bluuebunny/crossref_metadata_2025_split huggingface dataset:
375 Identification of QTL associated with antibody response to common infectious diseases in commercial sows
Authors: Sanglard Leticia Pereira , Canada PigGen , Mote Benny , Willson Philip , Harding John C S , Plastow Graham S , Dekkers Jack C M , Serão Nick V L 
Published: July 2019

Abstract
The objective of this study was to perform genome-wide association studies (GWAS) to identify Quantitative Trait Loci (QTL) associated with antibody response to infectious diseases in commercial sows. A total of 2,848 Large White x Landrace replacement gilts were sourced from 17 high-health multipliers (7 breeding companies; BC) and introduced to 23 commercial farms with a history of common pig diseases, following the standard acclimation procedures with an average of 53 animals per entry group (CG). Serum was used to quantify antibody response to swine influenza virus (SIV), Mycoplasma hyopneumoniae (MH), porcine circovirus type-2 (PCV2), and 8 serotypes of Actinobacillus pleuropneumoniae (APP1-3, 5, 7, 10, 12, and 13) at entry (S/PEntry), following acclimation (S/PAcclimation), and during parities 1 (S/PParity1) and 2 (S/PParity2). All animals were genotyped for 38,191 SNPs. GWAS was performed using BayesB (pi=0.99), with the fixed effect of CG and the random effects of SNPs in the model. For APP, QTL were only identified at S/PAcclimation; on SSC14 (2Mb) for APP3, APP7, APP10, and APP13 that explained 5.6, 4.7, 2.8, and 3.6% of the genetic variance, respectively. A gene within this QTL region is SYK, involved in the control of immune-receptors. For APP5, a QTL that explained 4.2% of the genetic variance was identified on SSC4 (105Mb), which co-localizes with two genes associated with immune-response: SIKE1and NRAS. For SIV, no QTL was identified. A QTL on SSC7 (130-131Mb) was identified for MH (S/PParity1, 5.1%) and PCV2 (S/PEntry, 34%; S/PAcclimation, 43.4%). These results provide new information on the genetic basis of response to infectious diseases in sows. The identified QTL have the potential to be used to select for improved immune response. The authors thanks PigGen Canada, Genome Canada, and the Canadian Swine Health Board for financial support, and the late Dr. Stephen Bishop for his scientific contributions.
63 A comparison of clustering methods for cross-validation of genomic predictors when training on phenotypes or deregressed Estimated Breeding Values
Authors: Baller Johnna , Howard Jeremy T , Kachman Stephen , Spangler Matthew L 
Published: July 2019

Abstract
The objective of the study was to evaluate the impact of clustering methods for cross-validation on the accuracy of prediction of molecular breeding values (MBV) in Red Angus cattle (n = 9,763) and in simulation. Individuals were clustered using seven methods [k-means, k-medoids, principal component analysis on the numerator relationship matrix (A) and identical-by-state genomic matrix (G) as data and covariance matrices, and random] and two response variables [deregressed Estimated Breeding Values (DEBV) and adjusted phenotypes]. Genotypes were imputed to a 50K reference panel. Using cross-validation and a Bayes C model, MBV were estimated for traits including birth weight (BWT), marbling (MARB), rib-eye area (REA), and yearling weight (YWT) for DEBV and BWT, YWT, and ultrasonically measured intramuscular fat percentage and rib eye area for adjusted phenotypes. A bivariate animal model was used to estimate prediction accuracies calculated using the genetic correlation between estimated MBV and the associated response variable. To quantify the difference between true and estimated accuracies, a simulation mimicking a cattle population was replicated five times. The same clustering methods were used as with the Red Angus data with the addition of forward validation and two genotyping methods (random selection and selection of the top 25% of animals). Predicted accuracies were estimated similarly and true accuracies were estimated using the residual correlation of a bivariate model using MBV and true breeding values (TBV). The Rand index was used to quantify the similarity between clustering methods, showing relationship-based clusters were clearly different from random clusters. In simulation, random genotyping led to higher estimated accuracies than selection of top individuals; however, estimated accuracies over predicted true accuracies with random genotyping but under predicted true accuracies with the selection of top individuals. When forward validation was evaluated within simulation, results suggested DEBV led to less biased estimates of MBV accuracy.
59 The Genetic Basis of Natural Antibody Titers and Relationships with Disease Resilience in Pigs
Authors: Chen Yulu , Laura Laura , Ashley Carolyn , Putz Austin M , Lim Kyu-Sang , Dyck Michael , Fortin Frederic , Plastow Graham S , Dekkers Jack C M , Harding John C S 
Published: July 2019

