deep sequencing.Thirteen recipients were transferred for MSTN/PRNP,4 calves were delivered,and one calf underwent an induction for double KO.Ten surrogates were given double-KO embryos for MSTN/BLG,and four of the six calves that were born had mutations in both genes.Conclusions These data demonstrated that production of genome edited cattle via electroporation of RNP could be effectively applied.Finally,MSTN and PRNP from beef cattle and MSTN and BLG from dairy cattle have been born and they will be valuable resources for future precision breeding.展开更多
Accurate and continuous identification of individual cattle is crucial to precision farming in recent years.It is also the prerequisite to monitor the individual feed intake and feeding time of beef cattle at medium t...Accurate and continuous identification of individual cattle is crucial to precision farming in recent years.It is also the prerequisite to monitor the individual feed intake and feeding time of beef cattle at medium to long distances over different cameras.However,beef cattle can tend to frequently move and change their feeding position during feeding.Furthermore,the great variations in their head direction and complex environments(light,occlusion,and background)can also lead to some difficulties in the recognition,particularly for the bio-similarities among individual cattle.Among them,AlignedReID++model is characterized by both global and local information for image matching.In particular,the dynamically matching local information(DMLI)algorithm has been introduced into the local branch to automatically align the horizontal local information.In this research,the AlignedReID++model was utilized and improved to achieve the better performance in cattle re-identification(ReID).Initially,triplet attention(TA)modules were integrated into the BottleNecks of ResNet50 Backbone.The feature extraction was then enhanced through cross-dimensional interactions with the minimal computational overhead.Since the TA modules in AlignedReID++baseline model increased the model size and floating point operations(FLOPs)by 0.005 M and 0.05 G,the rank-1 accuracy and mean average precision(mAP)were improved by 1.0 percentage points and 2.94 percentage points,respectively.Specifically,the rank-1 accuracies were outperformed by 0.86 percentage points and 0.12 percentage points,respectively,compared with the convolution block attention module(CBAM)and efficient channel attention(ECA)modules,although 0.94 percentage points were lower than that of squeeze-and-excitation(SE)modules.The mAP metric values were exceeded by 0.22,0.86 and 0.12 percentage points,respectively,compared with the SE,CBAM,and ECA modules.Additionally,the Cross-Entropy Loss function was replaced with the CosFace Loss function in the global branch of baseline model.CosFace Loss and Hard Triplet Loss were jointly employed to train the baseline model for the better identification on the similar individuals.AlignedReID++with CosFace Loss was outperformed the baseline model by 0.24 and 0.92 percentage points in the rank-1 accuracy and mAP,respectively,whereas,AlignedReID++with ArcFace Loss was exceeded by 0.36 and 0.56 percentage points,respectively.The improved model with the TA modules and CosFace Loss was achieved in a rank-1 accuracy of 94.42%,rank-5 accuracy of 98.78%,rank-10 accuracy of 99.34%,mAP of 63.90%,FLOPs of 5.45 G,frames per second(FPS)of 5.64,and model size of 23.78 M.The rank-1 accuracies were exceeded by 1.84,4.72,0.76 and 5.36 percentage points,respectively,compared with the baseline model,part-based convolutional baseline(PCB),multiple granularity network(MGN),and relation-aware global attention(RGA),while the mAP metrics were surpassed 6.42,5.86,4.30 and 7.38 percentage points,respectively.Meanwhile,the rank-1 accuracy was 0.98 percentage points lower than TransReID,but the mAP metric was exceeded by 3.90 percentage points.Moreover,the FLOPs of improved model were only 0.05 G larger than that of baseline model,while smaller than those of PCB,MGN,RGA,and TransReID by 0.68,6.51,25.4,and 16.55 G,respectively.The model size of improved model was 23.78 M,which was smaller than those of the baseline model,PCB,MGN,RGA,and TransReID by 0.03,2.33,45.06,14.53 and 62.85 M,respectively.The inference speed of improved model on a CPU was lower than those of PCB,MGN,and baseline model,but higher than TransReID and RGA.The t-SNE feature embedding visualization demonstrated that the global and local features were achieve in the better intra-class compactness and inter-class variability.Therefore,the improved model can be expected to effectively re-identify the beef cattle in natural environments of breeding farm,in order to monitor the individual feed intake and feeding time.展开更多
Background Biologically annotated neural networks(BANNs)are feedforward Bayesian neural network models that utilize partially connected architectures based on SN P-set annotations.As an interpretable neural network,BA...Background Biologically annotated neural networks(BANNs)are feedforward Bayesian neural network models that utilize partially connected architectures based on SN P-set annotations.As an interpretable neural network,BANNs model SNP and SNP-set effects in their input and hidden layers,respectively.Furthermore,the weights and connections of the network are regarded as random variables with prior distributions reflecting the manifestation of genetic effects at various genomic scales.However,its application in genomic prediction has yet to be explored.Results This study extended the BANNs framework to the area of genomic selection and explored the optimal SN P-set partitioning strategies by using dairy cattle datasets.The SN P-sets were partitioned based on two strategiesgene annotations and 100 kb windows,denoted as BANN_gene and BANN_100kb,respectively.The BANNs model was compared with GBLU P,random forest(RF),BayesB and BayesCπthrough five replicates of five-fold cross-validation using genotypic and phenotypic data on milk production traits,type traits,and one health trait of 6,558,6,210and 5,962 Chinese Holsteins,respectively.Results showed that the BANNs framework achieves higher genomic prediction accuracy compared to GBLU P,RF and Bayesian methods.Specifically,the BANN_100kb demonstrated superior accuracy and the BANN_gene exhibited generally suboptimal accuracy compared to GBLUP,RF,BayesB and BayesCrr across all traits.The average accuracy improvements of BANN_100kb over GBLU P,RF,BayesB and BayesCrr were 4.86%,3.95%,3.84%and 1.92%,and the accuracy of BANN_gene was improved by3.75%,2.86%,2.73%and 0.85%compared to GBLUP,RF,BayesB and BayesCπ,respectively across all seven traits.Meanwhile,both BANN_100kb and BANN_gene yielded lower overall mean square error values than GBLUP,RF and Bayesian methods.Conclusion Our findings demonstrated that the BANNs framework performed better than traditional genomic prediction methods in our tested scenarios,and might serve as a promising alternative approach for genomic prediction in dairy cattle.展开更多
