Indirect genomic predictions for milk yield in crossbred Holstein-Jersey dairy cattle.

The objective of this study was to predict genomic breeding values for milk yield of crossbred dairy cattle under different scenarios using single-step genomic BLUP (ssGBLUP). The data set included 13,880,217 milk yield measurements on 6,830,415 cows. Genotypes of 89,558 Holstein, 40,769 Jersey, and 22,373 Holstein-Jersey crossbred animals were used, of which all Holstein, 9,313 Jersey, and 1,667 crossbred animals had phenotypic records. Genotypes were imputed to 45K SNP markers. The SNP effects were estimated from single-breed evaluations for Jersey (JE), Holstein (HO) and crossbreds (CROSS), and multibreed evaluations including all Jersey and Holstein (JE_HO) or approximately equal proportions of Jersey, Holstein, and crossbred animals (MIX). Indirect predictions (IP) of the validation animals (358 crossbred animals with phenotypes excluded from evaluations) were calculated using the resulting SNP effects. Additionally, breed proportions (BP) of crossbred animals were applied as a weight when IP were estimated based on each pure breed. The predictive ability of IP was calculated as the Pearson correlation between IP and phenotypes of the validation animals adjusted for fixed effects in the model. Regression of adjusted phenotypes on IP was used to assess the inflation of IP. The predictive ability of IP for CROSS, JE, HO, JE_HO, and MIX scenario was 0.50, 0.50, 0.47, 0.50, and 0.46, respectively. Using BP was the least successful, with a predictive ability of 0.32. The inflation of the IP for crossbred animals using CROSS, JE, HO, JE_HO, MIX, and BP scenarios were 1.17, 0.65, 0.55, 0.78, 1.00, and 0.85, respectively. The IP of crossbred animals can be predicted using single-step GBLUP under a scenario that includes purebred genotypes.

Genomic evaluation for wellness traits in US Jersey cattle.

The number of Jersey cows in the United States has been steadily increasing in recent years according to Council on Dairy Cattle Breeding statistics. To help producers reduce the risk of health disorders in their Jersey animals, Zoetis has developed genomic predictions for wellness traits in Jersey cattle using producer-recorded data. The traits included mastitis (MAST), metritis, retained placenta, displaced abomasum (DA), ketosis, lameness, and milk fever in cows and respiratory disease, scours, and calf livability (DEAD) in calves. Phenotypic data on health events, pedigree, and genotypes were collected directly from producers upon obtaining their permission. Each trait was defined as a binary event, having a value of 1 if an animal has been recorded with a disorder and 0 otherwise. The number of phenotypic records ranged from 216,166 for DA to 628,958 for MAST for cow traits and from 186,505 for scours to 380,429 for DEAD for calf traits. The number of genotyped animals was 41,271. All traits were analyzed using a univariate threshold animal model. The model for cow wellness traits included the fixed effect of parity and random effects of herd × year × season of calving, animal, and permanent environment. The model for calf wellness traits included the fixed effect of year of birth × calving season × region and random effects of herd × year of birth and animal. A total of 45,163 SNP were used in genomic analyses. Animals genotyped with low-density chips were imputed to the required number of markers. All analyses were based on the single-step genomic BLUP. Heritabilities ranged from 0.061 for DA to 0.120 for lameness. Predicted transmitting abilities were expressed in percentage points as deviations from the average estimated probability of a disorder in the base population. Reliabilities of genomic predicted transmitting abilities had average values between 32% (DA) and 51% (MAST and DEAD). The results indicate that a direct evaluation of cow and calf wellness traits under a genomic threshold model is feasible and offers predictions with average reliabilities comparable with other lowly heritable traits for Jersey cattle.

Genomic evaluation for calf wellness traits in Holstein cattle.

