Multi-level mixed models for evaluating factors affecting the mortality and weaning weight of piglets in large-scale commercial farms in central China

Whole-herd risk factors associated with wean-to-finish mortality under the conditions of a Midwestern USA swine production system

Swine wean-to-finish (W2F) mortality is a multifactorial, dynamic process and a key performance indicator of commercial swine production. Although swine producers typically capture the relevant data, analysis of W2F mortality risk factors is often hindered by the fact that, even if data is available, they are typically in different formats, non-uniform, and dispersed among multiple unconnected databases. In this study, an automated framework was created to link multiple data streams to specific cohorts of market animals, including sow farm productivity parameters, sow farm and growing pig health factors, facilities, management factors, and closeout data from a Midwestern USA production system. The final dataset (master-table) contained breeding-to-market data for 1,316 cohorts of pigs marketed between July 2018 and June 2019. Following integration into a master-table, continuous explanatory variables were categorized into quartiles averages, and the W2F mortality was log-transformed, reporting geometric mean mortality of 8.69 % for the study population. Further, univariate analyses were performed to identify individual variables associated with W2F mortality (p < 0.10) for further inclusion in a multivariable model, where model selection was applied. The final multivariable model consisted of 13 risk factors and accounted for 68.2 % (R²) of the variability of the W2F mortality, demonstrating that sow farm health and performance are closely linked to downstream W2F mortality. Higher sow farm productivity was associated with lower subsequent W2F mortality and, conversely, lower sow farm productivity with higher W2F mortality e.g., groups weaned in the highest quartiles for pre-weaning mortality and abortion rate had 13.5 %, and 12.5 %, respectively, which was statistically lower than the lowest quartiles for the same variables (10.5 %, and 10.6 %). Moreover, better sow farm health status was also associated with lower subsequent W2F mortality. A significant difference was detected in W2F mortality between epidemic versus negative groups for porcine reproductive and respiratory syndrome virus (15.4 % vs 8.7 %), and Mycoplasma hyopneumoniae epidemic versus negative groups (13.7 % vs 9.9 %). Overall, this study demonstrated the application of a whole-herd analysis by aggregating information of the pre-weaning phase with the post-weaning phase (breeding-to-market) to identify and measure the major risk factors of W2F mortality.

Evaluation of direct and maternal responses in reproduction traits based on different selection strategies for postnatal piglet survival in a selection experiment

BACKGROUND

Postnatal piglet survival is important both in economic and animal welfare terms. It is influenced by the piglet's own direct genetic effects and by maternal genetic effects of the dam, associated with milk production and mothering abilities. These genetic effects might be correlated, affected by other non-genetic factors and unfavourably associated with other reproduction traits such as litter size, which makes the development of optimal breeding strategies a challenge. To identify the optimum selection strategy for piglet survival, a selection experiment was carried out to compare responses in survival and reproduction traits to selection on only direct, only maternal, or both genetic effects of postnatal survival. The data of the experiment were recorded from outdoor reared pigs, with first- and second-generation sires selected based on their estimated breeding values for maternal and direct effects of postnatal survival of indoor reared offspring, respectively, with the opportunity to identify potential genotype-by-environment interaction.

RESULTS

A Bayesian multivariate threshold-linear model that was fitted to data on 22,483 piglets resulted in significant (Pr(h2 > 0) = 1.00) estimates of maternal and direct heritabilities between 0.12 and 0.18 for survival traits and between 0.29 and 0.36 for birth weight, respectively. Selection for direct genetic effects resulted in direct and maternal responses in postnatal survival of 1.11% ± 0.17 and - 0.49% ± 0.10, respectively, while selection for maternal genetic effects led to greater direct and maternal responses, of 5.20% ± 0.34 and 1.29% ± 0.20, respectively, in part due to unintentional within-litter selection. Selection for both direct and maternal effects revealed a significant lower direct response (- 1.04% ± 0.12) in comparison to its expected response from single-effect selection, caused by interactions between direct and maternal effects.

CONCLUSIONS

Selection successfully improved post- and perinatal survival and birth weight, which indicates that they are genetically determined and that genotype-by-environment interactions between outdoor (experimental data) and indoor (selection data) housed pigs were not important for these traits. A substantially increased overall (direct plus maternal) response was obtained using selection for maternal versus direct or both direct and maternal effects, suggesting that the maternal genetic effects are the main limiting factor for improving piglet survival on which selection pressure should be emphasized.

Establishment of a multilevel linear model to analyse the factors affecting piglet litter performance at birth

This study aimed to establish a feasible model for analysing factors affecting piglet litter performance at birth. Data of 61,984 litters were collected from 16 herds, and general linear model (GLM), multilevel Poisson regression model (MPM) and multilevel linear model (MLM) were established to compare their goodness of fit for these data. Influencing factors of piglet litter performance at birth were analysed using the established optimal model. Results showed the intraclass correlation coefficients of total born piglets (TBP), piglets born alive (PBA), low-birth-weight piglets (LBW), and average birth weight of piglets (ABW) reached 27.89%, 23.88%, 24.66% and 22.27%, respectively (p < .05). Akaike's information criterion and Bayesian information criterion in MLM of TBP, PBA, LBW and ABW were lower than those in GLM. Pearson residuals in MPM increased to nearly 1 after introduction of a discrete scale factor, and the p values in MPM were similar to those in MLM. Analyses of MLM indicated crossbred sows with good management supplemented with oregano essential oil and farrowing at warm season had higher TBA, PBA and ABW, but lower LBW than other sows (p < .05). In conclusion, MLM is superior to GLM and can replace MPM in analysing discrete data with hierarchical structure in pig production. More importantly, other potential influencing factors of litter performance at birth can be analysed using the established MLM in the future.