Background Stocker cattle diet and management influence beef cattle performance during the finishing stage,but knowledge of the dynamics of the rumen microbiome associated with the host are lacking.A longitudinal stud...Background Stocker cattle diet and management influence beef cattle performance during the finishing stage,but knowledge of the dynamics of the rumen microbiome associated with the host are lacking.A longitudinal study was conducted to determine how the feeding strategy from the stocker to the finishing stages of production affects the temporal dynamics of rumen microbiota.During the stocker phase,either dry hay or wheat pasture were provided,and three levels of monensin were administrated.All calves were then transported to a feedlot and received similar finishing diets with or without monensin.Rumen microbial samples were collected on d 0,28,85 during the stocker stage(S0,S28 and S85)and d 0,14,28,56,30 d before slaughter and the end of the trial during the finishing stage(F0,F14,F28,F56,Pre-Ba,and Final).The V4 region of the bacterial 16S rRNA gene of 263 rumen samples was sequenced.Results Higher alpha diversity,including the number of observed bacterial features and the Shannon index,was observed in the stocker phase compared to the finishing phase.The bacterial amplicon sequence variants(ASVs)differentiating different sampling time points were identified.Dietary treatments during the stocker stage temporally impact the dynamics of rumen microbiota.For example,shared bacteria,including Bacteroidales(ASV19)and Streptococcus infantarius(ASV94),were significantly higher in hay rumen on S28,S85,and F0,while Bacteroidaceae(ASV11)and Limivicinus(ASV15)were more abundant in wheat.Monensin affected rumen microbial composition at a specific time.Transportation to feedlot significantly influenced microbiome structure and diversity in hay-fed calves.Bacterial taxa associated with body weight were classified,and core microbiotas interacted with each other during the trial.Conclusions In summary,the temporal dynamics of the rumen microbiome in cattle at the stocker and finishing stage are influenced by multiple factors of the feeding strategy.Diet at the stocker phase may temporarily affect the microbial composition during this stage.Modulating the rumen microbiome in the steers at the stocker stage affects the microbial interactions and performance in the finishing stage.展开更多
Background Many phenotypes in animal breeding are derived from incomplete measures,especially if they are challenging or expensive to measure precisely.Examples include time-dependent traits such as reproductive statu...Background Many phenotypes in animal breeding are derived from incomplete measures,especially if they are challenging or expensive to measure precisely.Examples include time-dependent traits such as reproductive status,or lifespan.Incomplete measures for these traits result in phenotypes that are subject to left-,interval-and rightcensoring,where phenotypes are only known to fall below an upper bound,between a lower and upper bound,or above a lower bound respectively.Here we compare three methods for deriving phenotypes from incomplete data using age at first elevation(>1 ng/mL)in blood plasma progesterone(AGEP4),which generally coincides with onset of puberty,as an example trait.Methods We produced AGEP4 phenotypes from three blood samples collected at about 30-day intervals from approximately 5,000 Holstein–Friesian or Holstein–Friesian×Jersey cross-bred dairy heifers managed in 54 seasonal-calving,pasture-based herds in New Zealand.We used these actual data to simulate 7 different visit scenarios,increasing the extent of censoring by disregarding data from one or two of the three visits.Three methods for deriving phenotypes from these data were explored:1)ordinal categorical variables which were analysed using categorical threshold analysis;2)continuous variables,with a penalty of 31 d assigned to right-censored phenotypes;and 3)continuous variables,sampled from within a lower and upper bound using a data augmentation approach.Results Credibility intervals for heritability estimations overlapped across all methods and visit scenarios,but estimated heritabilities tended to be higher when left censoring was reduced.For sires with at least 5 daughters,the correlations between estimated breeding values(EBVs)from our three-visit scenario and each reduced data scenario varied by method,ranging from 0.65 to 0.95.The estimated breed effects also varied by method,but breed differences were smaller as phenotype censoring increased.Conclusion Our results indicate that using some methods,phenotypes derived from one observation per offspring for a time-dependent trait such as AGEP4 may provide comparable sire rankings to three observations per offspring.This has implications for the design of large-scale phenotyping initiatives where animal breeders aim to estimate variance parameters and estimated breeding values(EBVs)for phenotypes that are challenging to measure or prohibitively expensive.展开更多
Background and Objective: Tick-borne hemoparasitic illnesses pose a serious threat to the well-being and productivity of cattle. This study aimed to investigate the prevalence of tick-borne hemoparasites in Cameroon, ...Background and Objective: Tick-borne hemoparasitic illnesses pose a serious threat to the well-being and productivity of cattle. This study aimed to investigate the prevalence of tick-borne hemoparasites in Cameroon, with a specific focus on the Noun and Nde Divisions of the West Region. Methodology: A total of 423 cattle from 10 villages in both divisions were included in the study. Blood smears were prepared and subjected to microscopic screening for Babesia and Anaplasma parasites. Results: The prevalence of Anaplasma was found to be 23.4%, while Babesia exhibited a seroprevalence of 17.3%. Samples from Institute of Agricultural Research for Development (IRAD) and Koupa Ngangnou demonstrated significantly higher prevalence rates, potentially influenced by climate variations affecting tick populations. Additionally, 17.3% of the animals exhibited low hematocrit levels, indicative of anemia. No significant associations were observed between the presence of hemoparasite infection and cattle characteristics. Conclusion: This study provides fundamental data on the extensive distribution and impact of tick-borne hemoparasites in a significant cattle-producing region of Cameroon.展开更多
基金supported by the National Key R&D Program of China(2022YFF1000100)China Postdoctoral Science Foundation(2022M722615)。
文摘Local cattle breeds play a critical role in breeding programs due to their genetic adaptations to diverse environmental conditions.However,the genomic architecture of local cattle breeds in Kazakhstan remains largely unexplored.This study utilized whole-genome sequencing data from Kazakh cattle to elucidate their genetic composition,uncovering three primary ancestral components:European,Eurasian,and East Asian taurine.The East Asian taurine lineage likely represents the earliest genetic contribution to Kazakh cattle but was largely replaced by subsequent waves of cattle migrations across Eurasia,leaving only a minor genetic signature in the current cattle population.In contrast,Eurasian taurine ancestry predominated in the Alatau and Kazakh local breeds,while the European taurine component was most prevalent in Kazakh white-headed cattle,consistent with their documented breeding history.Kazakh cattle exhibited higher genetic diversity and lower inbreeding coefficients compared to European commercial breeds,reflecting reduced exposure to intense artificial selection.A strong selection signal was identified on chromosome 6 at a locus encompassing PDGFRA,KIT,and KDR,which may be associated with the white-headed pigmentation characteristic of Kazakh white-headed cattle.Additional genes under selection were linked to lipid metabolism(IRS1,PRKG1,and ADCY8),meat production traits(KCNMA1,PDGFRA,HIF1A,and ANTXR1),and dairy production(ATP2B1,DHX15,FUK,NEGR1,CCDC91,COG4,and PTK2B).This study represents the first comprehensive analysis of nuclear genome data from local Kazakh cattle.It highlights the impact of historical cattle migrations across Eurasia on their genetic landscape and identifies key genomic regions under selection.These findings advance our understanding of the evolutionary history of cattle and offer valuable genetic resources for future breeding strategies.