Reducing calf morbidity and mortality is important for attaining financial sustainability and improving animal welfare on commercial dairy operations. Zoetis (Kalamazoo, MI) has developed genomic predictions for calf wellness traits in Holsteins that include calf respiratory disease (RESP; recorded between 0 and 365 d of age), calf scours (DIAR; recorded between 2 and 50 d of age), and calf livability (DEAD; recorded between 2 and 365 d of age). Phenotype and pedigree data were from commercial dairies and provided directly by producers upon obtaining their permission. The number of records ranged from 741,484 for DIAR to 1,926,261 for DEAD. The number of genotyped animals was 325,025. All traits were analyzed using a univariate threshold animal model including fixed effect of year of birth × calving season × region, and random effects of herd × year of birth and animal. A total of 45,425 SNP were used in genomic analyses. Animals genotyped with low-density chips were imputed to the required number of SNP. All analyses were conducted using single-step genomic BLUP implementing the "algorithm for proven and young" (APY) animals designed to accommodate very large numbers of genotypes. Estimated heritabilities were 0.042, 0.045, and 0.060 for RESP, DIAR, and DEAD, respectively. The genomic predicted transmitting abilities ranged between -8.0 and 24.0, -11.5 and 28.5, and -6.5 to 22.8 for RESP, DIAR, and DEAD, respectively. Reliabilities of breeding values were obtained by approximation based on partitioning of a function of reliability into contributions from records, pedigree, and genotypes, where the genotype contribution was approximated using the diagonal value of the genomic relationship matrix. The average reliabilities for the genotyped animals were 41.9, 42.6, and 47.3% for RESP, DIAR, and DEAD, respectively. Estimated genomic predicted transmitting abilities and reliabilities were approximately normally distributed for all analyzed traits. Approximated genetic correlations of calf wellness with Zoetis dairy wellness traits and traits included in the US national genetic evaluation were low to moderate. The results indicate that direct evaluation of calf wellness traits under a genomic threshold model is feasible and offers predictions with average reliabilities comparable to other lowly heritable traits. Genetic selection for calf wellness traits presents a compelling opportunity for dairy producers to help manage herd replacement costs and improve overall profitability.

Prepartum supplement level and age at weaning: I. Effects on pre- and postpartum beef cow performance and calf performance through weaning.

Objectives were to determine the interaction of prepartum supplement level and age at weaning on cow BW, BCS, milk production, reproduction, and calf performance up to weaning in a fall-calving system over 2 yr. Mature, multiparous, Angus × Simmental cows (yr 1: 326 cows, 9 pastures, BW = 632 ± 67 kg, and BCS = 5.7 ± 0.58; yr 2: 383 cows, 9 pastures, BW = 606 ± 70 kg, and BCS = 5.8 ± 0.74) were used in a split-plot design that included 3 supplement levels-no supplement (NS), low supplement (LS; 2.16 kg∙cow∙d), or high supplement (HS; 8.61 kg∙cow∙d)-and 2 ages at weaning-78 ± 11 d of age (early weaned; EW) or 186 ± 11 d of age (normal weaned; NW). Cows grazed endophyte-infected tall fescue/red clover pastures and were bunk fed supplement (70% dried distillers' grains with solubles and 30% soybean hulls) 103 ± 11 d prepartum to 2 ± 11 d postpartum. Cow BW was greater ( < 0.01) for cows fed HS at precalving (49 ± 11 d prepartum), postcalving (26 ± 11 d postpartum), and postbreeding (81 d after AI) compared with cows fed NS and LS. Prepartum supplementation did not affect ( ≥ 0.62) calf birth BW, percent of calves dead at birth, or percent of cows calving unassisted. Prepartum supplementation tended ( = 0.10) to improve AI conception. Early weaning increased ( ≤ 0.05) AI conception and postbreeding cow BW and BCS compared with cows with NW calves. Neither prepartum supplementation nor age at weaning affected ( ≥ 0.28) overall pregnancy rate. At time of early weaning, BW was increased ( = 0.05) for steers from cows fed LS compared with steers from cows fed NS. Steer BW at time of normal weaning and ADG between early and normal weaning was greater ( < 0.01) for EW steers compared with NW steers. A year × age at weaning interaction occurred ( < 0.01) for ultrasound marbling score at time of normal weaning. In yr 1, marbling was decreased ( = 0.04) for EW steers compared with NW steers; however, in yr 2, marbling was increased ( < 0.01) for EW steers compared with NW steers. In conclusion, there was no interaction between level of supplement during late gestation and age at weaning on cow BW, BCS, milk production, AI conception, and overall pregnancy rate in mature beef cows nor in their steer progeny's BW or ultrasound marbling. Both prepartum supplementation and early weaning improved cow BW, BCS, and reproduction. Minimal effects of dam prepartum supplement level on calf performance up to weaning were observed. Early weaning improved calf growth but had inconsistent effects on ultrasound marbling across years.

Beef cow prepartum supplement level and age at weaning: II. Effects of developmental programming on performance and carcass composition of steer progeny.

