Changes in genetic trends in US dairy cattle since the implementation of genomic selection.

Genomic selection increases accuracy and decreases generation interval, accelerating genetic changes in populations. Assumptions of genetic improvement must be addressed to quantify the magnitude and direction of change. Genetic trends of US dairy cattle breeds were examined to determine the genetic gain since the implementation of genomic evaluations in 2009. Inbreeding levels and generation intervals were also investigated. Breeds included Ayrshire, Brown Swiss, Guernsey, Holstein (HO), and Jersey (JE), which were characterized by the evaluation breed the animal received. Mean genomic predicted breeding values (PBV¯) were analyzed per year to calculate genetic trends for bulls and cows. The data set contained 154,008 bulls and 33,022,242 cows born since 1975. Breakpoints were estimated using linear regression, and nonlinear regression was used to fit the piecewise model for the small sample number in some years. Generation intervals and inbreeding levels were also investigated since 1975. Milk, fat, and protein yields, somatic cell score, productive life, daughter pregnancy rate, and livability PBV¯ were documented. In 2017, 100% of bulls in this data set were genotyped. The percentage of genotyped cows has increased 23 percentage points since 2010. Overall, production traits have increased steadily over time, as expected. The HO and JE breeds have benefited most from genomics, with up to 192% increase in genetic gain since 2009. Due to the low number of observations, trends for Ayrshire, Brown Swiss, and Guernsey are difficult to infer from. Trends in fertility are most substantial; particularly, most breeds are trending downwards and daughter pregnancy rate for JE has been decreasing steadily since 1975 for bulls and cows. Levels of genomic inbreeding are increasing in HO bulls and cows. In 2017, genomic inbreeding levels were 12.7% for bulls and 7.9% for cows. A suggestion to control this is to include the genomic inbreeding coefficient with a negative weight to the selection index of bulls with high future genomic inbreeding levels. For sires of bulls, the current generation intervals are 2.2 yr in HO, 3.2 in JE, 4.4 in Brown Swiss, 5.1 in Ayrshire, and 4.3 in Guernsey. The number of colored breed bulls in the United States is currently at an extremely low level, and this number will only increase with a market incentive or additional breed association involvement. Increased education and extension could be beneficial to increase knowledge about inbreeding levels, use of genomics and genetic improvement, and genetic diversity in the genomic selection era.

Investigating conception rate for beef service sires bred to dairy cows and heifers.

The widespread use of sexed semen on US dairy cows and heifers has led to an excess of replacement heifers' calves, and the sale prices for those calves are much lower than in the past. Females not selected to produce the next generation of replacement heifers are increasingly being bred to beef bulls to produce crossbred calves for beef production. The purpose of this study was to investigate the use of beef service sires bred to dairy cows and heifers and to provide a tool for dairy producers to evaluate beef service sires' conception. Sire conception rate (SCR) is a phenotypic evaluation of service sire fertility that is routinely calculated for US dairy bulls. A total of 268,174 breedings were available, which included 36 recognized beef breeds and 7 dairy breeds. Most of the beef-on-dairy inseminations (95.4%) were to Angus (AN) bulls. Because of the limited number of records among other breeds, we restricted our final evaluations to AN service sires bred to Holstein (HO) cows. Service-sire inbreeding and expected inbreeding of resulting embryo were set to zero because pedigree data for AN bulls were unavailable. There were 233,379 breedings from 1,344 AN service sire to 163,919 HO cows. A mean (SD) conception rate of 33.8% (47.3%) was observed compared with 34.3% (47.5%) for breedings with HO sires mated to HO cows. Publishable AN bulls were required to have ≥100 total matings, ≥10 matings in the most recent 12 mo, and breedings in at least 5 herds. Mean SCR reliability was 64.5% for 116 publishable bulls, with a maximum reliability of 99% based on 25,217 breedings. Average SCR was near zero (on AN base) with a range of -5.1 to 4.4. Breedings to HO heifers were also examined, which included 19,437 breedings (443 AN service sire and 15,971 HO heifers). A mean (SD) conception rate of 53.0% (49.9%) was observed, compared with 55.3% (49.7%) for breedings with a HO sire mated to a HO heifer. Beef sires were used more frequently in cows known to be problem breeders, which explains some of the difference in conception rate. Mean service number was 1.92 and 2.87 for HO heifers and 2.13 and 3.04 for HO cows mated to HO and AN sires, respectively. Mating dairy cows and heifers to beef bulls may be profitable if calf prices are higher, fertility is improved, or if practices such as sexed semen, genomic testing, and improved cow productive life allow herd owners to produce both higher quality dairy replacement and increased income from market calves.