Abstract
Disease resilience is the ability of an animal to maintain performance under pathogen exposure but is difficult to select for because breeding populations are raised in biosecure, high-health facilities. Selection for resilience requires an indicator trait that is easy to measure on healthy young animals, heritable, and genetically correlated with resilience. Our objective was to investigate circulating Natural Antibody (NAb) levels as potential indicators for disease resilience in pigs. Data were from a natural polymicrobial disease challenge, in which batches of 60–75 weaned LWxLR barrows were sourced every three weeks (28 batches, 1799 pigs) from healthy multipliers. NAb and total IgG were evaluated by indirect ELISA in blood samples collected around 35 d of age. Disease resilience data were collected until pigs reached market age. All pigs were genotyped on a 650k panel. Genetic parameters were estimated by univariate and bivariate analyses in ASReml4. Single-marker and Bayesian variable selection methods were used for GWAS. Heritability estimates were lower for IgG NAb (0.03–0.22) than for IgM NAb (0.24–0.42) but maternal effects were larger for IgG (0.49–0.58) than for IgM (0.04–0.12). Phenotypically, IgM titers correlated with each other (0.26–0.71), as did IgG titers (0.40–0.81), but correlations between IgM and IgG were low (0.00–0.13). Genetic correlations showed similar patterns, ranging from 0.44–0.99, 0.45–0.84, and -0.30–0.25 for IgG, IgM, and IgG/IgM, respectively. Genetically, higher levels of NAb tended to be associated with fewer treatments, lower mortality, higher finishing ADG, and lower day-to-day fluctuations in feed intake but SE were large. Phenotypically, pigs that reached market age had significantly higher levels of IgG NAb than pigs that died. GWAS identified several genomic regions for NAb levels. In conclusion, levels of circulating NAb in healthy young piglets are potential indicators of polymicrobial disease resilience. Funded by Genome Canada and Alberta, and by USDA-NIFA.
67 Structural conformation differences between show pigs and commercial genetic lines
Authors: Obermier Dalton R , Peppmeier Zack , Knauer Mark 
Published: July 2019

Abstract
Structural conformation differences between show pig and commercial genetic linesD.R. Obermier, Z.C. Peppmeier, M.T. Knauer North Carolina State University, Raleigh.The objective was to compare the structural conformation of pigs sired by boars from the show pig industry to those sired by modern commercial genetic lines. Data included 174 male pigs from 16 sires and 50 dams. Pigs were sired by Large White (LW) show pig sires (SHOW) or one of two maternal LW commercial genetic lines (W or P). Dams of all pigs evaluated were from line P. Pigs were reared in barns (0.74 m2 per pig) with natural ventilation and totally slatted concrete flooring. Two technicians visually evaluated pigs at five months of age for front leg side view (FSIDEVIEW), rear pastern angle (RPASTERN), rib width (RIB) and locomotion (LOCO). The traits FSIDEVIEW and RPASTERN were scored on a seven point scale where one was soft pasterns, four was normal and seven was buck-kneed and straight pasterns, respectively. Rib width was scored on a five point scale with five being wide ribbed. Locomotion was scored on a seven point scale where one was ideal. Correlations between technicians for FSIDEVIEW, RPASTERN, RIB and LOCO were 0.54, 0.66, 0.77 and 0.72, respectively. Males sired by SHOW had lower (P < 0.01) FSIDEVIEW scores than those sired by W or P (2.2 vs. 3.3 and 3.6, respectively) and softer (P < 0.05) RPASTERN (3.4 vs. 3.8 and 4.2, respectively). Rib width was wider (P < 0.01) for SHOW when compared to W or P (3.7 vs. 2.6 and 2.4, respectively) Locomotion was superior (P < 0.01) for SHOW when compared to W or P (2.6 vs. 3.4 and 3.6, respectively). Line W had lower (P < 0.05) FSIDEVIEW and RPASTERN than P. Yet RIB and LOCO did not differ (P > 0.05) between W and P. Results suggest pigs sired by SHOW had softer pasterns, greater rib width and superior locomotion when compared to those sired by commercial genetic lines.
74 Effects of dietary soy isoflavone supplementation on carcass cutability and meat quality of pigs infected with porcine reproductive and respiratory virus
Authors: Bryan Erin , Smith Brooke N , Honegger Lauren T , Boler Dustin D , Dilger Ryan , Dilger Anna C 
Published: July 2019

