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The single-step method of genomic evaluation using both a uni-trait and a multi-trait animal model was applied for 20 linear type traits of Holstein cows in the Czech Republic. Phenotypic data on linear scoring were available for 143,208 Holstein cows first calved between years 2005 to 2010. Single nucleotide polymorphism (SNP) markers from the Illumina BovineSNP50 BeadChipV2 (Illumina Inc., San Diego, USA) were available for 631 sires. Breeding values (traditional breeding value, EBV) were estimated by uni-trait and multi-trait BLUP animal models using the pedigreebased relationship matrix. Genomic breeding value (GEBV) was estimated by single step genomic BLUP (ssGBLUP) using the pedigree-based relationship matrix augmented by the genomic relationship matrix. The model included fixed effects of herd-date of classification, classifier and season of calving, linear and quadratic regressions on age at calving and on days in milk and the random additive genetic effect of animal. Correlations between parent average, predicted GEBV and post-progeny test EBV were slightly higher for uni-trait analyses than for multi-trait analyses.Excluding udder traits, the average uni-trait correlations with the post-progeny test EBV were 0.44 for parent average and 0.46 for predicted GEBV, whereas multi-trait correlations were 0.42 and 0.44, respectively. When udder traits were included, average uni-trait correlations with the postprogeny test EBV were 0.09 for parent average and 0.14 for predicted GEBV, while multi-trait correlations were 0.29 and 0.33, respectively.
Genetic evaluation of the growth of bulls at a performance test station was performed using a single-trait model (STAM) and multi-trait models that included pre-weaning growth. The growth of the bulls was represented by the average daily gain in the test (ADGT). Pre-weaning growth was expressed as average daily gains from birth to 120 days of age (ADG120) and from 120 to 210 days of age (ADG210). The coefficient of heritability across breeds was estimated by all models to be approximately 0.17 for ADG120, 0.13 for ADG210, and 0.27 for ADGT. Some tested models included the random effect of direct permanent environment. All testing criteria prioritized the multi-trait model incorporating the direct permanent effect, which was the most important effect in the model. The values of Spearman’s coefficients of correlation between breeding value predicted by the single-trait and multi-trait models were 0.93, and in the particular models that evaluated 10%, 5% and 1% of the best sires, the values ranged from 0.76 to 0.83.
The method for approximating reliability of genomic breeding values in the single-step genomic BLUP evaluation was tested on milk production data from dairy cattle in the Czech Republic. The reliability of young dairy bulls without progeny increased by an average of 0.02 for heritability of 0.25 after genomic information was included in the evaluation. The increase was minimal for proven bulls with many progeny because much information was already known about these individuals. The overall increase in the reliability for the entire population of dairy cattle was small, but noticeable;the small increment of the increase resulted from the unfavourable ratio of genotyped bulls and the size of the population (1:2500). A relatively small increase in reliability by genotyping was due to the small number of reference bulls with known genomic information.
Perinatal calf mortality affects profitability of beef cattle production systems, hence, it Gould eventually be beneficial to include this trait in a breeding goal. The objectives of this study were to estimate the environmental effects and heritabilities of and genetic correlations among birth weight (BW), calving ease (CE) and calf survival (CS) in Charolais cattle, in the Czech Republic.The dataset contained 27,402 field records. Fixed effects in the 3-trait model were year of birth, age of dam, sex, and litter size of calf. Random effects in the model were direct and maternal genetic effects, maternal permanent environment, contemporary group (herd x year x season), and residual.Birth weight was modelled as a normally distributed trait, while for calf survival a linear logit model was applied. The CE score was either transformed to be normally distributed (T1) or treated as a binary trait (T2). For T1, heritabilities for the direct genetic effect were 0.23, 0.21 and 0.05 for BWd, CEd and CSd, respectively; while heritabilities for maternal genetic effects were 0.10, 0.02 and 0.05 for BWm, CEm, and CSm. Genetic correlations among BW, CE and CS were close to zero for both direct and maternal genetic effects with the exception of that between BWd and CEd (0.21 for T1 and 0.24 for T2). Results suggest that low additive direct and maternal genetic variances for calf survival and low to modest direct and maternal genetic correlations between BW, CE and CS would limit effectiveness of selection for calf survival in a breeding program, in spite of its economic importance in beef cattle production.
In the Czech Republic, dairy sheep have traditionally been used as a dual-purpose species, generating income from both milk and meat. The functionality and health of the mammary gland are directly correlated with milk production, as well as with the hygiene and quality of milk and dairy products. Mastitis is one of the main infectious diseases in dairy sheep. One of the candidate genes that affect milk production traits is the ATP-binding cassette sub-family G member 2 (ABCG2) gene. The ABCG2 gene, a member of the ATP-binding cassette family, transports cytostatic and xenobiotic drugs across the cytoplasmic membrane. The study was based on 1747 records from 387 head of dairy sheep of the Lacaune breed (139) and the East Friesian breed (248). The analysis was performed by means of polymerase chain reactions (PCR). Genomic DNA was extracted from blood. Phenotype data used in the study were provided by the Association of Sheep and Goat Breeders in the Czech Republic (ASGB). We typed all three genotypes: DD, DI and II. In the Lacaune breed, the frequency of occurrence of the major D allele was 0.694, and the minor I allele had a frequency of occurrence of 0.306. In contrast, in East Friesian sheep the frequency of allele D was 0.216 and that of allele I was 0.784. Mutation c.683-80_46del in the intron 5 region of the ABCG2 gene confirmed the effect on somatic cell count in the dairy sheep population observed in this study. Further studies are needed to evaluate this possible association in other sheep breed populations. Mutation c.683-80_46del in intron 5 of the ABCG2 gene could be used as a candidate gene for somatic cell count.
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