Symposium review: Development, implementation, and perspectives of health evaluations in the United States.

The rate at which new traits are being developed is increasing, leading to an expanding number of evaluations provided to dairy producers, especially for functional traits. This review will discuss the development and implementation of genetic evaluations for direct health traits in the United States, as well as potential future developments. Beginning in April 2018, routine official genomic evaluations for 6 direct health traits in Holsteins were made available to US producers from the Council on Dairy Cattle Breeding (Bowie, MD). Traits include resistance to milk fever, displaced abomasum, ketosis, clinical mastitis, metritis, and retained placenta. These health traits were included in net merit indices beginning in August 2018, with a total weight of approximately 2%. Previously, improvement of cow health was primarily made through changes to management practices or genetic selection on indicator traits, such as somatic cell score, productive life, or livability. Widespread genomic testing now allows for accelerated improvement of traits with low heritabilities such as health; however, phenotypes remain essential to the success of genomic evaluations. Establishment and maintenance of data pipelines is a critical component of health trait evaluations, as well as appropriate data quality control standards. Data standardization is a necessary process when multiple data sources are involved. Model refinement continues, including implementation of variance adjustments beginning with the April 2019 evaluation. Mastitis evaluations are submitted to Interbull along with somatic cell score for international validation and evaluation of udder health. Additional areas of research include evaluation of other breeds for direct health traits, use of multiple-trait models, and evaluations for additional functional traits such as calf health and feed efficiency. Future developments will require new and continued cooperation among numerous industry stakeholders. There is more information available than ever before with which to make better selection decisions; however, this also makes it increasingly important to provide accurate and unbiased information.

Genomic predictions for crossbred dairy cattle.

Genomic evaluations are useful for crossbred as well as purebred populations when selection is applied to commercial herds. Dairy farmers had already spent more than $1 million to genotype over 32,000 crossbred animals before US genomic evaluations became available for those animals. Thus, new tools were needed to provide accurate genomic predictions for crossbreds. Genotypes for crossbreds are imputed more accurately when the imputation reference population includes purebreds. Therefore, genotypes of 6,296 crossbred animals were imputed from lower-density chips by including either 3,119 ancestors or 834,367 genotyped animals in the reference population. Crossbreds in the imputation study included 733 Jersey × Holstein F1 animals, 55 Brown Swiss × Holstein F1 animals, 2,300 Holstein backcrosses, 2,026 Jersey backcrosses, 27 Brown Swiss backcrosses, and 502 other crossbreds of various breed combinations. Another 653 animals appeared to be purebreds that owners had miscoded as a different breed. Genomic breed composition was estimated from 60,671 markers using the known breed identities for purebred, progeny-tested Holstein, Jersey, Brown Swiss, Ayrshire, and Guernsey bulls as the 5 traits (breed fractions) to be predicted. Estimates of breed composition were adjusted so that no percentages were negative or exceeded 100%, and breed percentages summed to 100%. Another adjustment set percentages above 93.5% equal to 100%, and the resulting value was termed breed base representation (BBR). Larger percentages of missing alleles were imputed by using a crossbred reference population rather than only the closest purebred reference population. Crossbred predictions were averages of genomic predictions computed using marker effects for each pure breed, which were weighted by the animal's BBR. Marker and polygenic effects were estimated separately for each breed on the all-breed scale instead of within-breed scales. For crossbreds, genomic predictions weighted by BBR were more accurate than the average of parents' breeding values and slightly more accurate than predictions using only the predominant breed. For purebreds, single-trait predictions using only within-breed data were as accurate as multi-trait predictions with allele effects in different breeds treated as correlated effects. Crossbred genomic predicted transmitting abilities were implemented by the Council on Dairy Cattle Breeding in April 2019 and will aid producers in managing their breeding programs and selecting replacement heifers.

A 100-Year Review: Methods and impact of genetic selection in dairy cattle-From daughter-dam comparisons to deep learning algorithms.

In the early 1900s, breed society herdbooks had been established and milk-recording programs were in their infancy. Farmers wanted to improve the productivity of their cattle, but the foundations of population genetics, quantitative genetics, and animal breeding had not been laid. Early animal breeders struggled to identify genetically superior families using performance records that were influenced by local environmental conditions and herd-specific management practices. Daughter-dam comparisons were used for more than 30 yr and, although genetic progress was minimal, the attention given to performance recording, genetic theory, and statistical methods paid off in future years. Contemporary (herdmate) comparison methods allowed more accurate accounting for environmental factors and genetic progress began to accelerate when these methods were coupled with artificial insemination and progeny testing. Advances in computing facilitated the implementation of mixed linear models that used pedigree and performance data optimally and enabled accurate selection decisions. Sequencing of the bovine genome led to a revolution in dairy cattle breeding, and the pace of scientific discovery and genetic progress accelerated rapidly. Pedigree-based models have given way to whole-genome prediction, and Bayesian regression models and machine learning algorithms have joined mixed linear models in the toolbox of modern animal breeders. Future developments will likely include elucidation of the mechanisms of genetic inheritance and epigenetic modification in key biological pathways, and genomic data will be used with data from on-farm sensors to facilitate precision management on modern dairy farms.