Abstract
The objective was to evaluate the effects of porcine respiratory and reproductive syndrome virus (PRRSV) infection and dietary soy isoflavone supplementation on carcass cutability and meat quality of commercial pigs. Barrows were randomly allotted to experimental treatments that were maintained throughout the study: non-infected pigs received an isoflavone-devoid control diet (NC, n = 22), and infected pigs received either the control diet (PC, n = 20) or that supplemented with total ISF in excess of 1,600 mg/kg (ISF, n = 25). Following a 7-d adaptation, weanling pigs were inoculated intranasally with either a sham-control (PBS) or live PRRSV (1×105 TCID50/mL, strain NADC20). At 1 d postmortem (192–194 days of age; approximately 120kg BW), left sides were separated between the 10th and 11th rib for determination of loin eye area (LEA), backfat thickness (BF), and loin quality (ultimate pH, instrumental color, drip loss, visual color, marbling, and firmness). Loin chops were aged 14 d postmortem prior to Warner-Bratzler shear force (WBSF) determination. Belly width, length, thickness, and flop distance were determined. Data were analyzed as a one-way ANOVA with a model including effects of PRRSV status and dietary treatment, and also with single-df pre-determined contrasts to compare NC and PC (infection status) and PC and ISF (ISF effect within infected pigs). Carcass yield, LEA, BF, and estimated lean percentage did not differ (P > 0.26) among treatments. Loins from NC pigs had increased ultimate pH (P = 0.01), reduced L* scores (P = 0.005) coupled with darker visual color scores (P = 0.004), were firmer (P < 0.0001), and reduced drip loss (P = 0.01) compared with PC and ISF pigs. However, WBSF did not differ (P = 0.51) among treatments after 14 d of aging. Bellies from NC pigs were more firm compared with bellies from PC and ISF pigs (P < 0.01). These data suggest PRRSV infection and soy isoflavone supplementation do not alter carcass characteristics but may marginally reduce loin and belly quality.
80 Determining the effects of tryptophan biomass on growth performance of 11 to 23 kg nursery pigs
Authors: Wensley Madison R , Woodworth Jason C , DeRouchey Joel M , Dritz Steve S , Tokach Mike D , Goodband Robert D , Haydon Keith D 
Published: July 2019

Abstract
A total of 320 barrows (DNA 200×400, initially 11.3 ± 0.65 kg BW) were used in a 21-d growth trial evaluating the effects of feeding Trp biomass (CJ America-Bio, Downers Grove, IL) as a source of Trp on nursery pig performance. Pigs were weaned at approximately 21 d of age, placed in pens based on initial BW, and fed a common diet. On d 21 after weaning, pigs were weighed and pens were allotted to 1 of 4 dietary treatments with 5 pigs/pen and 16 replicates/treatment. Dietary treatments included a negative control (16% SID Trp:Lys), positive control (21% SID Trp:Lys from crystalline L-Trp), or diets containing Trp biomass to provide 21 or 23.5% SID Trp:Lys (included at 0.104 or 0.156% of the diet, respectively). Diets were corn-soybean meal based and contained 1.25% SID Lys with other AA set to meet or exceed NRC (2012) requirement estimates. The Trp biomass contained 69% Trp. Growth data were analyzed as a randomized complete block design using PROC GLIMMIX of SAS with pen as the experimental unit. Overall (d 0 to 21) pigs fed 21% Trp from L-Trp or Trp biomass had increased (P < 0.05) ADG compared to the control, with pigs fed the 23.5% SID Trp biomass intermediate. Pigs fed the 21% Trp from Trp biomass had improved (P < 0.05) G:F compared to the control with others intermediate. In conclusion, Trp biomass is a viable alternative to crystalline Trp, but further evaluation at higher inclusion levels is needed.
78 Low allergenic full fat soybean as a suitable replacement for fishmeal in weaned pig diets
Authors: Zeamer Katelyn M , Samuel Ryan S , Thaler Robert C , Woyengo Tofuko A , Levesque Crystal L 
Published: July 2019