基金Supported by Binzhou Comprehensive Experimental Station Project of Pasture Industry Technology System in Shandong Province(SDAIT-23-10).
文摘Facing the severe decline in beef cattle market prices and leveraging its status as a major cattle-raising city,Binzhou City has actively utilized the superior genetic resources of Bohai Black Cattle.The city has progressively transitioned from small-scale cattle farming to specialized and large-scale breeding communities by collaborating with experts from national and provincial industrial technology systems including the Chinese Academy of Agricultural Sciences,Shandong Academy of Agricultural Sciences,and Shandong Agricultural University.The breeding focus has shifted from Simmental crossbred cattle to purebred Bohai Black Cattle,hybrid cattle,Angus Cattle,and Hereford Cattle,driving the transformation and upgrading of the beef cattle industry.Emphasizing"germplasm source security",Binzhou has capitalized on the unique advantages of Bohai Black Cattle to achieve doubling in quantity,quality,and profitability of high-grade beef cattle breeds.This initiative supports ecological conservation and high-quality development in the Yellow River Basin.A Qilu Model will be established for national modern animal husbandry,further strengthening Shandong's first beef market.
基金supported by the Special Fund for Science and Technology Innovation Strategy of Guangdong Province,China(2022660500250009604)。
文摘Methane contributes to global warming,and livestock is one of the sources of methane production.However,methane emission studies using bibliometric tools in livestock are lacking.Given the negative impact of climate change on the ecosystem and the rise in methane emissions,it is essential to conduct a bibliometrics study to provide an overview and research trends.We used the Bibliometrix package and VOSviewer to decipher bibliometric indices for methane emissions in cattle farms(MECF).Current dataset were collected from the Web of Science(Core Collection)database,and 8,998 publications were analyzed.The most co-occurring keywords scientists preferred were methane(1,528),greenhouse gas(443),methane emissions(440),and cattle(369).Methane was the most frequently used keyword in the published scientific literature.Thematic evolution of research themes and trend results highlighted carbon dioxide,methane,dairy cattle,cattle,and risk factors during 1999–2017.Chinese Academy of Sciences ranked on top with 485 publications,followed by Agriculture&Agri-Food Canada,University of Colorado,National Oceanic and Atmospheric Administration,and Aarhus University.Chinese Academy of Sciences was also the most cited organization,followed by the University of Colorado,Agriculture&Agri-Food Canada,National Oceanic and Atmospheric Administration,and United States Geological Survey.Source analysis showed that the Science of the Total Environment was cited with the highest total link strength.Science of the Total Environment ranked first in source core 1 with 290 citation frequencies,followed by Journal of Dairy Science with 223 citation frequencies.Currently,no bibliometric study has been conducted on MECF,and to fill this knowledge gap,we carried out this study to highlight methane emissions in cattle farms,aiming at a climate change perspective.In this regard,we focused on the research productivity of countries authors,journals and institutions,co-occurrence of keywords,evolution of research trends,and collaborative networking.Based on relevance degree of centrality,methane emissions and greenhouse gases appeared as basic themes,cattle,and dairy cattle appeared as emerging/declining themes,whereas,methane,greenhouse gas and nitrous oxide appeared to fall amongst basic and motor themes.On the other hand,beef cattle,rumen and dairy cow seem to be between motor and niche themes,and risk factors lie in niche themes.The present bibliometric analysis provides research progress on methane emissions in cattle farms.Current findings may provide a framework for understanding research trends and themes in MECF research.