Use of residual feed intake in Holsteins during early lactation shows potential to improve feed efficiency through genetic selection.

Improved feed efficiency is a primary goal in dairy production to reduce feed costs and negative impacts of production on the environment. Estimates for efficiency of feed conversion to milk production based on residual feed intake (RFI) in dairy cattle are limited, primarily due to a lack of individual feed intake measurements for lactating cows. Feed intake was measured in Holstein cows during the first 90 d of lactation to estimate the heritability and repeatability of RFI, minimum test duration for evaluating RFI in early lactation, and its association with other production traits. Data were obtained from 453 lactations (214 heifers and 239 multiparous cows) from 292 individual cows from September 2007 to December 2011. Cows were housed in a free-stall barn and monitored for individual daily feed consumption using the GrowSafe 4000 System (GrowSafe Systems, Ltd., Airdrie, AB, Canada). Animals were fed a total mixed ration 3 times daily, milked twice daily, and weighed every 10 to 14 d. Milk yield was measured at each milking. Feed DM percentage was measured daily, and nutrient composition was analyzed from a weekly composite. Milk composition was analyzed weekly, alternating between morning and evening milking periods. Estimates of RFI were determined as the difference between actual energy intake and predicted intake based on a linear model with fixed effects of parity (1, 2, ≥ 3) and regressions on metabolic BW, ADG, and energy-corrected milk yield. Heritability was estimated to be moderate (0.36 ± 0.06), and repeatability was estimated at 0.56 across lactations. A test period through 53 d in milk (DIM) explained 81% of the variation provided by a test through 90 DIM. Multiple regression analysis indicated that high efficiency was associated with less time feeding per day and slower feeding rate, which may contribute to differences in RFI among cows. The heritability and repeatability of RFI suggest an opportunity to improve feed efficiency through genetic selection, which could reduce feed costs, manure output, and greenhouse gas emissions associated with dairy production.

Technical note: Changes to herd cutoff date in conception rate evaluations.

Service-sire conception rate (SCR) evaluations were implemented for the United States in August 2008. Only inseminations from the most recent 4 yr of breeding records are used for SCR evaluations, and all inseminations must have occurred ≥ 70 d before the data submission deadline for an evaluation. In April 2012, edits for SCR were modified so that all inseminations must have occurred ≥ 70 d before the last herd test date rather than the constant date of 70 d before the data submission deadline. This edit more precisely measures the days of opportunity for a cow to be diagnosed as pregnant or not pregnant following insemination, and is herd specific. The number of inseminations before the edit change was 16,906,385 compared with 16,492,331 after the edit change. Correlations of SCR before and after the edit change were 0.96 for Holsteins and slightly lower for other breeds, with little change in mean or standard deviation. Weekly mean conception rates after the edit change were more stable for the most recent inseminations. The conception rate was 60% at wk 10 before the constant cutoff date (before edit change) compared with 42% at 10 wk before the last herd test date (after the edit change). Similar edits to SCR are applied to heifer conception rate (HCR) and cow conception rate data (CCR), and were changed in August 2012 to use herd-specific cutoff dates. The HCR and CCR correlations before and after the edit change were 0.99 or higher for all breeds, with little change in mean or standard deviation. The new edits improve accuracy of SCR, HCR, and CCR evaluations by accounting for differing opportunity to confirm pregnancy caused by discontinued testing or differences in herd testing schedules.

Factors associated with frequency of abortions recorded through Dairy Herd Improvement test plans.

