Identification of genomic regions related to age at first calving and first calving interval in water buffalo using single-step GBLUP

In Brazil, water buffaloes have been used to produce milk for mozzarella cheese production. Consequently, the main selection criterion applied for the buffalo genetic improvement is the estimated mozzarella yield as a function of milk, fat and protein production. However, given the importance of reproductive traits in production systems, this study aimed to use techniques for identifying genomic regions that affect the age at first calving (AFC) and first calving interval (FCI) in buffalo cows and to select candidate genes for the identification of QTL and gene expression studies. The single-step GBLUP method was used for the identification of genomic regions. Windows of 1 Mb containing single-nucleotide polymorphisms were constructed and the 10 windows that explained the greatest proportion of genetic variance were considered candidate regions for each trait. Genes present into the selected windows were identified using the UOA_WB_1 assembly as the reference, and their ontology was defined with the Panther tool. Candidate regions for both traits were identified on BBU 3, 12, 21 and 22; for AFC, candidates were detected on BBU 6, 7, 8, 9 and 15 and for first calving interval on BBU 4, 14 and 19. This study identified regions with great contribution to the additive genetic variance of age at first calving and first calving interval in the population of buffalo cows studied. The ROCK2, PMVK, ADCY2, MAP2K6, BMP10 and GFPT1 genes are main candidates for reproductive traits in water dairy buffaloes, and these results may have future applications in animal breeding programs or in gene expression studies of the species.     

Genetic associations between age at first calving and heifer body weight and scrotal circumference in Nelore cattle

Age at first calving (AFC) measures the entry of heifers into the beef cattle production system. This trait can be used as a selection criterion for earlier reproductive performance. Using data from Nelore cattle participating in the 'Program for Genetic Improvement of the Nelore Breed' (PMGRN-Nelore Brazil), bi-trait analyses were performed using the restricted maximum likelihood method, based on an AFC animal model and the following traits: female body weight adjusted to 365 (BW365) and 450 (BW450) days of age, and male scrotal circumference adjusted to 365 (SC365), 450 (SC450), 550 (SC550) and 730 (SC730) days of age. The heritability estimates for AFC ranged from 0.02 ± 0.02 to 0.04 ± 0.02. The estimates of additive direct heritabilities (with standard error) for BW365, BW450, SC365, SC450, SC550 and SC730 were 0.36 ± 0.07, 0.38 ± 0.07, 0.48 ± 0.07, 0.65 ± 0.07, 0.64 ± 0.07 and 0.42 ± 0.07, respectively, and the genetic correlations with AFC were −0.38, −0.33, 0.10, −0.13, −0.13 and 0.06, respectively. In the herds studied, selection for SC365, SC450, SC550 or SC730 should not cause genetic changes in AFC. Selection based on BW365 or BW450 would favor smaller AFC breeding values. However, the low magnitude of direct heritability estimates for AFC in these farms indicates that changes in phenotypical expression depend mostly on non-genetic factors.     

Estimation of genetic and phenotypic relationships between age at first calving and productive performance in Iranian Holsteins

Calving records from the Animal Breeding Center of Iran collected from January 1990 to December 2007 and comprising 207,106 first calving events of Holsteins from 2,506 herds were analysed using univariate and bivariate linear sire models to estimate heritabilities and genetic correlations between age at first calving (AFC) and productive performance. Average AFC was 26.48 months in this study. The peak in the frequency distribution of AFC clearly exists coinciding with cows calving for the first time at approximately 25 months of age. Heritability estimate for AFC was 0.34 which was greater than the corresponding values for productive traits. The heritability estimates were low to medium for productive traits which ranged from 0.17 to 0.26 for cows in their first calvings. Except for fat and protein percentages of milk, phenotypic and genetic correlations between AFC and productive performance traits were low to moderately negative. Range of genetic correlations between productive traits was −0.53 to 0.99. Reduction of age at first calving appeared to have a negative effect on first lactation protein and fat percentages; however, it had positive effects on milk yield, fat yield, protein yield and their mature equivalents. It seems that reducing age at first calving to 24–25 months is probably more profitable than reducing age at first calving to an earlier time in Iranian conditions.     

Genotype–environment interaction for age at first calving in buffaloes,using the reaction norm model

The objective of this study was to evaluate the genotype–environment interaction effect on age at first calving in buffaloes. The records were analysed using two approaches: (a) standard animal model and (b) reaction norm model. For the reaction norm analysis, two environmental gradients were formed, using age of first calving or milk yield group contemporary average. The results showed differences in the heritability estimates when using the two approaches. The reaction norm model indicated high heritability in more favourable environments and low magnitude genetic correlations between extreme environments. Based on our findings, we verified the significance of the genotype–environment interaction effect on age at first calving in buffaloes.     

