This analysis was based on data from published literature and involved no live animals; thus, no Institutional Animal Care and Use Committee approval was required.
2.1. Database Creation
A literature search was conducted to identify experiments measuring visceral organ masses and diet composition. Three databases were searched: Google Scholar, PubMed, and AGRICOLA. Multiple combinations of the search terms “cattle”, “cow”, “ruminants”, “visceral organs”, “viscera”, “protein”, and “fat” were used, and all searches were limited to records published on or before January 2025. Google Scholar returned 247 records, PubMed returned 56 records, and AGRICOLA returned 144 records. Duplicate records were removed. Records were screened in three stages: first by title for relevance, second by abstract for measurement of body composition, and third by data tables for the availability of organ weights and diet characteristics. To be included, a record had to report at least one visceral organ mass and either empty body weight or hot carcass weight. Records on post-wean steers, heifers, bulls, and cows were included. Pre-wean calves were excluded because their primary diet is milk, and the dataset lacks the information needed to characterize these diets within the modeling framework used in this study.
Studies needed to provide data on visceral organ masses and empty body weight. Not all studies provided data on all visceral organs, but any available data was recorded. If a study did not provide empty body weight but instead provided hot carcass weight, empty body weight was calculated using the equation of Garrett and Hinman [
10]: EBW = (1.362 × HCW) + 30.26, where HCW is the hot carcass weight in kilograms. The equation of Garrett and Hinman [
10] was chosen because it has been used extensively [
3,
4] and was recently reported to be highly accurate and precise [
11]. Because EBW was estimated from HCW for these studies rather than measured directly, additional uncertainty is introduced into the EBW values, which may propagate into the performance of models that retained EBW as a predictor.
For each included study, feed ingredient composition, the chemical composition of the diet fed prior to harvest, dry-matter intake during the feeding period, and length of time the diet was fed were recorded. When the chemical composition of the diet was not directly reported but the ingredient composition was available, the chemical composition was calculated using values from the Nutrient Requirements of Beef Cattle [
4]. Because physically effective NDF could be a factor affecting gastrointestinal tract mass [
9], dietary physically effective NDF (peNDF) was calculated for each diet. The eNDF percentage was obtained from the Nutrient Requirements of Beef Cattle [
4] and multiplied by the ingredient composition of the reported diet. The term “eNDF” used in NRC tables is treated here as equivalent to peNDF. Because the measured particle size was not available, the resulting peNDF values are approximations and may not fully reflect the physical effectiveness of fiber in the diet.
The final dataset (
Supplementary_Dataset.xlsx) contained 170 observations with days on feed (DOF), roughage (% of diet), type of forage, metabolizable energy concentration (MEC, Mcal/kg DM), crude protein concentration (CP, %), neutral detergent fiber concentration (NDF, %), physically effective neutral detergent fiber concentration (peNDF, %), dry-matter intake (DMI, kg/d), cattle breed, cattle sex, empty body weight (EBW, kg), initial weight at start of the feeding period (IW, kg), final weight at the end of the feeding period (FW, kg), and at least one recorded visceral organ mass from 38 studies published between 1985 and 2021. Records were classified by sex/reproductive status as heifers (intact females), steers (castrated males), cows (mature females), or bulls (intact males), and cattle type was established as beef or dairy. Therefore, the dataset captures sex and castration status through this four-level classification but does not include explicit chronological age, as it was not reported in many studies; days on feed, initial weight, and final weight serve as the available indicators of age and physiological stage within the modeling framework. The type of forage was categorized into five groups based on ingredient composition and physical structure: hay, roughage byproducts (RBP), silage, combination of silage and hay, and combination of silage and roughage byproducts. Roughage byproducts included feed ingredients such as cottonseed hulls and corn cobs. Organ masses recorded directly from studies included those of the abomasum, omasum, liver, heart, lungs, pancreas, kidney, duodenum, jejunum, and ileum. Organ masses of the reticulorumen, pluck, stomach complex, small intestine, large intestine, total intestines, gastrointestinal tract, total splanchnic tissues, and total viscera were recorded directly when reported or calculated as the sum of component organs. Dietary variables were roughage, MEC, CP, NDF, and peNDF. Management variables were DOF, DMI, and DMI as a percentage of FW. Animal variables included cattle type, sex, FW, IW, and EBW. DMI as a percentage of FW was calculated using the following equation: (DMI/FW) × 100. Data from studies where the ration energy concentration was reported as digestible energy, net energy for maintenance, or net energy for gain were converted to MEC (Mcal/kg) using the conversion equations published in [
4].