Frequency of abortions recorded through Dairy Herd Improvement (DHI) testing was summarized for cows with lactations completed from 2001 through 2009. For 8.5 million DHI lactations of cows that had recorded breeding dates and were >151 d pregnant at lactation termination, the frequency of recorded abortions was 1.31%. Effects of year, herd-year, month, and pregnancy stage at lactation termination; parity; breed; milk yield; herd size; geographic region; and state within region associated with DHI-recorded abortion were examined. Abortions recorded through DHI (minimum gestation of 152 d required) were more frequent during early gestation; least squares means (LSM) were 4.38, 3.27, 1.19, and 0.59% for 152 to 175, 176 to 200, 201 to 225, and 226 to 250 d pregnant, respectively. Frequency of DHI-recorded abortions was 1.40% for parity 1 and 1.01% for parity ≥ 8. Abortion frequency was highest from May through August (1.42 to 1.53%) and lowest from October through February (1.09 to 1.21%). Frequency of DHI-recorded abortions was higher for Holsteins (1.32%) than for Jerseys (1.10%) and other breeds (1.27%). Little relationship was found between DHI-recorded abortions and herd size. Abortion frequencies for effects should be considered to be underestimated because many abortions, especially those caused by genetic recessives, go undetected. Therefore, various nonreturn rates (NRR; 60, 80, …, 200 d) were calculated to document pregnancy loss confirmed by the absence of homozygotes in the population. Breeding records for April 2011 US Department of Agriculture sire conception rate evaluations were analyzed with the model used for official evaluations with the addition of an interaction between carrier status of the service sire (embryo's sire) and cow sire (embryo's maternal grandsire). Over 13 million matings were examined using various NRR for Holstein lethal recessive traits (brachyspina and complex vertebral malformation) and undesirable recessive haplotypes (HH1, HH2, and HH3) as well as >61,000 matings for a Brown Swiss haplotype (BH1), and 670,000 matings for a Jersey haplotype (JH1). Over 80% of fertility loss occurred by 60 d after breeding for BH1, HH3, and JH1, by 80 d for HH2, by 100 d for BY, and by 180 d for HH1. For complex vertebral malformation, fertility loss increased from 40 to 74% across gestation. Association of undesirable recessives with DHI-recorded abortions ranged from 0.0% for Jerseys to 2.4% for Holsteins.

Triennial Lactation Symposium: Opportunities for improving milk production efficiency in dairy cattle.

Increasing feed costs and the desire to improve environmental stewardship have stimulated renewed interest in improving feed efficiency of livestock, including that of US dairy herds. For instance, USDA cost projections for corn and soybean meal suggest a 20% increase over 2010 pricing for a 16% protein mixed dairy cow ration in 2011, which may lead to a reduction in cow numbers to maintain profitability of dairy production. Furthermore, an October 2010 study by The Innovation Center for US Dairy to assess the carbon footprint of fluid milk found that the efficiency of feed conversion is the single greatest factor contributing to variation in the carbon footprint because of its effects on methane release during enteric fermentation and from manure. Thus, we are conducting research in contemporary US Holsteins to identify cows most efficient at converting feed to milk in temperate climates using residual feed intake (RFI), a measure used successfully to identify the beef cattle most efficient at converting feed to gain. Residual feed intake is calculated as the difference between predicted and actual feed intake to support maintenance and production (e.g., growth in beef cattle, or milk in dairy cattle). Heritability estimates for RFI in dairy cattle reported in the literature range from 0.01 to 0.38. Selection for a decreased RFI phenotype can reduce feed intake, methane production, nutrient losses in manure, and visceral organ weights substantially in beef cattle. We have estimated RFI during early lactation (i.e., to 90 d in milk) in the Beltsville Agricultural Research Center Holstein herd and observed a mean difference of 3.7 kg/d (P < 0.0001) in actual DMI between the efficient and inefficient groups (±0.5 SD from the mean RFI of 0), with no evidence of differences (P > 0.20) in mean BW, ADG, or energy-corrected milk exhibited between the 2 groups. These results indicate promise for using RFI in dairy cattle to improve feed conversion to milk. Previous and current research on the use of RFI in lactating dairy cattle are discussed, as well as opportunities to improve production efficiency of dairy cattle using RFI for milk production.

Evaluations for service-sire conception rate for heifer and cow inseminations with conventional and sexed semen.