基金the project “Genomics for Conservation of Indigenous Cattle Breeds and for Enhancing Milk Yield, Phase-I” [BT/ PR26466/AAQ/1/704/2017], funded by the Department of Biotechnology (DBT ), Indiathe project “Identification of key molecular factors involved in resistance/susceptibility to paratuberculosis infection in indigenous breeds of cows” [BT/PR32758/AAQ/1/760/2019], which was also funded by Department of Biotechnology (DBT ), India。
文摘Background India harbors the world’s largest cattle population,encompassing over 50 distinct Bos indicus breeds.This rich genetic diversity underscores the inadequacy of a single reference genome to fully capture the genomic landscape of Indian cattle.To comprehensively characterize the genomic variation within Bos indicus and,specifically,dairy breeds,we aim to identify non-reference sequences and construct a comprehensive pangenome.Results Five representative genomes of prominent dairy breeds,including Gir,Kankrej,Tharparkar,Sahiwal,and Red Sindhi,were sequenced using 10X Genomics‘linked-read’technology.Assemblies generated from these linked-reads ranged from 2.70 Gb to 2.77 Gb,comparable to the Bos indicus Brahman reference genome.A pangenome of Bos indicus cattle was constructed by comparing the newly assembled genomes with the reference using alignment and graph-based methods,revealing 8 Mb and 17.7 Mb of novel sequence respectively.A confident set of 6,844 Non-reference Unique Insertions(NUIs)spanning 7.57 Mb was identified through both methods,representing the pange-nome of Indian Bos indicus breeds.Comparative analysis with previously published pangenomes unveiled 2.8 Mb(37%)commonality with the Chinese indicine pangenome and only 1%commonality with the Bos taurus pange-nome.Among these,2,312 NUIs encompassing~2 Mb,were commonly found in 98 samples of the 5 breeds and des-ignated as Bos indicus Common Insertions(BICIs)in the population.Furthermore,926 BICIs were identified within 682 protein-coding genes,54 long non-coding RNAs(lncRNA),and 18 pseudogenes.These protein-coding genes were enriched for functions such as chemical synaptic transmission,cell junction organization,cell-cell adhesion,and cell morphogenesis.The protein-coding genes were found in various prominent quantitative trait locus(QTL)regions,suggesting potential roles of BICIs in traits related to milk production,reproduction,exterior,health,meat,and carcass.Notably,63.21%of the bases within the BICIs call set contained interspersed repeats,predominantly Long Inter-spersed Nuclear Elements(LINEs).Additionally,70.28%of BICIs are shared with other domesticated and wild species,highlighting their evolutionary significance.Conclusions This is the first report unveiling a robust set of NUIs defining the pangenome of Bos indicus breeds of India.The analyses contribute valuable insights into the genomic landscape of desi cattle breeds.
基金Agriculture and Food Research Initiative Competitive Grant no.2018-67015-31936 from the USDA National Institute of Food and Agriculture.
文摘Background MicroRNAs(miRNAs)are presented in the uterine lumen of many mammals,and in vitro experiments have determined that several miRNAs are important for the regulation of endometrial and trophoblast functions.Our aim was to identify and contrast the miRNAs present in extracellular vesicles(EVs)in the uterine lumen fluid(ULF)at the onset of attachment in cattle pregnancies(gestation d 18)initiated by artificial insemination(AI)or by the trans-fer of an in vitro-produced blastocyst(IVP-ET).A third group had no conceptus after the transfer of an IVP embryo.Results The abundance of 263 annotated miRNAs was quantified in the EVs collected from ULF.There was an increase in the transcript abundance of 20 miRNAs in the ULF EVs from the AI pregnant group,while 4 miRNAs had a lower abundance relative to the group not containing a conceptus.Additionally,4 miRNAs were more abun-dant in ULF EVs in the AI pregnant group relative to IVP-ET group(bta-mir-17,bta-mir-7-3,MIR7-1,MIR18A).Specific miRNAs in the ULF EVs were co-expressed with messenger RNAs expressed in extra-embryonic tissues and endome-trium,including genes that are known to be their targets.Conclusions The results provide biological insights into the participation of miRNAs in the regulation of trophoblast proliferation and differentiation,as well as in endometrium receptivity.The knowledge that in vitro cultured embryos can contribute to the altered abundance of specific miRNAs in the uterine lumen can lead to the development of cor-rective approaches to reduce conceptus losses during the first month of pregnancy in cattle.
基金supported by the National Natural Science Foundation of China(32372833 and 32202652)the Agricultural Science and Technology Innovation Program in the Chinese Academy of Agricultural Sciences(ASTIP-IAS03 and CAASZDRW202102)+1 种基金the Program of National Beef Cattle and Yak Industrial Technology System,China(CARS-37)the Science and Technology Project of Inner Mongolia Autonomus Region,China(2020GG0210)。
文摘Cattle carcass traits are economically important in the beef industry.In the present study,we identified 184 significant genes and 822 alternative genes for 7 carcass traits using genome-wide association studies(GWAS)in 1,566 Huaxi beef cattle.We then identified 5,860 unique cis-genes and 734 trans-genes in 227 longissimus dorsi muscle(LDM)samples to better understand the genetic regulation of gene expression.Our integration study of the GWAS and cis-eQTL analysis detected 13 variants regulating 12 identical genes,in which one variant was also detected in fine-mapping analysis.Moreover,using a transcriptome-wide association study(TWAS),we identified 4 genes(TTC30B,HMGA1,PRKD3 and FXN)that were significantly related to carcass chest depth(CCD),carcass length(CL),carcass weight(CW)and dressing percentage(DP).This study identified variants and genes that may be useful for understanding the molecular mechanism of carcass traits in beef cattle.
基金supported by the National Key R&D Program of China(2022YFF1000100)Shaanxi Innovation Team Project(2022TD-10)+1 种基金Shaanxi Livestock and Poultry Breeding Double-chain Fusion Key Project(2022GD-TSLD-46-0401)Postdoctoral Research Funding of Hainan Province。
文摘Coat color polymorphism in domestic animals provides a robust framework for elucidating mechanisms of species adaptation,domestication,and genomic diversity.Leiqiong cattle,a representative indicine breed from southern China,are predominantly yellow-coated,although a subset exhibits a solid black phenotype.To determine the genetic basis of this variation,a genome-wide association study(GWAS)was performed in 212 Leiqiong bulls.A pronounced association signal was detected on chromosome 6 within the fifth intron of the CORIN gene,providing the first evidence of the potential influence of CORIN on bovine coat color variation.Integration of these results with publicly available genomic datasets and haplotype analyses indicated that the yellow coat phenotype is derived from Indian indicine ancestry,whereas the black coat phenotype emerged through introgression from wild bovine lineages and artificial hybridization with Wagyu cattle.Comparative analysis of Indian indicine cattle with divergent coat colors revealed distinct LEF1 haplotypes within a shared CORIN background,suggesting an ancient and complex domestication history underlying coat color variation.These findings provide direct evidence that introgression has shaped phenotypic variation in East Asian cattle and offer novel insights into the genetic architecture of pigmentation,with implications for future breeding strategies.
