bluuebunny/crossref_metadata_2025_split huggingface dataset:
180 Differences in Gene Expression in Granulosa Cells Harvested from Fertile and Sub-Fertile Beef Heifers
Authors: Hollingsworth Rachel , Banerjee Priyanka , Dyce Paul W W 
Published: November 2023

Abstract
Infertility in beef replacement heifers is one of the leading contributors to economic losses in the cow-calf sector of the beef production industry. Successful reproduction is complex, involving multiple tissues and biological systems. This complexity makes identifying the leading causes of subfertility difficult. One potential source of fertility issues is poor oocyte health. As developing oocytes are dependent on granulosa cells (GCs) and physically coupled with GCs, we hypothesized that the gene expression profile would be different between the GCs from fertile heifers and those from sub-fertile heifers. The objective of this study was to identify differences in gene expression in GCs collected from beef heifers of differing fertility status, either fertile or sub-fertile. To gather this information, Angus-Simmental crossbred heifers underwent an estrus synchronization and fixed-time artificial insemination (AI) protocol (7-Day CO-synch + CIDR). At 41 days post-AI, heifers were pregnancy checked through ultrasound and palpation. Heifers pregnant to AI were classified as fertile (n = 8). Any heifers that remained non-pregnant following AI were exposed to bulls of proven fertility for 61 days. Bull-exposed heifers were evaluated for pregnancy 34 days after the bulls were removed. The non-pregnant heifers following both AI and natural service were classified as sub-fertile (n = 5). Pregnancies were terminated in fertile heifers, and heifers from both groups were allowed to resume normal cyclicity before GCs being harvested. RNA was extracted from GCs and quality was checked for each sample. Total RNA from GCs of 13 heifers was subjected to the library preparation and sequencing on the Nova-Seq platform. Through the application of DESeq2, 79 genes were identified as significantly differentially expressed genes (DEGs) with P-value &lt; 0.05 and absolute (log2 fold change) &gt; 0.5 including DNER, HOXD10, CD52, CXCL12, and HOXD11. DEGs, along with co-expressed genes, were over-represented in pathways associated with the regulation of MAP kinase activity, regulation of serine/threonine kinase activity, MHC protein binding, and plasma membrane signaling receptor complex. Through the pursuit of knowledge regarding the function of top DEGs, increased sample size, and more diverse sample collection time points, we may improve our understanding of the causation of heifer fertility issues. Improving our knowledge of heifer infertility has the potential to develop therapeutic options, and in turn, increase the efficiency and sustainability of cow-calf production systems.
210 Effects of Dietary Supplementation of Peanut Skins (Arachis hypogaea) on Performance, Digestibility, and Rumen Fermentation of Cattle: a Meta-Analysis
Authors: Osuolale Oluwatoyin Rukayat , Idowu Modoluwamu , Pech-Cervantes Andres A , Taiwo Godstime A , Eichie Francisca , Ogunade Ibukun M , Terrill Thomas H 
Published: November 2023

Abstract
This study aimed to estimate the magnitude of effects of dietary inclusion of Peanut skins (PS) byproduct (Arachis hypogea L.) on intake, total-tract digestibility, and rumen fermentation of cattle via meta-analysis. Data were collected following the PRISMA methodology. Nine manuscripts and a graduate thesis met the inclusion criteria from 1983 to 2010. The effect size was estimated by calculating the weighted raw mean differences (RMD) between PS vs. control diets. The RMD was compared with a robust variance estimation method followed by a meta-regression and a dose-response analysis fitting the diet characteristics like crude protein content (CP), NDF content, ether extract content (EE), tannin content, and PS level in diet (0 to 40%) as covariates. Dietary PS decreased (P &lt; 0.01) total-tract CP digestibility (52.0 vs. 64.3%), final body weight (371.5 vs. 397.9 kg), and average daily gain (1.14 vs. 1.44 kg/d) among treatment comparisons. Likewise, PS decreased total VFA (92.6 vs. 107.6 mmol/L) and NH3N (8.22 vs. 12.1 mg/dL), but no effects were observed on rumen pH (6.47 vs. 6.14), Acetate (47.8 vs.50.4%), Propionate (31.9 vs. 33.1%), and Butyrate (8.4 vs. 11.2%) molar proportions. Although there was a high between-cluster variance, dietary PS increased the ether extract digestibility (77.5 vs. 70.2%) among treatment comparisons. The subset and dose-response analysis revealed that PS should not exceed 8% (DM basis) in the diet to prevent negative effects on CP digestibility and animal performance. In conclusion, the results of this meta-analysis do not support the dietary inclusion of PS in cattle diets beyond 8%.
222 High Throughput Screening of Bovine Mastitis from Raw Milk Using Maldi-Tof Ms and Machine Learning
Authors: Sarkar Sumon , Thompson Jonathan , Everhart Nunn Savana L , Clayton Beth 
Published: November 2023