Service-sire conception rate (SCR), a phenotypic fertility evaluation based on conventional (nonsexed) inseminations from parities 1 through 5, was implemented for the United States in August 2008. The SCR model contains the categorical fixed effects of parity for lactations 1 to 5; state-year-month of insemination group; 6 standardized milk yield groups; service number for inseminations 1 to 7; cow age; and herd-yearseason-parity-registry status class. Covariate effects for service-sire and mating inbreeding coefficients were linear regressions fit as deviations from the overall mean. Random effects included service-sire age group; AI organization-insemination year group; individual service sire; cow's genetic ability to conceive; cow's permanent environmental effect; and residual. Using insemination data from 2005 through 2009, the SCR procedure was applied separately for nulliparous heifer inseminations with conventional semen (SCR(H(conv))), cow inseminations with conventional semen (SCR(C(conv))), nulliparous heifer inseminations with sexed semen (SCR(H(sexed))), and cow inseminations with sexed semen (SCR(C(sexed))). Holstein and Jersey bulls with ≥300 and ≥200 artificial inseminations, respectively, in ≥10 herds and with ≥100 breedings during the 12 mo before evaluation were examined. The number of bulls evaluated for SCR in January 2010 was 270 Holsteins and 16 Jerseys for SCR(H(conv)) 2,309 Holsteins and 214 Jerseys for SCR(C(conv)) 114 Holsteins and 6 Jerseys for SCR(H(sexed)) and 25 Holsteins and 7 Jerseys for SCR(C(sexed)). The mean SCR for each evaluation category was set to 0; Holstein standard deviations were 2.55% for SCR(H(conv)) 2.21% for SCR(C(conv)) 4.29% for SCR(H(sexed)) and 2.39% for SCR(C(sexed)). The mean Holstein reliabilities were 82, 79, 75, and 73%, respectively. Correlations for Holstein SCR between conventional and sexed semen averaged near zero (−0.21 to 0.18). Predicted correlations between true SCR were −0.27 to 0.24. In contrast, correlations between Holstein heifers and cows were high (0.66 to 0.76), and predicted true correlations averaged near 1.0 (0.82 to 1.03). Correlations for Jerseys were often larger, although based on fewer inseminations and service sires compared with Holsteins. Some rankings for SCR could benefit from combining cow and heifer data but should be kept separate for conventional and sexed semen inseminations.

Consequence of alternative standards for bulk tank somatic cell count of dairy herds in the United States.

Noncompliance with current US and European Union (EU) standards for bulk-tank somatic cell count (BTSCC) as well as BTSCC standards recently proposed by 3 US organizations was evaluated using US Dairy Herd Improvement Association (DHI) herds and herds supplying milk to 4 Federal Milk Marketing Orders (FMO). Herds with 15 to 26 tests (frequently monthly) from January 2009 through October 2010 were included. Somatic cell scores (SCS) from 14,854 herds and 164,794 herd-tests were analyzed for DHI herds with ≥10 cows for all tests. Herd test-day SCC was derived as a proxy for BTSCC and was the basis for determining noncompliance and percentage of the milk it represented. For FMO herds, actual milk marketed and BTSCC were available from 27,759 herds and 325,690 herd-tests. A herd was noncompliant for the current EU BTSCC standard after 4 consecutive rolling 3-test geometric means (geometric method) were >400,000 cells/mL. A herd was noncompliant for the current US BTSCC standard after 3 of 5 consecutive monthly BTSCC shipments (frequency method) were >750,000 cells/mL. Alternative proposed standards (600,000, 500,000, or 400,000 cells/mL) also were examined. A third method designated noncompliance when a single 3-mo geometric mean of >550,000 or >400,000 cells/mL and a subsequent test exceeded the same level. Results were examined based on herd size or milk shipped by month. Noncompliance for the current US standard for the 12 mo ending October 2010 in DHI and FMO herds was 0.9 and 1.0%, respectively, compared with 7.8 and 16.1% for the current EU standard. Noncompliance was always greater for the frequency method than for the geometric method and was inversely related to herd size or milk shipped. Using the frequency method at 400,000 cells/mL, noncompliance was 19.1% for DHI herd-tests in herds with <50 cows compared with 1.1% for herds with ≥ 1,000 cows. For FMO herds shipping <900 t, noncompliance was 44.5% using the frequency method at 400,000 cells/mL compared with 8.0% for herds marketing >9,000 t. All methods proposed increased the percentages of herds and shipped milk that exceeded the regulatory limit. Producers will need to place more emphasis on reducing the incidence and prevalence of subclinical mastitis through known management practices such as proper milking techniques, well-functioning milking machines, postmilking teat disinfectant, dry cow treatment, and culling of problem cows to meet any of the proposed new standards.

Potential consequences of selection to change gestation length on performance of Holstein cows.