基金supported by the National Key R&D Program(Grant No.2022YFD1301101-1)National Natural Science Foundation of China(Grant No.32172758)Key Research and Development Program of Ningxia(Grant No.2024BBF01008)。
文摘Background In this study,the effects of L-leucine(Leu)on rumen fermentation parameters,rumen epithelium development,amino acid composition,rumen bacterial communities and rumen metabolites in beef cattle were investigated.Twenty-four fattening Angus females of similar initial weight(575.5±22.1 kg)were randomly assigned to 2 treatments with 4 replicate pens(3 cattle per pen).They were fed either a basal diet or a basal diet supplemented with 6.0 g L-Leu/100 kg BW/d for 120 d.Results(1)Leu increased the ruminal concentrations of total volatile fatty acid(VFA)(P=0.017),propionate(P=0.023),isovalerate(P=0.001),and branched-chain volatile fatty acid(BCVFA)(P=0.01)at 4 h post-feeding.It also tended to increase acetate(P=0.083)and decrease the ammonia-N(NH_3-N)concentration(P=0.055),but it did not affect ruminal pH(P>0.1).Leu also increased microbial crude protein(MCP)(P=0.026)at 4 h post-feeding,but decreased MCP at 8 h post-feeding(P=0.010).(2)Supplementation with L-Leu increased the ruminal concentrations of phenylalanine(P=0.011),lysine(P=0.034),and tyrosine(P=0.033),while decreasing the cystine concentration(P=0.010).(3)Leu increased the thickness of the stratum spinosum and basal(P<0.05),while decreasing the thickness of the stratum granulosum(P<0.05).(4)Leu upregulated the relative mRNA abundance of genes involved in tight junction proteins(P<0.05)and VFA absorption and metabolism(P<0.01)in the rumen epithelium.This upregulation was positively correlated with the concentrations ruminal isovalerate and BCVFA(P<0.01).(5)L-Leu did not affect the diversity and richness of ruminal microbes(P>0.05),but differential bacterial biomarkers(LEfSe,LDA>2)were either positively or negatively correlated with ruminal MCP,NH_3-N,and BCVFA concentrations(P<0.001).Additionally,differential bacterial metabolites(OPLS-DA,VIP>1.5)were primarily enriched in the amino acid metabolism pathway and the cofactors and vitamins metabolism pathway(P<0.05).Conclusions Dietary supplementation with L-Leu altered rumen fermentation parameters and patterns,improved rumen epithelial morphology,and enhanced the expression of genes related to VFA absorption and metabolism in the rumen epithelium of beef cattle.
基金supported by the Strategic Priority Research Program of the Chinese Academy of Sciences(XDA28100200)the National Key Research and Development Program of China(2022YFD150080202)+1 种基金the Key Laboratory of Low-carbon Green Agriculture in Northeastern China,Ministry of Agriculture and Rural Affairs of the People’s Republic of China(LCGANE12)the Northeast Agricultural University Scholar Project and Academic Backbones Program(20YJXG13)。
文摘Dairy cattle slurry is a source of nitrogen(N)that can substitute for synthetic fertilizers.This study aimed to identify combinations of synthetic fertilizers and slurry optimal for maize growth and N dynamics in Northeast China.In a two-year field experiment testing synthetic-to-slurry N fertilization ratios,slurry application increased grain yield and yield components,net economic benefit,and N use efficiency relative to synthetic fertilization but led to higher nitrous oxide and ammonia emissions.A 1:1-1:3 synthetic N:slurry N ratio and slurry application at 60-90 t ha^(-1)balanced productivity with N losses.
文摘This study examines the socio-economic profile of livestock farmers in coastal Côte d’Ivoire. A total of 43 people were interviewed using well-structured questionnaires. The collected data were analyzed using descriptive methods. The results showed that local Lagoon breeders are divided into two zones: southwest and southeast. Breeders in the south-western region are generally located in two sub-prefectures of the Tabou Department (Grabo and Oulodio). Tabou’s department alone accounts for 42% of the Lagoon breed in Côte d’Ivoire. Agriculture in this area is traditionally sedentary, practiced for social reasons. On the other hand, the south-eastern zone, located in the departments of Aboisso, Adzopé, Agboville, Grand-Lahou, Jacqueville, Abidjan, Dabou and Sikensi, represents 58% of the Lagoon breeding area in Côte d’Ivoire. This second group is characterised by improved breeding. Most of the farmers interviewed in this zone breed for economic reasons. However, the risk of cross-breeding, which already affects the local Lagoon breed, could be increased by the presence of other species such as the Zebu and Ndamas, or even the Baoulé, in this south-eastern herd.
基金supported by the National Natural Science Foundation of China (32060755)Natural Science Foundation of Inner Mongolia (2024MS03001)+7 种基金Inner Mongolia Autonomous Region Open Competition Projects (2022JBGS0018)Program for Young Talents of Science and Technology in Universities of Inner Mongolia Autonomous Region (NJYT23090)Inner Mongolia Autonomous Region Science and Technology Leading Team (2022LJRC0006)Inner Mongolia Autonomous Region Science and Technology Major Project (2021ZD0009)Major Agricultural Science and Technology Project of the Ministry of Agriculture and Rural Affairs (NK2022130203)Central Government Guides Local Science and Technology Development Funds (2022ZY0212)Inner Mongolia Autonomous Region High-level Talent Support ProgramInner Mongolia University Chief Scientist Program。
文摘Somatic cell nuclear transfer(SCNT)has been successfully employed across various mammalian species,yet cloned animals consistently exhibit low pregnancy rates,primarily due to placental abnormalities such as hyperplasia and hypertrophy.This study investigated the involvement of the Hippo signaling pathway in aberrant placentaldevelopmentinSCNT-inducedbovine pregnancies.SCNT-derived cattle exhibited placental hypertrophy,including enlarged abdominal circumference and altered placental cotyledon morphology.RNA sequencing analysis indicated significant dysregulation of Hippo signaling pathway genes in SCNT placentas.Coexpression of YAP1 and CCND1 was observed in cloned blastocysts,placental tissues,and bovine placental mesenchymal stem cells(bPMSCs).Manipulation of YAP1expression demonstrated the capacity to regulate bPMSC proliferation.Experimental assays confirmed the direct binding of YAP1 to CCND1,which subsequently promoted CCND1 expression in bPMSCs.Furthermore,inhibition of CDK6,a downstream target of CCND1,attenuated SCNT bPMSC proliferation.This study identified YAP1 as a key regulatory component within the Hippo signaling pathway that drives placental hyperplasia in cloned cattle through up-regulation of CCND1-CDK6 expression,facilitating cell cycle progression.These findings offer potential avenues for enhancing cloning efficiency,with implications for evolutionary biology and the conservation of valuable germplasm resources.