Abstract
This study evaluated a low allergen (P34 protein) and low anti-nutritional factor (trypsin inhibitor and lectin) in both soybean meal form (LASBM) and full fat ground soybean form (LAGR) as substitutes for fishmeal (FM) in nursery pig diets based on growth performance. Weaned pigs (n = 112; 7.30 ± 0.43 kg BW) were allotted to 28 pens (2 barrows and 2 gilts per pen) by initial BW. Pens (n = 7/diet) were randomly assigned to one of 4 dietary treatments in 2 phases (Ph1 = 5d, Ph2 = 13d): control diet containing FM (7.25%, Ph1; 6%, Ph2), and LASBM, LAGR or conventional SBM substituted for FM to supply an equivalent portion of crude protein. Pigs received a common Ph3 diet (18 d). Pig weight and feed disappearance was determined by phase. Data was analyzed as a one-way ANOVA. Model included main effect of diet with pen as experimental unit. In Ph1, pigs fed FM had lower (P < 0.01) ADG than LAGR or SBM and lower (P < 0.01) ADFI than all diets. In Ph2, SBM-fed pigs had higher (P < 0.01) ADG and ADFI compared to all treatments. Pigs previously fed LAGR tended to have higher gain (P < 0.10) than pigs previously fed LASBM in Ph3. There were no differences in gain:feed between diets. Based on growth performance, LAGR would be suitable replacement for FM in nursery diets.
85 Effects of feed removal on body temperature and intestinal morphology in pigs recovering from acute hyperthermia
Authors: Kpodo Kouassi R , Duttlinger Alan W , Aardsma Matthew P , Maskal Jacob M , Johnson Jay S 
Published: July 2019

Abstract
Feed consumption increases body temperature and may delay a return to euthermia and exacerbate intestinal injury following acute hyperthermia recovery in pigs. The study objective was to evaluate the effects of feed removal on body temperature, feeding behavior, and intestinal morphology in pigs exposed to acute hyperthermia and then cooled. Twenty-four gilts (78.53 ± 5.46 kg) were exposed to thermoneutrality (TN; n = 12 pigs; 21.21 ± 0.31°C) for 6 h, or heat stress (HS; 38.51 ± 0.60°C) for 3 h followed by a 3-h recovery period of cooling (HSC; n = 12 pigs; water dousing and TN conditions). Within each temperature treatment, half the pigs were provided feed (F; n = 6 pigs/temperature treatment) and half were not provided feed (NF; n = 6 pigs/temperature treatment). Gastrointestinal (TGI) and vaginal (TV) temperature were recorded every 15 min and pigs were video-recorded to assess feeding behavior. Immediately following the 6 h period pigs were euthanized, and intestinal samples were collected for histology. During the HS period, Tv and TGI were increased overall (P < 0.01; 1.63°C and 2.05°C, respectively) in HSC vs. TN pigs, regardless of feeding treatment. A temperature by feeding treatment by time interaction was detected during the recovery period where TGI was greater (P = 0.03; 0.97°C) for HSC+F compared to HSC+NF pigs from 45–180 min. Feeding behavior was greater overall (P = 0.02; 223.14%) in F vs NF pigs, regardless of temperature treatment. A decrease (P < 0.01) in jejunum and ileum villus height (24.72% and 26.11%, respectively) and villus height to crypt depth ratio (24.40% and 25.52%, respectively) was observed in HSC vs TN pigs, regardless of feeding treatment. Ileum goblet cells were reduced (P = 0.01; 37.87%) in HSC vs TN pigs, regardless of feeding treatment. No other differences were detected for any parameter. In summary, TGI decreased more rapidly following acute hyperthermia when feed was removed.
87 Bacterial communities of the uterus and vagina between resulting pregnant and non-pregnant postpartum beef cows
Authors: Ault Taylor B , Clemmons Brooke A , Reese Sydney T , Franco Gessica A , Dantas Felipe G , Schneider Liesel G , Smith Timothy P L , Edwards J L , Myer Phillip R , Pohler Ky G 
Published: July 2019

Abstract
The prevalence of reproductive losses costing 1 billion dollars annually to the beef and dairy industries has led researchers to evaluate strategies to improve reproductive efficiency. The microbiome of the reproductive tract has been a recent focus in humans due to its effects on health and fertility; however, little research has evaluated the uterine and vaginal microbiomes of cattle. The present study evaluated the reproductive tract bacterial communities of postpartum beef cows undergoing estrus synchronization and the differences between cows who became pregnant and those who failed to conceive. Forty postpartum Angus cows were subjected to a 7 Day Co-Synch protocol with a pre-synchronization step 21 days prior (day -21) to artificial insemination (AI). Uterine and vaginal flushes were collected on day -21, -9, and -2 of the protocol for pH and bacterial DNA extraction to sequence the V1-V3 hypervariable regions of the 16S rRNA gene. Transrectal ultrasound was performed 30 days after AI for pregnancy diagnosis. Ten pregnant and non-pregnant animals were selected and used for analysis. Decreased numbers of bacterial species present in the uterus of cows were identified, independent of pregnancy status, leading up to AI with an average of 1180 ± 97 species on day -21 to 427 ± 99 on day -2 (P < 0.0001). Principal coordinate analyses depicted significant clustering of bacterial communities by day in the uterus (P = 0.001) and vagina (P = 0.001) as well as pregnancy status in the uterus at day -2 (P = 0.005). Additionally, at day -2, multiple significantly different uterine bacterial genera were present at >1% in non-pregnant cows while present at <1% in pregnant cows. Uterine pH increased in non-pregnant cows but decreased in pregnant cows. In summary, the results suggest uterine bacterial abundances prior to AI may influence the uterine environment and reproductive outcomes.
88 Effects of cattle breed, Holstein versus Angus, and corn grain processing on diet digestibility and ruminal pH
Authors: Carvalho Pedro , Felix Tara , Silva Flavia Sales 
Published: July 2019