Genetic evaluations for gestation length (GL) for Holstein service sires were studied to determine their effectiveness in predicting GL in an independent data set. Consequences of selection on GL were also assessed by examining correlated changes in milk and fitness traits. Holstein bulls with ≥ 300 calvings between 1998 and 2005 were stratified into the following 7 groups using predicted transmitting ability (PTA) for service sire GL: <-3.00, -3.00 to -2.01, …, 1.00 to 1.99, and ≥ 2.00 d. An independent set of 261,598 first-parity cows mated later to the same bulls and calving between 2006 and 2009 were segregated by the service sire PTA GL groups (group had 8,317 to 73,324 gestations), and these mates' GL were examined to determine effectiveness of service sire PTA GL. The model included fixed effects for herd-year and service sire group, plus covariates for conception dates to account for time opportunity among mates. Mean GL for mates by service sire group (from lowest to highest PTA GL) were 275.3, 276.5, 277.8, 278.6, 279.5, 280.6, and 281.7 d. Thus, service sire PTA GL was effective in identifying bulls that modified GL. Subsequent yield and fitness traits were also examined for the (independent) mates with the same service sire groups. Intermediate service sire PTA GL was optimal for yield traits and days open; performance for productive life and culling generally became less favorable as service sire PTA GL increased. A second examination was made by replacing service sire PTA GL groups in the model with phenotypic cow GL groups. Relationships between GL and subsequent performance for milk yield and fitness traits were examined using 9 phenotypic cow GL groups: ≤ 271, 272-273, …, 284-285, and ≥ 286 d. Performance generally improved for subsequent lactation yield as cow GL increased; however, intermediate GL was optimal for productive life, calving ease, stillbirth, culling, and days open. Results indicated that neither shortening nor increasing the mean for GL in the Holstein breed provided much overall benefit when all traits were considered. The same traits examined in the cows for the correlated effect from various GL were also examined in their offspring to determine whether the GL producing the calf had any influence on these same traits when the offspring reached their own productive period. Little carryover occurred from GL on the dam to the other traits observed on the offspring when examined a generation later.

Use of sexed semen and its effect on conception rate, calf sex, dystocia, and stillbirth of Holsteins in the United States.

Use of sexed semen for artificial insemination of US Holstein heifers (1.3 million breedings) and cows (10.8 million breedings) in Dairy Herd Improvement herds was characterized by breeding year, parity, service number, region, herd size, and herd milk yield. Sexed semen was used for 1.4, 9.5, and 17.8% of all reported breedings for 2006, 2007, and 2008, respectively, for heifers, and for 0.1, 0.2, and 0.4%, respectively, for cows. For 2008 sexed semen breedings, 80.5 and 68.6% of use was for first services of heifers and cows, respectively. For cows, 63.1% of 2008 sexed semen use was for first parity. Mean sexed semen use within herd was the greatest for heifers in the Southwest (36.2%) and for cows in the Mideast (1.3%). Mean sexed semen use increased for heifers but changed little for cows as either herd size or herd mean milk yield increased. Availability of sexed semen was examined for Holstein bulls in active AI service; of 700 bulls born after 1993, 37% had sexed semen marketed by mid August 2009. Active AI bulls with marketed sexed semen were superior to average active AI bulls for evaluations of yield traits, productive life, somatic cell score, daughter pregnancy rate, service-sire calving ease, service-sire stillbirth, final score, sire conception rate, and lifetime net merit. The effect of sexed semen use on conception rate, calf sex, dystocia, and stillbirth also was examined for heifers and cows. Mean conception rate for heifers was 56% for conventional and 39% for sexed semen; corresponding conception rates for cows were 30 and 25%. For single births from sexed semen breedings, around 90% were female. Dystocia and stillbirth were more frequent for heifers (6.0 and 10.4%, respectively, for conventional semen; 4.3 and 11.3%, respectively, for sexed semen) than for cows (2.5 and 3.6%, respectively, for conventional semen; 0.9 and 2.7%, respectively, for sexed semen). Difficult births declined by 28% for heifers and 64% for cows with sexed semen use. Stillbirths were more prevalent for twin births except for sexed semen heifer breedings. Stillbirths of single male calves of heifers were more frequent for breedings with sexed semen (15.6%) than conventional semen (10.8%); a comparable difference was not observed for cows, for which stillbirth frequency of single male calves even decreased (2.6 vs. 3.6%). Overall stillbirth frequency was reduced by sexed semen use for cows but not for heifers.

Response to alternative genetic-economic indices for Holsteins across 2 generations.

Four US genetic-economic indices for dairy cattle were retrofitted to illustrate differences in phenotypic response observed for retrospective selection over 2 generations for currently evaluated traits, even though producers did not have evaluations available at the time for direct selection for those traits. Differences among cows were compared based on ranking of their sires and maternal grandsires (MGS) for the 4 retrofitted indices. Holstein artificial insemination bulls (106,471) were categorized by quintile for each index, and 25 cow groups were formed based on quintiles for sire and MGS (2 generations). Data included records from 1,756,805 cows in 26,106 herds for yield traits, productive life, pregnancy rate, and somatic cell score; 692,656 cows in 9,967 herds for calving difficulty; and 270,564 cows in 4,534 herds for stillbirths. For each index, least squares differences between the 25 cow groups were examined for 8 first-parity traits (milk, fat, and protein yields; productive life; somatic cell score; pregnancy rate; calving difficulty; and stillbirth) that had been standardized for age. Analysis removed effects of herd and cow birth year. Seven of 25 cow groups were consolidated into 3 groups based on index ranking for their male ancestors (low, medium, and high). The cow group with high sire and MGS rankings for the 2006 net merit index produced more milk (219 kg), fat (21 kg), and protein (11 kg) and had longer productive life (6.3 mo), lower somatic cell score (0.21), higher pregnancy rate (1.2 percentage units), fewer difficult births in heifers (3.8 percentage units), and lower stillbirth rate (4.6 percentage units) than did the group with low sire and MGS rankings. For cow groups based on sire and MGS rankings for 1971 (milk and fat) and 1977 (milk, fat, and protein) indices, advantages for the group with high sire and MGS rankings were much larger for yield traits but smaller (and sometimes even unfavorable) for other traits. Cow groups based on sire and MGS rankings for the 1994 net merit index generally had differences that were intermediate to groups based on sire and MGS rankings for the 1977 and 2006 indices. Phenotypic differences revealed retrospectively between genetic-economic indices indicate that genetic improvement should be made for all traits included in recent net merit indices.