Objectives were to determine the interaction of prepartum dam supplement level and age at weaning on growth performance, glucose and insulin concentrations, and carcass characteristics of steers (134 steers in yr 1; 147 steers in yr 2). Mature, multiparous Angus × Simmental cows were used in a split-plot design that included 3 supplement levels (no supplement [NS], 2.16 kg·cow·d [LS], and 8.61 kg·cow·d [HS]) and 2 ages at weaning (78 ± 11 d of age [early weaned; EW] or 186 ± 11 d of age [normal weaned; NW]). Cows grazed endophyte-infected tall fescue/red clover pastures and were bunk fed supplement (70% dried distiller's grains plus solubles and 30% soybean hulls) 103 ± 11 d prepartum to 2 ± 11 d postpartum. Dam prepartum supplement level did not affect ( ≥ 0.29) finishing phase growth performance or morbidity. The percentage of steers grading Average Choice or greater was increased ( = 0.04) for steers from cows fed HS compared to the percentage of steers from cows fed NS. Early weaning increased ( < 0.01) finishing phase initial BW and final BW and reduced ( < 0.01) G:F compared to normal weaning. A year × wean interaction ( = 0.04) occurred for ADG; EW resulted in reduced ( < 0.01) ADG compared to NW in yr 2. At slaughter, EW steers had greater ( < 0.01) HCW, yield grade, and back fat than NW steers. A year × wean interaction ( ≤ 0.05) occurred for quality grade distribution; in yr 2, EW steers had a greater ( < 0.01) proportion of carcasses that graded Low Choice or greater and Average Choice or greater than carcasses from NW steers. The EW steers had greater ( ≤ 0.05) occurrence of single antibiotic treatments in yr 2 and mortality due to respiratory disease than NW steers. A trend for a year × wean interaction ( ≤ 0.07) occurred for plasma insulin concentration and insulin:glucose; EW steers had numerically greater plasma insulin concentrations and insulin:glucose than NW steers in yr 1. In conclusion, these data suggest that there is no interaction between maternal level of supplement during late gestation and age at weaning on steer finishing phase performance, glucose and insulin concentrations, and carcass yield and quality characteristics. Overfeeding supplement to the dam did not affect finishing phase growth performance but did improve quality grades of steers. Early weaning increased HCW and improved carcass quality. Both dam supplement level and age at weaning are effective strategies in increasing beef quality and are independent of each other.

Genetic gain and economic values of selection strategies including semen traits in three- and four-way crossbreeding systems for swine production.

Four semen traits: volume (VOL), concentration (CON), progressive motility of spermatozoa (MOT), and abnormal spermatozoa (ABN) provide complementary information on boar fertility. Assessment of the impact of selection for semen traits is hindered by limited information on economic parameters. Objectives of this study were to estimate economic values for semen traits and to evaluate the genetic gain when these traits are incorporated into traditional selection strategies in a 3-tier system of swine production. Three-way (maternal nucleus lines A and B and paternal nucleus line C) and 4-way (additional paternal nucleus line D) crossbreeding schemes were compared. A novel population structure that accommodated selection for semen traits was developed. Three selection strategies were simulated. Selection Strategy I (baseline) encompassed selection for maternal traits: number of pigs born alive (NBA), litter birth weight (LBW), adjusted 21-d litter weight (A21), and number of pigs at 21 d (N21); and paternal traits: number of days to 113.5 kg (D113), backfat (BF), ADG, feed efficiency (FE), and carcass lean % (LEAN). Selection Strategy II included Strategy I and the number of usable semen doses per collection (DOSES), a function of the 4 semen traits. Selection Strategy III included Strategy I and the 4 semen traits individually. The estimated economic values of VOL, CON, MOT, ABN, and DOSES for 7 to 1 collections/wk ranged from $0.21 to $1.44/mL, $0.12 to $0.83/10 spermatozoa/mm, $0.61 to $12.66/%, -$0.53 to -$10.88/%, and $2.01 to $41.43/%, respectively. The decrease in the relative economic values of semen traits and DOSES with higher number of collections per wk was sharper between 1 and 2.33 collections/wk than between 2.33 and 7 collections/wk. The higher economic value of MOT and ABN relative to VOL and CON could be linked to the genetic variances and covariances of these traits. Average genetic gains for the maternal traits were comparable across strategies. Genetic gains for paternal traits, excluding semen traits, were greater in selection Strategy I than Strategies III and II. Genetic gains for paternal and maternal traits were greater in the 4- and 3-way schemes, respectively. The selection strategy including the 4 semen traits is recommended because this approach enables genetic gains for these traits without compromising the genetic gains for maternal traits and with minimal losses in genetic gains for paternal traits.