Genetic parameters for birth weight,weaning weight and age at first calving in Brown Swiss cattle in Mexico

Heritabilities and genetic correlations between birth weight (n = 13,741), adjusted 240-day weaning weight (WW, n = 8,806) and age at first calving (AFC, n = 3,955) of Brown Swiss cattle in Mexico were estimated. Data from 91 herds located in 19 of 32 states of Mexico from 1982 to 2006 were provided by the Mexican Brown cattle Breeder Association. Components of (co)variance, direct and maternal heritabilities were estimated for birth weight, WW and AFC using bivariate animal models. Direct and maternal heritabilities were 0.21 and 0.05 for birth weight, 0.40 and 0.05 for WW, whereas direct heritability for AFC was 0.08. The correlations between direct and maternal effects for birth weight and WW were −0.49 and −0.64, respectively. The genetic correlations between birth weight–WW and WW–AFC were 0.36 and −0.02, respectively. Under the conditions of this study, selection for increasing birth weight would increase WW, but increasing WW will not change AFC.     

Genetic parameters and trends for calving interval in the first three lactations of Iranian Holsteins

Calving records from the Animal Breeding Center of Iran collected from January 1987 to December 2007 and comprising 292,875 calving events of Holsteins from 1,413 dairy herds were analyzed using univariate and bivariate linear animal models to estimate heritabilities and genetic correlations for calving intervals in the first three lactations of Holstein cows. Genetic trends were obtained by regressing yearly mean estimates of breeding values on calving year. Average calving intervals were from 406 to 414 days and decreased over the parities. Heritability estimates for calving intervals varied from 0.03 to 0.04 across the parities. Also, estimates of genetic correlations between calving intervals in different parities were high and ranged from 0.67 to 0.89. The average annual phenotypic trends obtained from fitting linear regression of annual mean calving intervals at parity 1 and 2 were significant (P < 0.01), but the phenotypic trend of calving interval at parity 3 was not significant over the years. On the other hand, there was an increasing genetic trend for calving interval at parity 1, and there were decreasing genetic trends for calving intervals at parity 2 and 3 over the years (P < 0.01). The low estimates of heritability obtained in this study imply that much of the improvement in calving interval traits could be attained by improvement of production environment rather than genetic selection.     

Genetic parameters and relationships of heifer pregnancy and age at first calving with weight gain, yearling and mature weight in Nelore cattle

The objectives of the current study were to investigate the additive genetic associations between heifer pregnancy at 16 months of age (HP16) and age at first calving (AFC) with weight gain from birth to weaning (WG), yearling weight (YW) and mature weight (MW), in order to verify the possibility of using the traits measured directly in females as selection criteria for the genetic improvement of sexual precocity in Nelore cattle. (Co)variance components were estimated by Bayesian inference using a linear animal model for AFC, WG, YW and MW and a nonlinear (threshold) animal model for HP16. The posterior means of direct heritability estimates were: 0.45 ± 0.02; 0.10 ± 0.01; 0.23 ± 0.02; 0.36 ± 0.01 and 0.39 ± 0.04, for HP16, AFC, WG, YW and MW, respectively. Maternal heritability estimate for WG was 0.07 ± 0.01. Genetic correlations estimated between HP16 and WG, YW and MW were 0.19 ± 0.04; 0.25 ± 0.06 and 0.14 ± 0.05, respectively. The genetic correlations of AFC with WG, YW and MW were low to moderate and negative, with values of − 0.18 ± 0.06; − 0.22 ± 0.05 and − 0.12 ± 0.05, respectively. The high heritability estimated for HP16 suggests that this trait seem to be a better selection criterion for females sexual precocity than AFC. Long-term selection for animals that are heavier at young ages tends to improve the heifers sexual precocity evaluated by HP16 or AFC. Predicted breeding values for HP16 can be used to select bulls and it can lead to an improvement in sexual precocity. The inclusion of HP16 in a selection index will result in small or no response for females mature weight.     