Reproductive status of Holstein and Jersey cows in the United States.

Reproductive information since 1995 from the USDA national dairy database was used to calculate yearly Holstein and Jersey means for days to first breeding after calving (DFB), 70-d nonreturn rate, conception rate (CR), number of breedings per lactation (NB), interval between first and last breedings during the lactation, days to last breeding after calving (DLB), pregnancy rate (PR), calving interval (CI), and interval between consecutive breedings. Data were from nearly 20 million breedings during >8 million lactations of >5 million cows in >23,000 herds. Means were also calculated for some traits by parity and breeding number for both breeds and by geographical region and synchronization status for Holsteins. The DFB declined for Holsteins from 92 d in 1996 to 85 d in 2007; the trend in yearly differences was not as consistent for Jerseys. First- and all-breeding 70-d nonreturn rate declined 5 to 9 percentage units over time. First- and all-breeding CR declined 2 to 4 percentage units. The DFB were longer for later parities of Holsteins than for early parities. Second- and third-breeding CR were sometimes 1 to 2 percentage units above first-breeding CR for Holsteins but lower (1 to 7 percentage units) for Jerseys. The CR within breeding number declined across parities for both breeds. The NB increased by 0.3 to 0.4 breedings over time but remained constant (2.5 or 2.6 breedings) across parities for Holsteins and increased (from 2.2 to 2.4 breedings) for Jerseys. Holstein DFB were fewest in the Northwest (78 d) and greatest in the Mountain region (92 d). Regional CR was highest for the Northeast and Southwest (33%) and lowest for the Southeast (26%); NB was fewest for the Northeast (2.3) and greatest for the Southeast (2.7). Mean DLB was fewest for the Southwest (127 d) and greatest for the Mountain region (157 d); CI was shortest for the Southwest (406 d) and longest for the Mideast (434 d). Mean PR was highest for the Southwest (28.3%) and lowest for the Mideast and Southeast (22.2%). Use of timed artificial insemination following synchronized estrus appears to have reduced DFB, lowered CR, and increased NB while reducing DLB and CI. However, synchronized breeding was not a primary cause of Holstein regional differences for reproductive traits. Since 2002, phenotypic performance for CR, DLB, and CI as well as genetic merit for daughter PR have stopped their historical declines and started to improve.

Impact of genetic merit for milk somatic cell score of sires and maternal grandsires on herd life of their daughters.

A retrospective study of the impact of the estimated breeding values of sires and maternal grandsires for somatic cell score (SCS) on productive life (PL) of Holsteins and Jerseys was conducted. Data included records from 2,626,425 Holstein and 142,725 Jersey cows. The sires and maternal grandsires of cows were required to have been available through artificial insemination and to have predicted transmitting ability (PTA) SCS evaluations based on 35 or more daughters. A weighted function (WPTA) of sire and maternal grandsire PTA for SCS was used: (sire PTA + 0.5 maternal grandsire PTA)/1.5. The 3 dependent variables were PL, frequency of cows culled for mastitis, and first-lactation SCS. The model included effects of herd, birth year, and WPTA (WPTA was categorized into groups: <2.70, 2.70 to 2.79, ..., 3.20 to 3.29, > or =3.30). For analysis of first-lactation SCS, calving year and calving month were substituted for birth year. Differences among WPTA groups were highly significant: as WPTA increased, PL decreased, whereas percentage culled for mastitis and first-lactation SCS increased. The range in PL from lowest to highest WPTA was 5.07 mo for Holsteins and 4.73 mo for Jerseys. Corresponding differences for percentage culled for mastitis were 7.0 and 5.6% and for SCS were 0.95 and 1.04 (for Holsteins and Jerseys, respectively). Although phenotypic studies suggest that cows with extremely low SCS were less resistant to mastitis, our results showed consistent improvements in PL, percentage culled for mastitis, and SCS of daughters when bulls were chosen for low PTA SCS.

