A5090080840- Genetic and phenotypic traits in livestock
- Genetic Mapping and Diversity in Plants and Animals
- Genetics and Plant Breeding
- Cancer-related molecular mechanisms research
- Reproductive Physiology in Livestock
- Genetic diversity and population structure
- Animal Behavior and Welfare Studies
- Animal Nutrition and Physiology
- Milk Quality and Mastitis in Dairy Cows
- Effects of Environmental Stressors on Livestock
- Molecular Biology Techniques and Applications
- Metaheuristic Optimization Algorithms Research
- Wheat and Barley Genetics and Pathology
- Ruminant Nutrition and Digestive Physiology
- Animal Disease Management and Epidemiology
- Meat and Animal Product Quality
- Animal Genetics and Reproduction
- Genetic Associations and Epidemiology
- Livestock Farming and Management
- Genomic variations and chromosomal abnormalities
- Veterinary Equine Medical Research
- Animal Virus Infections Studies
- Microbial infections and disease research
- Mycobacterium research and diagnosis
- Gene expression and cancer classification
University of Guelph
2015-2024
Torbat Heydarieh University of Medical Sciences
2024
Scheck & Siress (United States)
2024
Servy Institute for Reproductive Endocrinology
2022-2023
Ontario Veterinary College
2021
Digital Research Alliance of Canada
2014-2018
L'Alliance Boviteq
2010-2014
Semex
2014
Islamic Azad University Shirvan Branch
2012
Graduate School USA
2005
Genotype imputation can help reduce genotyping costs particularly for implementation of genomic selection. In applications entailing large populations, recovering the genotypes untyped loci using information from reference individuals that were genotyped with a higher density panel is computationally challenging. Popular methods are based upon Hidden Markov model and have computational constraints due to an intensive sampling process. A fast, deterministic approach, which makes use both...
Abstract Summary: QMSim was designed to simulate large-scale genotyping data in multiple and complex livestock pedigrees. The simulation is basically carried out two steps. In the first step, a historical population simulated establish mutation-drift equilibrium, second recent structures are generated, which can be very complex. A wide variety of genome architectures, ranging from infinitesimal model single-locus model, simulated. program efficient terms computing time memory requirements....
While autozygosity as a consequence of selection is well understood, there limited information on the ability different methods to measure true inbreeding. In present study, gene dropping simulation was performed and inbreeding estimates based runs homozygosity (ROH), pedigree, genomic relationship matrix were compared Inbreeding ROH estimated using SNP1101, PLINK, BCFtools software with threshold parameters. The effects patterns also compared. Furthermore, coefficients in sample genotyped...
The detection of signatures selection has the potential to elucidate identities genes and mutations associated with phenotypic traits important for livestock species. It is also very relevant investigate levels genetic diversity a population, as represents raw material essential breeding practical implications implementation genomic selection. A total 1151 animals from nine goat populations selected different goals genotyped Illumina Goat 50K single nucleotide polymorphisms (SNP) Beadchip...
Genome-wide association studies (GWAS) are a powerful tool for detecting genomic regions explaining variation in phenotype. The objectives of the present study were to identify or refine positions affecting milk production, components and fertility traits Canadian Holstein cattle, use these genes pathways that may influence traits. Several QTL detected production (MILK), fat (FAT), protein (PROT) deviation (FATD, PROTD respectively). identified (including production) support previous...
Studies are being conducted on the applicability of genomic data to improve accuracy selection process in livestock, and genome-wide association studies (GWAS) provide valuable information enhance understanding genetics complex traits. The aim this study was identify regions genes that play roles birth weight (BW), weaning adjusted for 210 days age (WW), long-yearling 420 (LYW) Canchim cattle. GWAS were performed by means Generalized Quasi-Likelihood Score (GQLS) method using genotypes from...