Abstract
To prevent pathogenic microorganisms associated with mastitis from entering the food supply, raw milk must be screened. This study investigated whether MALDI-TOF-MS combined with machine learning algorithms is a cost-effective method for screening dairy milk samples at high throughput. Raw milk from animals was analyzed using matrix-assisted laser desorption ionization mass spectrometry. Mass spectra were obtained for a training dataset of composite milk samples (n = 226) collected from a local dairy. The peaks from the mass spectra were then transported into a machine learning model, which detected non-obvious patterns that correspond with the mastitis condition. Finally, the diagnostic accuracy of the new model was evaluated using a separate set of milk samples (scoring set; n = 100). For optimal performance, decision trees, random forest models, gradient boosted trees, and neural network models were investigated. The results show that the gradient boosted decision tree model performs best for mastitis diagnosis, with simultaneous sensitivity and specificity greater than 0.8. The decision tree approach is conceptually straightforward and identifies candidate biomarker molecules indicative of mastitis. The combined MALDI TOF plus machine learning approach is effective for detecting mastitis in dairy cows and is likely a viable option for diagnosing a wide range of animal health issues. The MALDI TOF method is suitable for high-throughput screening because it only requires a microliter of inexpensive reagents.
420 Integrating Livestock and Cropping Systems: Interseeding Cereal Rye into Corn for Late Season Grazing
Authors: Soder Kathy J 
Published: November 2023

Abstract
The objective of this project was to evaluate the effect of interseeding cereal rye (Secale cereale) into corn (Zea mays) for use as grazed forage after corn grain harvest on corn grain yield and additional grazing day· ha-1. In a 4-year study, corn was planted (64,246 plants· ha-1) in spring on two, 4.8-ha fields in central Pennsylvania. Cereal rye was interseeded (135 kg· ha-1) into the corn at the V4-V6 stage. Corn was harvested as grain in November and each field was divided into six, 0.8-ha paddocks and randomly assigned to either grazed (GRAZ) or ungrazed (NG) treatments. Beef cattle frontal-grazed three of the paddocks (four cows· paddock-1) in each field approximately four to five weeks after corn grain harvest and, if re-growth allowed, again in early spring before subsequent corn planting. Corn grain, corn fodder (after grain harvest), and cereal rye yields were monitored each fall. Cereal rye growth was also monitored in early spring. Statistical analyses on corn grain yield and forage biomass were conducted using the MIXED procedure in SAS 9.4 (SAS Institute, Cary, NC, USA). Least square means were separated using Fisher’s least significant difference test (α = 0.05). There were no site by treatment interactions, therefore means are presented as an average across both sites (Table 1). Corn grain, corn stover, and cereal rye yields were affected by year. Corn grain yields did not decrease as a result of grazing, or of repeated plantings of corn, ranging from 9,516-10,088 kg· ha-1 across GRAZ and NG paddocks except in 2019 (dry year) when corn grain yields averaged 6,053 kg· ha-1 across both GRAZ and NG treatments. Spring grazing only occurred in one year (2021) due to insufficient cereal rye growth in the other years. On average, the cereal rye (plus the corn stover) provided enough forage for an additional 115-130 grazing days· ha-1 in the fall. Results of this study showed that when corn is harvested too late in the year to establish a cover crop, interseeding annual forages into growing corn provides winter ground cover and an opportunity for late season grazing. Interseeding cereal rye into the corn did not negatively impact corn grain yields with repeated corn planting. While early spring growth of the cereal rye has the potential to provide even greater forage yields than fall, it is much less dependable than fall due to the potential of delayed spring growth or lack of winter precipitation under the conditions of the current study.
418 Awardee Talk: Heat Stress-Mediated Muscle Dysfunction
Authors: Selsby Joshua T 
Published: November 2023