Impact of pig insemination technique and semen preparation on profitability.

Artificial insemination technique and semen preparation impact boar utilization efficiency, genetic dissemination, and biosecurity. Intrauterine (IUI) and deep intrauterine (DUI) AI techniques require lower number of spermatozoa per dose compared to conventional (CON) AI. Frozen semen (FRO) has been associated with lower reproductive performance compared to fresh semen (FRE) preparation. The combined effects of 3 AI techniques (CON, IUI, and DUI) and 2 semen preparations (FRE and FRO) on the financial indicators of a pig crossbreeding system were studied. A 3-tier system was simulated in ZPLAN and the genetic improvement in a representative scenario was characterized. The cross of nucleus lines B and A generated 200,000 BA sows at the multiplier level. The BA sows were inseminated (CON, IUI, or DUI) with FRE or FRO from line C boars at the commercial level. Semen preparation and AI technique were represented by distinct sow:boar ratios in the C × BA cross. A range of farrowing rates (60 to 90%) and litter sizes (8 to 14 liveborn pigs) were tested. Genetic improvement per year for number born alive, adjusted 21-d litter weight, days to 113.5 kg, backfat, and ADG were 0.01 pigs per litter, 0.06 kg, -0.09 d, -0.29 mm, and 0.88 g, respectively. On average, the net profit for FRE (FRO) increased (P-value < 0.0001) from CON to IUI and DUI by 2.2 (3.2%) and 2.6% (4%), respectively. The differences in profit between techniques were driven by differences in costs. Differences in fixed costs between IUI and DUI relative to CON were -2.4 (-5.2%) and -3.4% (-7.4%), respectively. The differences in total costs between FRE and FRO were lower than -5%. The difference in variable costs between FRE and FRO ranged from -5.3 (CON) to -24.7% (DUI). Overall, insemination technique and semen preparation had a nonlinear effect on profit. The average relative difference in profit between FRE and FRO was less than 3% for the scenarios studied.

Components of (co)variance of the days open in Siboney dairy cows / Componentes de (co)variância dos dias vazios em vacas leiteiras Siboney

The records of 63,406 calvings of Siboney dairy cows (5/8 Holstein 3/8 Cuban Zebu) were used to estimate the components of covariance of the days open (DO). Five models were used: of repeatability; univariate; bivariate; of random regression with Legendre polynomials and the parity number as predicting variable; and a model of random regression with Legendre polynomials and heterogeneity of the residual variance. The heritability obtained with the univariate model was 0.09 in the first calving and decreased to 0.05 in the fifth. A higher estimate of heritability (0.12) was obtained with the repeatability model. When the model of random regression with heterogeneity of the residual variance was used, the heritability was higher than the values estimated with the previous models. The genetic correlations among the DO in different calvings, estimated with the models of random regression with and without heterogeneity of the residual variance, were close to 1.0. It is concluded that the estimates of heritability increased with the use of the random regression models. The genetic correlations among the DO of different calvings indicated that in the first three, the DO are regulated for the most part by the same genes.

Os registros de 63.406 partos de vacas Siboney (5/8 Holstein 3/8 Cebu de Cuba) foram utilizados para estimar os componentes de (co)variância de dias vazios (DV). Utilizaram-se cinco modelos: de repetitividade; univariado; bivariado; de regressão aleatória com polinômios de Legendre e número de partos como variável preditiva; e de regressão aleatória com polinômios de Legendre e heterogeneidade da variância residual. A herdabilidade obtida com o modelo univariado foi de 0,09 no primeiro e diminuiu a 0,05 no quinto parto. Uma estimativa de herdabilidade mais alta (0,12) foi obtida com o modelo de repetitividade. Quando foi usado o modelo de regressão aleatória com heterogeneidade da variância residual a herdabilidade foi superior aos valores estimados com os modelos anteriores. As correlações genéticas entre os DV em distintos partos, estimadas com os modelos de regressão aleatória com e sem heterogeneidade da variância residual, foram próximos a 1,0. Concluiu-se que as estimativas de herdabilidade foram incrementadas com o uso dos modelos de regressão aleatória. As correlações genéticas entre os DV de diferentes partos indicaram que, nos três primeiros, os DV são regulados na sua maior proporção pelos mesmos genes.