Genetic and environmental factors that affect gestation length in dairy cattle.

Genetic and environmental factors that might affect gestation length (GL) were investigated. Data included information from >11 million parturitions from 1999 through 2006 for 7 US dairy breeds. Effects examined were year, herd-year, month, and age within parity of conception; parturition code (sex and multiple-birth status); lactation length and standardized milk yield of cow; service sire; cow sire; and cow. All effects were fixed except for service sire, cow sire, and cow. Mean GL for heifers and cows, respectively, were 277.8 and 279.4 d for Holsteins, 278.4 and 280.0 d for Jerseys, 279.3 and 281.1 d for Milking Shorthorns, 281.6 and 281.7 d for Ayrshires, 284.8 and 285.7 d for Guernseys, and 287.2 and 287.5 d for Brown Swiss. Estimated standard deviations of GL were greatly affected by data restrictions but generally were approximately 5 to 6 d. Year effects on GL were extremely small, but month effects were moderate. For Holstein cows, GL was 2.0 d shorter for October conceptions than for January and February conceptions; 4.7 and 5.6 d shorter for multiple births of the same sex than for single-birth females and males, respectively; 0.8 d longer for lactations of < or =250 d than for lactations of > or =501 d; and 0.6 d shorter for standardized yield of < or =8,000 kg than for yield of > or =14,001 kg. Estimates for GL heritability from parities 2 to 5 were 33 to 36% for service sire and 7 to 12% for cow sire; corresponding estimates from parity 1 were 46 to 47% and 10 to 12%. Estimates of genetic correlations between effects of service sire and cow sire on GL were 0.70 to 0.85 for Brown Swiss, Holsteins, and Jerseys, which indicates that those traits likely are controlled by many of the same genes and can be used to evaluate each other. More accurate prediction of calving dates can help dairy producers to meet management requirements of pregnant animals and to administer better health care during high-risk phases of animals' lives. However, intentional selection for either shorter or longer GL is not recommended without consideration of its possible effect on other dependent traits (e.g., calving ease and stillbirth).

Alternatives for examining daughter performance of progeny-test bulls between official evaluations.

In August 2007, the USDA changed from calculating official genetic evaluations quarterly to triannually in conjunction with the schedule change for international evaluations. To offset part of the delay in providing genetic information because of the reduced frequency of official evaluations, industry cooperators requested that interim evaluations be initiated for progeny-test (PT) bulls based on first-lactation records from PT daughters and their contemporaries that calved recently in cooperator herds. Alternatives for interim evaluations were studied to determine which would characterize genetic merit of PT bulls most accurately. Four alternative Holstein data sources were examined based on maximum data interval (most recent 12 or 18 mo of first calvings) and minimum number of PT daughters in herd (> or =1 or > or = 5). The highest correlation between August 2006 interim and official evaluations for milk yield was 0.980 for interim evaluations based on the most recent 18 mo of first calvings from cooperator herds with > or =1 PT daughter. That high correlation confirmed that interim evaluations based on limited data could provide genetic estimates of value between official evaluations. With the support of the Council on Dairy Cattle Breeding, the USDA initiated 3 interim evaluations each year with release limited to PT bulls with > or =10 daughters and an increase in reliability since the most recent official evaluation.

Death losses for lactating cows in herds enrolled in dairy herd improvement test plans.

Factors that affect frequency of death of lactating cows were studied for cows with records that terminated from 1995 through 2005. Analyses included effects of herd, year, month, parity, and lactation stage at lactation termination as well as cow breed and milk yield. A national data set (15,025,035 lactations in 45,032 herds) was analyzed with PROC GLM. Overall death frequency was 3.1% per lactation (5.7% per cow). Death frequency increased by 1.6% from 1995 to 2005, with a sudden increase of 0.9% from 2003 to 2004, probably because of a USDA requirement in late 2003 for euthanizing downer cows. Death frequency was 16.5% greater for lactations that terminated at or=251 d. Death frequency increased with parity (2% greater for eighth parity and later than for first parity) and with lactation milk yield (0.4%/1,000 kg for Holsteins and Jerseys and 0.5%/1,000 kg for other breeds). Deaths were most frequent in July and least frequent in November. Within-herd breed differences (Holstein, Jersey, and other breeds) were small. The heritability of likelihood of death estimated from a sample of 79,162 Holstein cows was 1.3%. Death losses are increasing, perhaps partly because of increased milk yield and more intensive management regimens.