Abstract
Ongoing climate change with more frequent, longer-lasting, extreme heat events, threatens advances in efficient production and costs the U.S. Swine Industry more than $900 million annually. Continued selection for rapid lean tissue accretion may further compromise heat resistance as it is associated with greater metabolic heat production. The long-term objective of our work is to develop therapeutic strategies to mitigate the deleterious consequences of prolonged, environment-induced heat stress (HS) with a driving philosophy that elucidation of cellular and systemic pathologies caused by prolonged hyperthermia is a prerequisite to development of etiological interventions. Our working model suggests that in skeletal and cardiac muscle, HS causes Ca2+ dysregulation and subsequent mitochondrial dysfunction, which results in free radical injury and metabolic dysregulation. Oxidative stress may impair autophagy, the very process intended to remove damaged mitochondria, and contribute to an accumulation of damaged mitochondria. Our most recent data indicate that during HS, barrows were able to maintain growth despite a higher rectal temperature than gilts. Further, among other changes, HS caused mitochondrial hyper-fusion in gilts and dysregulation of the muscle metabolome was greater in gilts than barrows. Additionally, we discovered HS caused sex-specific reductions in mitochondrial function. These changes were associated with decreased degradation of autophagosomes and markers of mitophagy in muscle from gilts, but not barrows. Finally, muscle from barrows appeared resistant to oxidative stress, whereas in muscle from gilts, HS increased oxidative modification of lipids and nucleic acids. In an independent experiment, we considered HS-mediated consequences in the myocardium and discovered that 1 day of HS caused ventricle-specific architectural and biochemical changes in gilts. Our future work will focus on continued testing of our working model and consideration of recovery from HS as well as development of effective management and therapeutic strategies that can be economically deployed to offset HS-mediated losses.
249 The Effects of Breed and Early Supplementation on Bovine Intramuscular Fat Deposition, Adipogenic and Lipogenic Gene Expression
Authors: Udoka Aliute-Nkoyo S , Jacobs Joshua L , Duckett Susan K 
Published: November 2023

Abstract
Wagyu cattle are known to deposit greater amounts of intramuscular fat, which can directly increase quality grade and carcass value. Supplementation can positively influence animal production and overall nutrient acquisition when used strategically. The objectives of this study were to evaluate 1) the effect of breed and early supplementation on intramuscular and subcutaneous fat deposition in Wagyu and Hereford cross calves, and 2) changes in adipogenic and lipogenic gene expression in longissimus muscle (LM) biopsies from Wagyu and Hereford cross calves during an early supplementation period. Angus cows (n = 34) were artificially inseminated with semen from a Wagyu bull. A Hereford bull was utilized as a clean-up bull. From this breeding, Wagyu cross steers (n = 8) and Hereford cross steers (n = 9) were produced and were placed on study on day 100 of age. At this time, calves were allowed access to four SuperSmart Feeder stalls and were individually supplemented with steam-rolled corn at 0.5% body weight (BWT). Calves were ultrasounded on day 0, day 43, and day 86 of the study to evaluate intramuscular fat deposition and backfat thickness. An longissimus muscle (LM) biopsy was taken on day 0 and day 86 of the study to evaluate gene expression. Supplemented steers tended (P &lt; 0.10) to have more backfat than non-supplemented steers. Intramuscular fat amount differed (P &lt; 0.05) by breed, while ribeye area tended (P &lt; 0.10) to differ by breed. Wagyu exhibited a greater (P &lt; 0.05) amount of intramuscular fat at the beginning and at the end of the study. Breed did not (P &gt; 0.05) influence backfat thickness. Neither breed nor supplementation affected (P &gt; 0.05) average daily gain or final body weights. Platelet-derived growth factor alpha (PDGRFA) and SREBP cleavage-activating protein (SCAP) differed (P &lt; 0.05) between biopsy phases. Fatty acid binding protein-4 (FABP4) and stearoyl-coA desaturase-1 (SCD1) did not differ (P &gt; 0.05) between breed or biopsy phase. In conclusion, changes in gene expression could indicate enhanced preadipocyte proliferation during this stage of calf development. Overall, supplementation altered backfat deposition but did not alter intramuscular fat levels. Opposingly, sire breed influenced intramuscular fat levels at an early age. A deeper understanding of the physical and molecular effects of supplementation and sire breed could provide additional avenues for manipulating adipose tissue.
254 Intestinal Oxidative Damages By F18+Escherichia Coli and Its Amelioration with an Antibacterial Bacitracin Fed to Nursery Pigs
Authors: Duarte Marcos Elias Elias , Stahl Chad , Kim Sung Woo 
Published: November 2023