An analysis of mortality in the grower/finisher phase of swine production in the United States

Over a 6-month period, the mean mortality risk (based on 393 operations participating in the United States National Animal Health Monitoring System 1995 National Swine Study, and representing operations with ≥ 300 market hogs in 16 states), was 2.3 ± 0.2% in the grower/finisher production phase (where figures after the ± represent the standard error of the estimate). Mortality ≥ 4% was experienced by 13.5 2.9% of grower/finisher operations, while 63.6 ± 5.3% had ≤ 2% mortality. To identify factors associated with ≥ 4% mortality, stepwise logistic regression [Statistical Analysis Systems, (1989). SAS/STAT^® User's Guide, Version 6, 4th edn, Vol. 2. SAS Institute, Cary, NC, 794 pp.]was performed twice: once using operations with all mortality rates, and again excluding operations with between 2% and 4% mortality. Final models were run with SUDAAN [Shah, B.V., Barnwell, B.G., Bieler, G.S., (1996). SUDAAN User's Manual, Version 6.40, 2nd edn. Research Triangle Institute, Research Triangle Park, NC, 492 pp.] to take the sample design into account. In addition, SAS and SUDAAN logistic regression models were developed to analyze factors associated with > 2.3% mortality among grower/finisher pigs. Mean weaning age ≤ 28 days entered all models as being associated with increased mortality in the grower/finisher unit. Not obtaining all grower/finisher pigs from farrowing units belonging to the operation was associated with ≥ 4% mortality among grower/finisher swine. Not typically giving grower/finisher pigs antibiotics or other agents as disease-preventives or growth-promotants in the feed or water, and ranking producer organizations as very or extremely important sources of antibiotic information were associated with ≤ 2.3% mortality in the grower/finisher phase.     

Genetic parameters and genetic trends for age at first calving and calving interval in an Angus-Blanco Orejinegro-Zebu multibreed cattle population in Colombia

Genetic parameters and genetic trends for age at first calving (AFC), interval between first and second calving (CI1), and interval between second and third calving (CI2) were estimated in a Colombian beef cattle population composed of Angus, Blanco Orejinegro, and Zebu straightbred and crossbred animals. Data were analyzed using a multiple trait mixed model procedures. Estimates of variance components and genetic parameters were obtained by Restricted Maximum Likelihood. The 3-trait model included the fixed effects of contemporary group (year-season of calving-sex of calf; sex of calf for CI1 and CI2 only), age at calving (CI1 and CI2 only), breed genetic effects (as a function of breed fractions of cows), and individual heterosis (as a function of cow heterozygosity). Random effects for AFC, CI1, and CI2 were cow and residual. Program AIREMLF90 was used to perform computations. Estimates of heritabilities for additive genetic effects were 0.15 ± 0.13 for AFC, 0.11 ± 0.06 for CI1, and 0.18 ± 0.11 for CI2. Low heritabilities suggested that nutrition and reproductive management should be improved to allow fuller expressions of these traits. The correlations between additive genetic effects for AFC and CI1 (0.33 ± 0.41) and for AFC and CI2 (0.40 ± 0.36) were moderate and favorable, suggesting that selection of heifers for AFC would also improve calving interval. Trends were negative for predicted cow yearly means for AFC, CI1, and CI2 from 1989 to 2004. The steepest negative trend was for cow AFC means likely due to the introduction of Angus and Blanco Orejinegro cattle into this population.     

Effects of calving age, breed fraction and month of calving on calving interval and survival across parities in Irish spring-calving dairy cows

The objective of this study was to investigate the effect of parity, age at calving, percentage North American Holstein-Friesian and calving date on subsequent calving interval and survival to facilitate the estimation of transition probabilities for month of calving. The economic value of traits that influence calving date, age distribution and survival can be assessed in models using a transition probability matrix. Such a matrix contains the probabilities that a cow of a particular age or breed calving in a particular month will calve in the same, an earlier or later month next year, or be culled. Following editing 1,046,855 calving records in spring-calving herds between the years 1990 and 2004 were analysed. Shorter calving intervals were associated with cows calving later in the calendar year. Age at first calving of < 24 months resulted in longer calving intervals to second calving across all levels of Holstein percentage with cows calving for the first time at 25–26 months of age having the shortest subsequent calving interval. Age at second calving of 37–38 months and third calving of 49–50 months were optimum for shorter subsequent calving intervals. Calving interval increased with Holstein percentage across the first 5 parities. Survival rate decreased with later month of calving and with older parities. When survival rate was measured as the ability of the cow to re-calve within 500 days, the highest survival rate was found in cows calving at 25–26 months of age whereas there was a noticeable reduction in survival across all parities in the 88–100% Holstein percent category.     