Postweaning mortality in commercial swine production II: review of infectious contributing factors

Postweaning mortality is extremely complex with a multitude of noninfectious and infectious contributing factors. In the current review, our objective is to describe the current state of knowledge regarding infectious causes of postweaning mortality, focusing on estimates of frequency and magnitude of effect where available. While infectious mortality is often categorized by physiologic body system affected, we believe the complex multifactorial nature is better understood by an alternative stratification dependent on intervention type. This category method subjectively combines disease pathogenesis knowledge, epidemiology, and economic consequences. These intervention categories included depopulation of affected cohorts of animals, elimination protocols using knowledge of immunity and epidemiology, or less aggressive interventions. The most aggressive approach to control infectious etiologies is through herd depopulation and repopulation. Historically, these protocols were successful for Actinobacillus pleuropneumoniae and swine dysentery among others. Additionally, this aggressive measure likely would be used to minimize disease spread if either a foreign animal disease was introduced or pseudorabies virus was reintroduced into domestic swine populations. Elimination practices have been successful for Mycoplasma hyopneumoniae, porcine reproductive and respiratory syndrome virus, coronaviruses, including transmissible gastroenteritis virus, porcine epidemic diarrhea virus, and porcine deltacoronavirus, swine influenza virus, nondysentery Brachyspira spp., and others. Porcine circovirus type 2 can have a significant impact on morbidity and mortality; however, it is often adequately controlled through immunization. Many other infectious etiologies present in swine production have not elicited these aggressive control measures. This may be because less aggressive control measures, such as vaccination, management, and therapeutics, are effective, their impact on mortality or productivity is not great enough to warrant, or there is inadequate understanding to employ control procedures efficaciously and efficiently. Since there are many infectious agents and noninfectious contributors, emphasis should continue to be placed on those infectious agents with the greatest impact to minimize postweaning mortality.

Herd-level factors associated with piglet weight at weaning, kilograms of piglets weaned per sow per year and sow feed conversion

To understand the production factors that affect conclusive parameters of sow herd performance can improve the use of the resources and profitability of farm. The objective of this study was to identify associations and quantify the effects of a set of factors related to piglet weight at weaning (PWW), kilograms of piglets weaned per sow per year (kgPWSY) and sow feed conversion (SFC). Data from 150 farms were collected, for a total study population of 135 168 sows, including gilt replacement, breeding (mating), gestation and farrowing/lactation phases. A questionnaire focusing on reproductive performance, management, facilities, feeding, health and biosafety was administered. Multiple linear regression models were used to assess associations among factors with each of the three dependent variables. Increased duration of lactation was positively associated with PWW, kgPWSY and SFC. The increase in the number of live born pigs per litter was positively associated with kgPWSY and with SFC. Farms with higher PWW had farrowing room humidifiers, did not surgically castrate male piglets and used quaternary ammonia compounds for farrowing room disinfection. Farms with higher kgPWSY used lined ceilings in farrowing rooms and winter feeds with higher CP percentages in gestation; they also had more farrowings per sow per year. Sow feed conversion was worse in farms with partly slatted floors during gestation, in farms feeding lactating sows six times a day or ad libitum and farms with a higher sow-handler ratio. This study indicates that farms can increase PWW and kgPWSY and improve the SFC by changing one or more management, biosafety and feeding practices or facilities as well as by focusing on improving several performance parameters, particularly increasing the duration of lactation and the number of live born pigs per litter.

Effects of tail docking and/or teeth clipping on behavior, lesions, and physiological indicators of sows and their piglets

To evaluate effects of tail docking and/or teeth clipping on sows and their piglets, a total of 24 sows and their 302 piglets at 3 days of age were randomly allocated to one of four treatments: teeth clipping and tail docking (TCTD), teeth clipping (TC), tail docking (TD), or intact teeth and tail (Intact). Behavior of piglets and sows, lesions on the body and tail of piglets and sows' teats were inspected. Heart rates of processed piglets were increased (p < .01) during the procedures. Teeth clipping decreased body surface temperature (p < .01) of piglets during and after the procedures but tail docking did not (p > .01). Processed piglets spent more (p < .05) time lying alone and playing/fighting than sham-processed piglets. Tail docked piglets spent less (p < .01) time standing than tail sham-docked piglets. Intact teeth increased (p < .05) the avoidance behaviors of sows. Teeth clipping decreased (p < .05) the lesion scores on the anterior, middle, and posterior teats. Taken together, piglet teeth clipping had more impact on sows and their piglets than tail docking did in the lactation period based on our findings.