Abstract
This study investigated the intestinal oxidative damages caused by F18+Escherichia coli and its amelioration with an antibacterial bacitracin fed to nursery pigs. Thirty-six weaned pigs (6.31 ± 0.08 kg BW) were allotted in RCBD. Treatments were: NC, not challenged/not treated; PC, challenged (F18+E. coli at 5.2 × 109 CFU)/not treated; AGP, challenged (F18+E. coli at 5.2 × 109 CFU)/treated with bacitracin (30 g/t). The F18+E. coli was orally inoculated to pigs on challenged treatments at d 7. The unchallenged pigs received an oral dose of sterile saline solution. The fecal score was recorded daily. Body weight and feed intake were recorded weekly. On d 14 and 28, fecal and blood samples were collected. On d 28, all pigs were euthanized to collect intestinal samples. F18+E. coli counting, microbiota composition, and intestinal health variables were analyzed. Data were analyzed using the mixed procedure on SAS 9.4. Overall, PC reduced (P &lt; 0.05) ADG (353 to 282 g), G:F (0.71 to 0.55), villus height (527 to 394 µm), and VH:CD (2.22 to 1.58), whereas AGP increased (P &lt; 0.05) ADG (298 to 344 g), and G:F (0.55 to 0.61). PC increased (P &lt; 0.05) fecal score from d 7 to 14 (3.0 to 4.6), from 14 to 21 (2.8 to 3.9), and from d 21 to 28 (2.5 to 3.2); increased F18+E. coli (5.9 to 7.5 log DNA) in feces at d 14, and protein carbonyl (2.15 to 3.61 nmol/mg protein) in jejunal mucosa. AGP reduced (P &lt; 0.05) fecal score from d 7 to 14 (4.6 to 4.0) and from d 14 to 21 (3.9 to 3.4) and reduced F18+E. coli (4.3 to 3.9 log DNA) in jejunal mucosa. PC reduced (P &lt; 0.05) Prevotella stercorea (5.1 to 1.5%) population in jejunal mucosa, whereas AGP increased (P &lt; 0.05) Phascolarctobacterium succinatutens (3.0 to 10.0%) and reduced (P &lt; 0.05) Mitsuokella jalaludinii (8.7 to 2.0%) populations in feces. Collectively, F18+E. coli challenge increased fecal score and disrupted the microbiota composition, harming intestinal health by increasing oxidative stress and damaging the intestinal epithelium, ultimately impairing growth performance. Dietary bacitracin reduced oxidative damages caused by F18+ E. coli thereby protecting intestinal health by reducing F18+E. coli population in jejunal mucosa and fecal score, consequently improving the growth performance of nursery pigs.
256 Effects of Lactobacillus Fermentate Replacing Bacitracin on Biomarkers Associated with Bacterial Cell Wall Recognition and Intestinal Integrity in Pigs
Authors: Duarte Marcos Elias Elias , Deng Zixiao , Eckhardt Erik , Kim Sung Woo 
Published: November 2023