基金Supported by Wenzhou Science and Technology Commissioner Special Project(X2023070)Science and Technology Program Project of Taishun County(2023TSXM0028)Heilongjiang Provincial Natural Science Foundation-Jointly Guided Project(LH2022C092).
文摘[Objective]The paper was to improve the quality and growth rate of native yellow cattle in Wenzhou.[Method]Three groups of cattle were subjected to artificial insemination using frozen semen from Wagyu bull.The groups consisted of 20 native yellow cattle,20 Angus catle,and 20 Luxi yellow cattle.The heifers were subsequently evaluated for body size and body weight,and underwent treatment with estrus synchronization,artificial insemination,and early pregnancy diagnosis.[Result]The mean body size and body weight of native yellow cattle were found to be significantly lower than those of Angus cattle and Luxi yellow cattle(P<0.05).The estrus synchronization rate and mating rate of native yellow cattle were both 100%,while the corresponding rates for Angus cattle and Luxi yellow cattle were 90%and 95%,respectively.The ultrasound examination conducted on the 32m day following the mating revealed a distinct image of gestation sac,which,when considered alongside the findings of the rectal examination,may be indicative of pregnancy.The conception rates were 75%,72%,and 74%for native yllow cattle,Angus cattle,and Luxi yellow cattle,respectively.[Conclusion]The reproductive performance of native beef cattle is relatively superior.
文摘Agriculture is one of the priority sectors in Timor-Leste. Introducing new agriculture technology is crucial to enhance agricultural production. Practicing cattle fattening can increase beef cattle body weight and generate income to the beef cattle farmers. As farmers face problems including agricultural production decline, lack of forages and information and weather unfavourable. The study’s purpose was to examine the impact of adoption of cattle fattening technology on farmer households in Atabae administrative post, Bobonaro municipality in Timor-Leste. There were 200 beef cattle farmers households where randomly selected in four villages in Atabae. It consisted of 65 farmers practicing cattle fattening and 135 farmers non-practicing cattle fattening. Face to face interviews used structured questionnaire. Statistical analysis such as t-test and descriptive analysis were used to examine impact adoption of cattle fattening technology by farmers and factor constraints of cattle production and the solutions of it. The results indicated the average value of cattle and profit were significant different from zero and it is associated with practicing of cattle fattening. The average of labour used on cattle activities, the average of cattle sold, and total cost spent on cattle were not significant different from zero. The percentage of farmers said that factors constraints cattle production were shortage of water and forage (53%) and spend time on culture ceremony and lack of capital (33%). The number of farmers said that they collected water from river, feed cattle with sago and forage (55.3%) and cultivated forage (23.4%). This finding contributes information to the farmers, traders, and Timorese government to continue implementing cattle fattening activities as it enhances farmers’ income and developing cattle production.
基金supported by the Science and Technology Special Project of the Ministry of Agriculture and Rural Affairs,China(19211178)the National Beef and Yak Industrial Technology System,China(CARS-37)+1 种基金the Shaanxi Livestock and Poultry Breeding Double-chain Fusion Key Project,China(2022GD-TSLD-46-0102)the Key Research and Development Program of Shaanxi Province,China(2022NY-050 and 2022ZDLNY01-01)。
文摘Understanding the genetic and metabolic elements that impact meat quality is crucial to improving production and meeting consumer demands in the beef sector.Differences in meat quality among various muscle areas in beef cattle can impact pricing in the market.Despite progress in genomics,the specific genes and metabolites that affect meat quality characteristics in Qinchuan cattle remain inadequately understood.Therefore,this study aims to evaluate the meat quality characteristics of four specific muscle locations(tenderloin,striploin,high rib,and ribeye muscles)in Qinchuan bulls,including 10 traits(total protein content(TPC),intramuscular fat(IMF),non-esterified fatty acid(NEFA),meat color(L*,a*,and b*),shear force(SF),cooking loss(CL),pH0,and pH24).This experiment uses transcriptome,metabolome sequencing,and sophisticated analytical methodologies such as weighted gene co-expression network analysis(WGCNA)and protein–protein interaction networks(PPI)to identify the key genes and metabolites associated with specific traits.The findings highlight three notable genes(NDUFAB1,NDUFA12,and NDUFB7)linked to intramuscular fat(IMF),three key genes(CSRP3,ACAA3,and ACADVL)correlated with non-esterified fatty acids(NEFA),and one crucial gene(CREBBP)influencing meat color.In conclusion,this investigation offers a new perspective on the differences in bovine muscle locations and contributes to the molecular understanding of bovine meat quality.Future research endeavors could delve deeper into the identified genes and pathways to enhance beef cattle’s quality and yield.
基金financially supported by the National Research Foundation of Korea(NRF-2021R1A5A1033157 for SRC program:382 Comparative medicine Disease Research Center,NRF-2021R1F1A105195313)the Research Institute of Veterinary Science,the BK21 Four for Future Veterinary Medicine Leading Education and Research Center,and a Seoul National University(SNU)grant(#550e2020005)。
文摘Background Genome editing has been considered as powerful tool in agricultural fields.However,genome editing progress in cattle has not been fast as in other mammal species,for some disadvantages including long gestational periods,single pregnancy,and high raising cost.Furthermore,technically demanding methods such as microinjection and somatic cell nuclear transfer(SCNT)are needed for gene editing in cattle.In this point of view,electroporation in embryos has been risen as an alternative.Results First,editing efficiency of our electroporation methods were tested for embryos.Presence of mutation on embryo was confirmed by T7E1 assay.With first combination,mutation rates for MSTN and PRNP were 57.6%±13.7%and 54.6%±13.5%,respectively.In case of MSTN/BLG,mutation rates were 83.9%±23.6%for MSTN,84.5%±18.0%for BLG.Afterwards,the double-KO embryos were transferred to surrogates and mutation rate was identified in resultant calves by targeted deep sequencing.Thirteen recipients were transferred for MSTN/PRNP,4 calves were delivered,and one calf underwent an induction for double KO.Ten surrogates were given double-KO embryos for MSTN/BLG,and four of the six calves that were born had mutations in both genes.Conclusions These data demonstrated that production of genome edited cattle via electroporation of RNP could be effectively applied.Finally,MSTN and PRNP from beef cattle and MSTN and BLG from dairy cattle have been born and they will be valuable resources for future precision breeding.