The pluck consisted of the heart and lungs. The reticulorumen, when not reported as a single unit, was calculated as the sum of the rumen and reticulum. The stomach complex included the reticulorumen, omasum, and abomasum. The small intestine, when reported in separate segments, was defined as the combined mass of the duodenum, jejunum, and ileum. Total intestines were calculated as the sum of the small and large intestines, while the gastrointestinal tract was recorded as the sum of the stomach complex and total intestines. Splanchnic tissue was defined as the sum of the liver, pancreas, spleen, and gastrointestinal tract. Total viscera were calculated as the sum of the total splanchnic tissues and the pluck.
2.2. Statistical Analyses
All statistical analyses were performed using R statistical software (version 4.4.3; 28 February 2025) with published functions and packages. The outcome variables were the mass of each organ (kg). Data were evaluated for normality using Q-Q plots and non-constant variance using residual plots from the
simulateResiduals function in the
DHARMa package. The
lmer function of the
lme4 package was used to model each visceral organ mass (kg) against the dietary, animal, and management variables, with
Trial used as a random intercept to account for between-study variation [
12]. The
dredge function from the
MuMIn package was then applied to each full model to evaluate all candidate models and select the model with the lowest AICc. The candidate predictor pool considered by
dredge was constrained a priori to a biologically relevant set of dietary, management, and animal variables identified in prior literature as relevant to visceral organ mass.
If assumptions of normality were not met, organ mass was transformed. Normality and constant variance of the transformed data were re-evaluated using DHARMa residual diagnostics. For each organ, all four transformation types (raw, log, square root, and cube root) were fit and evaluated using DHARMa residual diagnostics. Transformations were required to pass three DHARMa tests (uniformity, dispersion, and outliers) at alpha = 0.05 to be considered for selection. When different data transformations (log, square root, or cube root) exhibited equivalent performance across residual diagnostics, the transformation providing the model with the lowest AICc was selected. If no transformation passed all three tests, the two transformations with the highest minimum DHARMa p-values were re-assessed, and the one with the lower AICc was selected. Abomasum, heart, large intestine, omasum, pancreas, pluck, reticulorumen, small intestine, spleen, stomach complex, and total gastrointestinal tract required cube-root transformations. Kidney and liver mass were transformed by square root. A logarithmic transformation was used for total intestines, total splanchnic tissues, and total viscera. Model predictions were back-transformed to the original scale for visualization.
Collinearity among fixed-effect predictors was assessed using variance inflation factors (VIFs) calculated from the selected models. Predictors with VIF values greater than or equal to 10 were flagged for further evaluation, as VIF values should be evaluated in context rather than as a strict exclusion threshold [
13]. Pairwise correlations were computed for flagged predictors, and pairs with an absolute correlation of 0.70 or greater were identified. When at least one predictor in a correlated pair had a VIF of 10 or higher, the predictor with the lower chi-square statistic from the likelihood-ratio test was removed; this rule retains the predictor that contributes more to model fit and discards the predictor whose loss is least costly. When a flagged main effect was also contained in an interaction term, the interaction was removed first; the main effects were then re-assessed for collinearity, and the removal rule described above was only applied if collinearity persisted with the main effect.
In-sample fit metrics and leave-one-trial-out cross-validation (LOTO-CV) metrics were computed as follows. For the in-sample fit metrics, RMSE; conditional, marginal, and relative fixed R2 (relative fixed R2 = marginal R2/(1 − random R2); and MAE% were computed using the rmse_vec, rsq_vec, and mae_vec functions from the yardstick package. MAE was then expressed as a percentage of the mean observed value. The concordance correlation coefficient (CCC) was computed using the epi.ccc function of the epiR package. For the LOTO-CV, trial-adjusted organ weight was computed by predicting the organ weight using fixed-effect coefficients and adding the overall model residual for each observation, thereby removing the random effect of trial. The trial-adjusted organ weight used in LOTO-CV as a mixed-effects model does not generate a coefficient to predict the withheld trial. The random intercept was dropped using the nobars function of the lme4 package, and an ordinary least-squares model with the final model’s fixed effects as predictors and the trial-adjusted response as the dependent variable was fit on the remaining trials and used to predict the withheld trial. Pooled R2, RMSE, and MAE% were computed across all out-of-fold predictions using the rsq_vec, rmse_vec, and mae_vec functions of the yardstick package, and CCC was computed using the epi.ccc function of the epiR package. The R2 was computed on the transformed model scale to make it directly comparable with the relative fixed R2 from the original model. The remaining metrics were computed on the back-transformed kg scale.