Abstract
Two experiments were conducted to evaluate the efficacy of Lactobacillus fermentate (LBF) as postbiotic on immune response and barrier function in jejunal mucosa of nursery pigs challenged with F18+Escherichia coli. Sixty-four pigs (32 barrows and 32 gilts) weaned at 21 d of age with 7.9 ± 0.5 kg in Exp. 1 (n = 32) and 6.6 ± 0.7 kg in Exp. 2 (n = 32) were allotted based on a randomized complete block design with sex and initial BW as blocks. The treatments were NC: no challenge/no supplement; PC: E. coli challenge/no supplement; AGP: E. coli challenge/bacitracin (30 g/t feed); and PBT: E. coli challenge/postbiotic (2 kg/t feed). Pigs were fed a basal diet for 28 d, formulated to meet the nutrient requirements of NRC (2012). At d 7, the challenged pigs were orally inoculated with F18+E. coli. At d 28, pigs were euthanized to collect jejunal tissue to analyze gene expressions involved in bacterial cell wall recognition, immune response, and intestinal barrier function. Data were analyzed using the Proc MIXED of SAS 9.4. The PC tended to reduce (P = 0.097) the relative expression of PGLYRP2A (1.12 to 0.76) and increased (P &lt; 0.05) TLR4 (0.98 to 1.67) and NOD1 (0.99 to 1.56) compared with NC. The AGP tended to increase (P = 0.074) PGLYRP2A (0.76 to 1.15) and tended to reduce (P = 0.099) PGLYRP3 (1.21 to 0.82) compared with PC. The PBT increased (P &lt; 0.05) PGLYRP4 (0.86 to 1.53) compared with PC. The AGP tended to reduce (P = 0.085) TLR4 (1.67 to 0.98) compared with PC. The AGP and the PBT reduced (P &lt; 0.05) NOD1 (1.56 to 0.98 and 0.97, respectively) compared with PC. The PC tended to increase (P = 0.079) CD14 (1.13 to 2.13) compared with NC, however, PBT tended to reduce (P = 0.091) it (2.13 to 1.27) compared with PC. The AGP increased (P &lt; 0.05) interferon-γ (1.13 to 1.21) and the PBT tended to increase (P = 0.096) it (1.13 to 1.63) compared with PC. The AGP tended to increase (P = 0.082) claudin-1 (0.85 to 1.81) compared with PC. In conclusion, F18+E. coli challenge upregulated the expression of pathogen recognition genes, including TLR4, CD14, and NOD1, which can increase the production of cytokines associated with pro-inflammatory response. The AGP showed a trend towards increasing the intestinal barrier function, possibly by increasing the expression of interferon-γ and reducing the expression of genes associated with pathogen recognition. The PBT enhanced the immunocompetence of nursery pigs by increasing the expression of interferon-γ and PGLYRP4, and reducing the expression of genes associated with pathogen recognition including NOD1 and CD14, which may indicate a reduction of the pathogen invasion.
257 Effects of Prebiotic Galactooligosaccharide (GOS) on Hindgut Microbial Composition of Pigs During the Peri-Weaning Period
Authors: Boston Timothy E , Wang Feng , Xi Lin , Kim Sung Woo , Fellner Vivek , Scott Mark F , Ziegler Amanda L , Van Landeghem Laurianne , Blikslager Anthony T , Odle Jack 
Published: November 2023

Abstract
Galactooligosaccharide (GOS) is a prebiotic containing beta-linked galactose oligomers of 2 to 8 units. Previously, GOS positively impacted post-weaning growth performance and altered jejunal morphology. In this study, GOS-enriched whey permeate (Milk Specialties Global, Eden Prairie MN) was supplemented to piglets in farrowing and nursery phases. To maximize pre-weaning GOS intake, novel gruel creep feeders were used. Piglets from 24 litters received either no creep feed (NC), creep without GOS (CG-) or creep with 5.0% GOS (CG+) followed by a phase 1 nursery diet without (NG-) or with 3.8% GOS (NG+). At d 22 (pre-weaning) and d 31 (post-weaning), 6 pigs per treatment were euthanized for sample collection. DNA was extracted from cecal and rectal swabs for downstream 16S rRNA sequencing via Illumina MiSeq (Zymo Research Corp, Irvine CA). An amplicon sequence variant (ASV) table was created using the DADA2 pipeline in R and taxonomy assignment was performed using the SILVA database. Average sequencing depth after filtering was 138,323 and low sequencing counts were discarded based on 20% prevalence. Data were analyzed using the lmer and adonis procedures in RStudio ver. 4.2.2. Analysis of 16S rRNA genes did not detect pre- or post-weaning GOS effects on Chao1, Simpson, or Shannon alpha diversity measures (P &gt; 0.1). Similarly, no pre-weaning GOS effects were detected in Principal Coordinates Analysis (PCoA) beta diversity plots (P &gt; 0.1); however, pigs fed GOS post-weaning segregated from controls (P &lt; 0.01). The relative abundance of several genera including Fusicatenbacter and Collinsella increased by 2.0 and 1.3-fold, respectively, in the cecum of NG+ pigs, whereas, Bacteroides decreased by 3.8-fold (FDR, P &lt; 0.05). In the rectum, relative abundance of Corprococcus decreased by 2.0-fold and Fusicatenbacter increased by 1.5-fold in NG+ pigs compared with NG- pigs (FDR, P &lt; 0.05). Collectively, these genera in the cecum and rectum comprise of less than 3% of the total community. In contrast, lactobacillus in the cecum (33%) and rectum (21%) had a large relative abundance but was unaffected by treatment. We conclude that supplementation of GOS in the post-weaning phase 1 nursery diet alters the hindgut microbial community and may contribute to improvements in growth performance.