基金National Key Research and Development Program(2023YFD1301801)National Natural Science Foundation of China(32272931)+1 种基金Shaanxi Province Agricultural Key Core Technology Project(2024NYGG005)Shaanxi Province Key R&D Program(2024NC-ZDCYL-05-12)。
文摘Accurate and continuous identification of individual cattle is crucial to precision farming in recent years.It is also the prerequisite to monitor the individual feed intake and feeding time of beef cattle at medium to long distances over different cameras.However,beef cattle can tend to frequently move and change their feeding position during feeding.Furthermore,the great variations in their head direction and complex environments(light,occlusion,and background)can also lead to some difficulties in the recognition,particularly for the bio-similarities among individual cattle.Among them,AlignedReID++model is characterized by both global and local information for image matching.In particular,the dynamically matching local information(DMLI)algorithm has been introduced into the local branch to automatically align the horizontal local information.In this research,the AlignedReID++model was utilized and improved to achieve the better performance in cattle re-identification(ReID).Initially,triplet attention(TA)modules were integrated into the BottleNecks of ResNet50 Backbone.The feature extraction was then enhanced through cross-dimensional interactions with the minimal computational overhead.Since the TA modules in AlignedReID++baseline model increased the model size and floating point operations(FLOPs)by 0.005 M and 0.05 G,the rank-1 accuracy and mean average precision(mAP)were improved by 1.0 percentage points and 2.94 percentage points,respectively.Specifically,the rank-1 accuracies were outperformed by 0.86 percentage points and 0.12 percentage points,respectively,compared with the convolution block attention module(CBAM)and efficient channel attention(ECA)modules,although 0.94 percentage points were lower than that of squeeze-and-excitation(SE)modules.The mAP metric values were exceeded by 0.22,0.86 and 0.12 percentage points,respectively,compared with the SE,CBAM,and ECA modules.Additionally,the Cross-Entropy Loss function was replaced with the CosFace Loss function in the global branch of baseline model.CosFace Loss and Hard Triplet Loss were jointly employed to train the baseline model for the better identification on the similar individuals.AlignedReID++with CosFace Loss was outperformed the baseline model by 0.24 and 0.92 percentage points in the rank-1 accuracy and mAP,respectively,whereas,AlignedReID++with ArcFace Loss was exceeded by 0.36 and 0.56 percentage points,respectively.The improved model with the TA modules and CosFace Loss was achieved in a rank-1 accuracy of 94.42%,rank-5 accuracy of 98.78%,rank-10 accuracy of 99.34%,mAP of 63.90%,FLOPs of 5.45 G,frames per second(FPS)of 5.64,and model size of 23.78 M.The rank-1 accuracies were exceeded by 1.84,4.72,0.76 and 5.36 percentage points,respectively,compared with the baseline model,part-based convolutional baseline(PCB),multiple granularity network(MGN),and relation-aware global attention(RGA),while the mAP metrics were surpassed 6.42,5.86,4.30 and 7.38 percentage points,respectively.Meanwhile,the rank-1 accuracy was 0.98 percentage points lower than TransReID,but the mAP metric was exceeded by 3.90 percentage points.Moreover,the FLOPs of improved model were only 0.05 G larger than that of baseline model,while smaller than those of PCB,MGN,RGA,and TransReID by 0.68,6.51,25.4,and 16.55 G,respectively.The model size of improved model was 23.78 M,which was smaller than those of the baseline model,PCB,MGN,RGA,and TransReID by 0.03,2.33,45.06,14.53 and 62.85 M,respectively.The inference speed of improved model on a CPU was lower than those of PCB,MGN,and baseline model,but higher than TransReID and RGA.The t-SNE feature embedding visualization demonstrated that the global and local features were achieve in the better intra-class compactness and inter-class variability.Therefore,the improved model can be expected to effectively re-identify the beef cattle in natural environments of breeding farm,in order to monitor the individual feed intake and feeding time.
基金supported by the National Key Research and Development Program of China(2022YFD1302204)the earmarked fund CARS36+1 种基金Ningxia Key Research and Development Program of China(2023BCF010042019NYYZ09)。
文摘Background Biologically annotated neural networks(BANNs)are feedforward Bayesian neural network models that utilize partially connected architectures based on SN P-set annotations.As an interpretable neural network,BANNs model SNP and SNP-set effects in their input and hidden layers,respectively.Furthermore,the weights and connections of the network are regarded as random variables with prior distributions reflecting the manifestation of genetic effects at various genomic scales.However,its application in genomic prediction has yet to be explored.Results This study extended the BANNs framework to the area of genomic selection and explored the optimal SN P-set partitioning strategies by using dairy cattle datasets.The SN P-sets were partitioned based on two strategiesgene annotations and 100 kb windows,denoted as BANN_gene and BANN_100kb,respectively.The BANNs model was compared with GBLU P,random forest(RF),BayesB and BayesCπthrough five replicates of five-fold cross-validation using genotypic and phenotypic data on milk production traits,type traits,and one health trait of 6,558,6,210and 5,962 Chinese Holsteins,respectively.Results showed that the BANNs framework achieves higher genomic prediction accuracy compared to GBLU P,RF and Bayesian methods.Specifically,the BANN_100kb demonstrated superior accuracy and the BANN_gene exhibited generally suboptimal accuracy compared to GBLUP,RF,BayesB and BayesCrr across all traits.The average accuracy improvements of BANN_100kb over GBLU P,RF,BayesB and BayesCrr were 4.86%,3.95%,3.84%and 1.92%,and the accuracy of BANN_gene was improved by3.75%,2.86%,2.73%and 0.85%compared to GBLUP,RF,BayesB and BayesCπ,respectively across all seven traits.Meanwhile,both BANN_100kb and BANN_gene yielded lower overall mean square error values than GBLUP,RF and Bayesian methods.Conclusion Our findings demonstrated that the BANNs framework performed better than traditional genomic prediction methods in our tested scenarios,and might serve as a promising alternative approach for genomic prediction in dairy cattle.