Abstract Background Knowledge of the linkage disequilibrium (LD) between markers is important to establish number necessary for association studies and genomic selection. The objective this study was evaluate extent LD in Nellore cattle using a high density SNP panel 795 genotyped steers. Results After data editing, 446,986 SNPs were used estimation LD, comprising 2508.4 Mb genome. mean distance adjacent 4.90 ± 2.89 kb. minor allele frequency (MAF) less than 0.20 considerable proportion...
Genotype imputation from low-density (LD) to high-density single nucleotide polymorphism (SNP) chips is an important step before applying genomic selection, since denser tend provide more reliable predictions. Imputation methods rely partially on linkage disequilibrium between markers infer unobserved genotypes. Bos indicus cattle (e.g. Nelore breed) are characterized, in general, by lower levels of genetic at short distances, compared taurine breeds. Thus, it evaluate the accuracy better...
Effectiveness of genomic selection and fine mapping is determined by the level linkage disequilibrium (LD) across genome. Knowledge range genome-wide LD, defined as a non-random association alleles at different loci, can provide an insight into optimal density location single-nucleotide polymorphisms (SNPs) for studies be keystone interpretation results from QTL mapping. Linkage was measured |D'| r2 between 38,590 SNPs (spaced 29 bovine autosomes X chromosome) using genotypes 887 Holstein...
Linkage disequilibrium (LD) and the persistence of its phase across populations are important for genomic selection as well fine scale mapping quantitative trait loci. However knowledge LD in beef cattle, between crossbreds purebreds, is limited. The objective this study was to understand patterns Angus, Charolais, crossbred cattle based on 31'073, 32'088 33'286 SNP each population, respectively. Amount decreased rapidly from 0.29 0.23 0.19 Angus (AN), 0.22 0.16 0.12 Charolais (CH), 0.21...
The development of linkage disequilibrium (LD) maps and the characterization haplotype block structure at population level are useful parameters for guiding genome wide association (GWA) studies, understanding nature non-linear between phenotypes genes. elucidation can reduce information several single nucleotide polymorphisms (SNP) into a block, reducing number SNPs in coherent way consideration GWA genomic selection studies. maximum average LD, measured by r2 varied 0.33 to 0.40 distance <...
A genome-wide association study using the Illumina 50K BeadChip included 38,745 SNP on 29 BTA analyzed 751 animals, including 33 purebreds and 718 crossbred cattle. Genotypes 6 production traits: birth weight (BWT), weaning (WWT), ADG, DMI, midtest metabolic BW (MMWT), residual feed intake (RFI), were used to estimate effects of individual traits. At level false discovery rate (FDR < 10%), 41 5 found significantly associated with BWT WWT, respectively. Thirty-three them located BTA6. a less...
Breeding for enhanced immune response (IR) has been suggested as a tool to improve inherent animal health. Dairy cows with superior antibody-mediated (AMIR) and cell-mediated responses (CMIR) have demonstrated lower occurrence of many diseases including mastitis. Adaptive traits are heritable, it is, therefore, possible breed improved IR, decreasing the disease. The objective this study was perform genome-wide association studies determine differences in genetic profiles among Holstein...
The success of genomic selection depends mainly on the extent linkage disequilibrium (LD) between markers and quantitative trait loci (QTL), number animals in training set (TS) heritability (h2) trait. LD genetic structure population density markers. aim this study was to calculate accuracy direct estimated breeding values (DGEBV) using best linear unbiased prediction (GBLUP) for different marker densities, heritabilities sizes TS simulated populations that mimicked previously reported...
Our aim was to identify genomic regions via genome-wide association studies (GWAS) improve the predictability of genetic merit in Holsteins for 10 calving and 28 body conformation traits. Animals were genotyped using Illumina Bovine 50 K BeadChip imputed BovineHD (HD). GWAS performed on 601,717 real single nucleotide polymorphism (SNP) genotypes a single-SNP mixed linear model 4841 Holstein bulls with breeding value predictions followed by gene identification silico functional analyses. The...