Abstract
Objectives were to evaluate impacts of breed and corn processing on digestibility of DM and starch, and on ruminal pH over time. Cannulated Holstein (n = 6) and Angus (n = 6) steers (BW = 571 ± 39 kg) were assigned into 1 of 3 treatments: Whole corn, cracked corn, or ground corn. All diets contained 81.5% corn, 6.5% soybean meal, 10.0% grass hay, and 2% vitamin/mineral supplement (DM basis), steers were fed ad libitum. Treatments were fed in a 3x3 replicated Latin square split plot design. Each period consisted of 21 d, 14 d diet adaptation followed by 7 d of sample collection. On d 1 of the collection period, rumen contents were sampled to measure ruminal pH at 0, 3, 6, 12, and 18 h after feeding. From d 2 to 7 of the collection period, total fecal excretion, feed, and refusal were collected and frozen. Samples were composited by steer within period and analyzed for DM and starch. Data were analyzed using the MIXED procedures in SAS (v9.4 SAS Inst. Inc., Cary, NC). Repeated measures were used to analyze changes in ruminal pH over time. There were no interactions of treatment by breed (P > 0.51) on DMI, or DM and starch digestibility. Holstein steers had a greater (P = 0.03) DMI than Angus steers, regardless of treatment. Digestibility of DM was least (P < 0.01) when corn grain was fed whole, regardless of breed. Compared to feeding whole corn, starch digestibility improved 2.17% when corn grain was fed cracked or 3.44% when corn grain was fed ground. There was a treatment by breed interaction (P < 0.01) for mean ruminal pH. Mean ruminal pH of Angus steers had a linear decrease as corn processing increased. However, mean ruminal pH was less variable among Holstein steers, regardless of diet. Angus steers were less able to maintain a greater ruminal pH than Holstein steers as processed corn was fed, even though Holsteins ate more grain.
90 The influence of supplemental zinc, zinc source, and dietary energy level on performance measures of beef steers
Authors: Carmichael Remy N , Hansen Stephanie L , Genther-Schroeder Olivia 
Published: July 2019

Abstract
The objective was to determine if steer performance improved with supplemental Zn above recommended concentrations with increasing growth rate. Angus steers (n = 72; 324 ± 2.1kg BW) were blocked by BW within growing diets to one of three Zn strategies (ZNTRT) 1) no supplemental Zn (analyzed 36 mg Zn/kg DM; CON), 2) supranutritional Zn as ZnSO4(CON + 120 mg Zn/kg DM; INZN), or 3) supranutritional Zn blend (CON + 60 mg Zn/kg as ZnSO4 + 60 mg Zn/kg as Zn-amino acid complex; ZNBLD) fed for 60 d, then assigned to dietary energy strategies (ENERGY) targeting growth rates of 1.6 (LOW) or 2 kg/d (HI). On d 60, HI steers were transitioned for 7 d and all animals received respective treatments for an additional 91 d finishing period (n = 12). Data were analyzed as a 3×2 factorial in Proc Mixed of SAS with block as fixed effect; steer was experimental unit. After 60 d of dietary treatment BW tended to be greater in Zn-fed steers vs. CON (P = 0.07). Finishing DMI within HI was similar between INZN and ZNBLD, which were greater than CON, while within LOW no differences were detected due to ZNTRT (ZNTRT×ENERGY; P = 0.01). Neither ZNTRT×ENERGY nor ZNTRT effects (P ≥ 0.37) were detected for finishing ADG, HCW, marbling score, yield grade or backfat. However, finishing period ADG, hot carcass weight, marbling score, yield grade, and back fat were greater in HI vs. LOW (P ≤ 0.05). Plasma NEFA concentrations were lesser for steers receiving HI vs. LOW (P = 0.02), while BUN was unaffected by ZNTRT or ENERGY (P ≥ 0.42). Steer performance was influenced by supranutritional Zn and dietary energy.