基金the University of Arkansas Agricultural Experiment Station,Hatch Project No.AR002234,National Natural Science Foundation of China(32170430)Guangdong Provincial Key Laboratory of Animal Molecular Design and Precise Breeding(2019B030301010)Key Laboratory of Animal Molecular Design and Precise Breeding of Guangdong Higher Education Institutes(2019KSYS011).
文摘Background Stocker cattle diet and management influence beef cattle performance during the finishing stage,but knowledge of the dynamics of the rumen microbiome associated with the host are lacking.A longitudinal study was conducted to determine how the feeding strategy from the stocker to the finishing stages of production affects the temporal dynamics of rumen microbiota.During the stocker phase,either dry hay or wheat pasture were provided,and three levels of monensin were administrated.All calves were then transported to a feedlot and received similar finishing diets with or without monensin.Rumen microbial samples were collected on d 0,28,85 during the stocker stage(S0,S28 and S85)and d 0,14,28,56,30 d before slaughter and the end of the trial during the finishing stage(F0,F14,F28,F56,Pre-Ba,and Final).The V4 region of the bacterial 16S rRNA gene of 263 rumen samples was sequenced.Results Higher alpha diversity,including the number of observed bacterial features and the Shannon index,was observed in the stocker phase compared to the finishing phase.The bacterial amplicon sequence variants(ASVs)differentiating different sampling time points were identified.Dietary treatments during the stocker stage temporally impact the dynamics of rumen microbiota.For example,shared bacteria,including Bacteroidales(ASV19)and Streptococcus infantarius(ASV94),were significantly higher in hay rumen on S28,S85,and F0,while Bacteroidaceae(ASV11)and Limivicinus(ASV15)were more abundant in wheat.Monensin affected rumen microbial composition at a specific time.Transportation to feedlot significantly influenced microbiome structure and diversity in hay-fed calves.Bacterial taxa associated with body weight were classified,and core microbiotas interacted with each other during the trial.Conclusions In summary,the temporal dynamics of the rumen microbiome in cattle at the stocker and finishing stage are influenced by multiple factors of the feeding strategy.Diet at the stocker phase may temporarily affect the microbial composition during this stage.Modulating the rumen microbiome in the steers at the stocker stage affects the microbial interactions and performance in the finishing stage.
基金funded by New Zealand dairy farmers through Dairy NZ Inc. and by the New Zealand Ministry of Business,Innovation and Employment (DRCX1302)support was kindly received from LIC and CRV
文摘Background Many phenotypes in animal breeding are derived from incomplete measures,especially if they are challenging or expensive to measure precisely.Examples include time-dependent traits such as reproductive status,or lifespan.Incomplete measures for these traits result in phenotypes that are subject to left-,interval-and rightcensoring,where phenotypes are only known to fall below an upper bound,between a lower and upper bound,or above a lower bound respectively.Here we compare three methods for deriving phenotypes from incomplete data using age at first elevation(>1 ng/mL)in blood plasma progesterone(AGEP4),which generally coincides with onset of puberty,as an example trait.Methods We produced AGEP4 phenotypes from three blood samples collected at about 30-day intervals from approximately 5,000 Holstein–Friesian or Holstein–Friesian×Jersey cross-bred dairy heifers managed in 54 seasonal-calving,pasture-based herds in New Zealand.We used these actual data to simulate 7 different visit scenarios,increasing the extent of censoring by disregarding data from one or two of the three visits.Three methods for deriving phenotypes from these data were explored:1)ordinal categorical variables which were analysed using categorical threshold analysis;2)continuous variables,with a penalty of 31 d assigned to right-censored phenotypes;and 3)continuous variables,sampled from within a lower and upper bound using a data augmentation approach.Results Credibility intervals for heritability estimations overlapped across all methods and visit scenarios,but estimated heritabilities tended to be higher when left censoring was reduced.For sires with at least 5 daughters,the correlations between estimated breeding values(EBVs)from our three-visit scenario and each reduced data scenario varied by method,ranging from 0.65 to 0.95.The estimated breed effects also varied by method,but breed differences were smaller as phenotype censoring increased.Conclusion Our results indicate that using some methods,phenotypes derived from one observation per offspring for a time-dependent trait such as AGEP4 may provide comparable sire rankings to three observations per offspring.This has implications for the design of large-scale phenotyping initiatives where animal breeders aim to estimate variance parameters and estimated breeding values(EBVs)for phenotypes that are challenging to measure or prohibitively expensive.
文摘Background and Objective: Tick-borne hemoparasitic illnesses pose a serious threat to the well-being and productivity of cattle. This study aimed to investigate the prevalence of tick-borne hemoparasites in Cameroon, with a specific focus on the Noun and Nde Divisions of the West Region. Methodology: A total of 423 cattle from 10 villages in both divisions were included in the study. Blood smears were prepared and subjected to microscopic screening for Babesia and Anaplasma parasites. Results: The prevalence of Anaplasma was found to be 23.4%, while Babesia exhibited a seroprevalence of 17.3%. Samples from Institute of Agricultural Research for Development (IRAD) and Koupa Ngangnou demonstrated significantly higher prevalence rates, potentially influenced by climate variations affecting tick populations. Additionally, 17.3% of the animals exhibited low hematocrit levels, indicative of anemia. No significant associations were observed between the presence of hemoparasite infection and cattle characteristics. Conclusion: This study provides fundamental data on the extensive distribution and impact of tick-borne hemoparasites in a significant cattle-producing region of Cameroon.