Milk yield, age at first calving, and the risk of BSE: an analysis at the farm level in France

The epidemic of bovine spongiform encephalopathy (BSE) in France, as in the UK, has affected dairy cattle much more than beef cattle. However, the intensification of dairy herd management as a risk factor for BSE has not to date been analyzed. For this purpose, two databases were merged: the French Milk Records database, and the French BSE database, which can be considered as being devoid of notification bias since July 2001, when systematic tests were implemented. Only pure Holstein herds were considered, which represent the vast majority of total and BSE-affected dairy herds in France. A case-control study was designed so that 20 control herds were matched to each case herd according to the location of the farm and the year of birth of the index case. Three thousand and forty five farms were included, among which 145 with a BSE case notified between July 2001 and July 2003, and 2900 controls. With respect to the risk of BSE, odds ratios for each class of milk yield and age at first calving were estimated by using conditional logistic regression models with appropriate adjustments to herd size. The two main results were the following: firstly, whereas most Holstein herds, with average production between 7000 and 10,000kg, had nearly the same BSE risk, a small category of very intensive herds, with annual milk yields above 10,000kg, were significantly more at risk than the other herds. Secondly, a very early first calving (under 26 months of age) was found to be at risk for BSE as compared to other categories, independently of the milk yield. These results are discussed in the light of the known age-dependent susceptibility to BSE.     

Predictive ability of models for calving difficulty in US Holsteins

The performance of alternative threshold models for analyzing calving difficulty (CD) in Holstein cows was evaluated in terms of predictive ability. Four models were considered, with CD classified into either three or four categories and analysed either as a single trait or jointly with gestation length (GL). The data contained GL and CD records from 90 393 primiparous cows, sired by 1122 bulls and distributed over 935 herd-calving year classes.
Predictive ability of each model was evaluated using four criteria: mean squared error of the difference between observed and predicted CD scores; a Kullback-Leibler divergence measure between the observed and predicted distributions of CD scores; Pearson's correlation between observed and predicted CD scores and ability to correctly classify bulls as above or below average for incidence of CD.
In general, the four models had similar predictive abilities. The joint analysis of CD with GL produced little, if any, improvement in predictive ability over univariate models. In light of the small difference in predictive ability between models treating CD with three or four categories and considering that a greater number of categories can provide more information, analysis of CD classified into four categories seems warranted.     

Sire marbling score expected progeny difference and weaning weight maternal expected progeny difference associations with age at first calving and calving interval in Angus beef cattle.

Field records from the American Angus Association were used to study the associations of sire marbling score EPD and sire weaning weight maternal (milk) EPD with age at first calving (AFC) and calving interval (CI). Cows were selected based on the accuracy of their sire's milk (> or =.7) or marbling (> or =.6) EPD. The data were screened using biological constraints, and regression models were used to identify records that were greater than 5 SD from the mean. The AFC was modeled for both milk and marbling data sets to account for effects of year, sire EPD, and their interaction. The CI was subdivided into first, second, and mature calving interval traits and modeled to account for state, year, calf sex, calf birth weight (BW), calf weaning weight (WW), sire EPD, and interactions of EPD with year and state. Derivative-free REML was used to estimate heritability and genetic correlations for AFC and CI. Sire milk EPD and marbling EPD were predictors of AFC (P < .001); however, pooled estimates were unreliable because of state x EPD interactions (P < .001). Increases in sire milk EPD resulted in reductions in AFC; however, there was no consistent pattern to effects of marbling EPD increases. Models accounted for < 8% of variation in AFC. Sire milk EPD was not a predictor of first, second, or mature CI (P > .1). Sire marbling score EPD was not a predictor of second, or mature CI (P > .1); however, it was associated (P = .059) with first CI, although regression estimates varied across states and prevented pooling. The BW, sex, and WW were predictors of CI (P < .001). Increases in BW resulted in longer mature CI, and mature CI decreased as WW increased. The AFC was heritable (.22), and CI traits had heritabilities ranging from .01 to .03. The AFC was genetically correlated with first CI (-.6) and mature CI (-.93). Genetic correlations between CI traits were uninterpretable because of low additive genetic variances. In conclusion, sire marbling score and milk EPD do not seem to be reliable predictors of AFC or CI. The BW and WW have significant but small effects on AFC and CI. Selection for AFC is possible, but earlier calving heifers may have longer calving intervals.     

Effects of strategic helminthosis control on age at first lambing and lambing interval of communally grazed Menz ewes in Ethiopia

A three-year longitudinal study was conducted to evaluate effects of strategic anthelmintic treatment regimes on age at first lambing (AFL), weight at first lambing (WFL) and lambing interval (LI) of 356 communally grazed ewes and 675 lambs owned by 10 smallholder farmers in the central highlands of Ethiopia. The ewes were stratified by weight and randomly allocated to three treatment groups as untreated control (TG1), twice-dosed per year (TG2) for both nematodes and trematodes in mid-January and mid-June and four-time-dosed per year (TG3) in June for nematodes, in August–September for nematodes and adult Fasciola, in November–December and January–February for immature flukes. The fixed effect of anthelmintic treatments, parity, season and year of lambing on AFL and LI was evaluated. Mean ± standard error (SE) of lambing interval was 292 ± 3 days. Both anthelmintic treatments (TG2 and TG3) shortened (P < 0.01) LI by about 23 days compared to non-treated ewes (TG1). Season and year of lambing had a significant (P < 0.001) effect on LI. Mean ± SE of AFL and WFL was 598 ± 10 days and 17.2 ± 1.37 kg, respectively. Anthelmintic treatments and parity of dam of the ewe lamb did not affect AFL (P > 0.05). Birth and lambing seasons of the ewe lamb had significant (P < 0.05) effect on AFL. On the other hand, lambing season of the ewe had significant (P < 0.05) effect on WFL. Ewe lambs born in the long rains lambed more than 50 days earlier than the ewe lambs born in short rainy and dry seasons. Lambing occurred year-round with two peaks in August–September and December–January, each 5 months after the two rainy seasons. Anthelmintic treatment at the beginning of the two rainy seasons should improve reproductive performance of Menz ewe lambs in similar agro-ecology in the central highlands of Ethiopia.     

Predicting the start of calving in Japanese Black cattle using camera image analysis

This study assessed the feasibility of using camera image analysis to detect behavioral changes as an indicator of the onset of calving in Japanese Black cattle. Thirty-five pregnant cattle individually housed in pens were used and were continuously monitored using a digital camera system. For the automatic determination of the x and y coordinates of a cow, trajectory analysis was conducted using thermal image and analysis software, and the distances moved were calculated using coordinate data. Further, the frequency of postural changes and the time spent tail raising per hour were measured for 14 cows using visible images. The measurement data were used to calculate hourly data for 12 h prior to amniorrhexis (first rupture of the allantoic sac). The hourly distances moved tended to increase at the time of amniorrhexis, with significantly longer distances measured 3–0 h before amniorrhexis than those at 12–8 h before amniorrhexis (P < 0.05). In all cows, amniorrhexis occurred within 11 h of hourly distances moved by more than 50% compared with distance moved the previous hour. The overall average elapsed time before amniorrhexis was 9 h 30 min (range: 5–11 h). Tail raising time and the frequency of postural changes significantly increased at 1–0 h and 2–0 h before amniorrhexis, respectively. This suggests that predicting the time of calving is possible by measuring the activity of Japanese Black cows during late pregnancy using camera image analysis as a non-invasive technique.     

Effect of calflhood morbidity on age at first calving in New York Holstein herds

The effect of calhood morbidity on age at first calving was investigated in 948 heifer calves in 21 herds in the vicinity of Cornell University. Heifers were born from July 1983 to April 1985 and neither died nor were sold prior to 90 days of age. All calvings occurred on or before 31 May 1987.

The specific calfhood morbidity variables of interest were the first occurrences of the following clinical signs as diagnosed by farmers on check-off forms: scours/diarrhea within 14 days of birth and from 15 to 90 days of age; dull, listless, droopy ears, or off of feed within 90 days of birth; cough, runny nose or eyes, or trouble with breathing within 90 days of birth. The Kaplan-Meier product-limit life-table technique and Cox's proportional hazards model were used to evaluate the effect of calfhood morbidity on the age distribution of first calving. Season and year of birth were included (forced) into the Cox's proportional hazards model as possible confounding variables. The model was stratified on herd (allowing a different survival function for each herd) in order to account for herd effects.

The final Cox's proportional hazards model included season and year of birth, signs of respiratory illness within 90 days of birth and dullness within 90 days of birth. Heifers without respiratory illness as calves were twice as likely subsequently to calve and calved 6 months earlier when compared to those with respiratory illness as calves. Heifers with dullness as calves were 1.6 × more likely to calve and calved 2 months earlier when compared to calves without dullness as calves.