Animal Sciences publications (MU)
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Items in this collection are the scholarly output of the Division of Animal Sciences faculty, staff, and students, either alone or as co-authors, and which may or may not have been published in an alternate format. Items may contain more than one file type.
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Item Resistance to coronavirus infection in amino peptidase N-deficient pigs(Springer International Publishing, 2019) Whitworth, K.M.; Rowland, R.R.R.; Petrovan, V.; Sheahan, M.; Cino-Ozuna, A.G.; Fang, Y.; Hesse, R.; Mileham, A.; Samuel, M.S.; Wells, K.D.; Prather, R.S.; Animal ScienceThe alphacoronaviruses, transmissible gastroenteritis virus (TGEV) and Porcine epidemic diarrhea virus (PEDV) are sources of high morbidity and mortality in neonatal pigs, a consequence of dehydration caused by the infection and necrosis of enterocytes. The biological relevance of amino peptidase N (ANPEP) as a putative receptor for TGEV and PEDV in pigs was evaluated by using CRISPR/Cas9 to edit exon 2 of ANPEP resulting in a premature stop codon. Knockout pigs possessing the null ANPEP phenotype and age matched wild type pigs were challenged with either PEDV or TGEV. Fecal swabs were collected daily from each animal beginning 1 day prior to challenge with PEDV until the termination of the study. The presence of virus nucleic acid was determined by PCR. ANPEP null pigs did not support infection with TGEV, but retained susceptibility to infection with PEDV. Immunohistochemistry confirmed the presence of PEDV reactivity and absence of TGEV reactivity in the enterocytes lining the ileum in ANPEP null pigs. The different receptor requirements for TGEV and PEDV have important implications in the development of new genetic tools for the control of enteric disease in pigs.Item Effects of dry or wet conditions during the preweaning phase on subsequent feedlot performance and carcass composition of beef cattle(Oxford University Press, 2019) Gatson, G.A.; Gunn, P.J.; Busby, W.D.; Wiegand, B.R.; Vander, Ley B.L.; Meyer, A.M.; Animal ScienceOur objective was to determine the effects of dry and wet conditions during the preweaning on subsequent feedlot performance and carcass characteristics of beef cattle. Steers (n = 7,432) and heifers (n = 2,361) finished in 16 feedlots in southwestern Iowa through the Tri-County Steer Carcass Futurity Cooperative were used for a retrospective analysis. Cattle originated in the Midwest (Iowa, Missouri, Indiana, Illinois, and Minnesota) and were born in February, March, or April of 2002 through 2013. Feedlot performance and carcass composition data were obtained for each animal. Palmer Drought Severity Index (PDSI) values were obtained for each animal's preweaning environment on a monthly basis. Mean PDSI values were used to classify conditions as dry ([less than or equal to]-2.0), normal (>-2.0 and <2.0), or wet ([greater than or equal to]2.0) for the cool (April and May), warm (June through August), and combined (April through August) forage growing seasons preweaning. Mixed models were used to evaluate the effects of PDSI class on subsequent performance. Calf sex, date of birth (as day of year), year, and feedlot were also included as fixed effects. When considering PDSI class during the cool season, cattle from normal and wet classes had a greater feedlot delivery BW (P < 0.0001) than dry. Dry and normal classes had greater (P [less than or equal to] 0.02) delivery BW than wet during the warm and combined seasons, however. For the cool season, average daily gain was greater (P < 0.0001) for the dry class than normal and wet. Cattle from the normal class for the cool season had greater (P = 0.001) final BW than wet, but the wet class had the greatest (P < 0.04) and dry class had the lowest (P < 0.01) final BW during the warm season. During the cool season, HCW was greater (P < 0.007) for the normal than wet class, although HCW was greater (P [less than or equal to] 0.02) for wet compared with dry and normal during the warm season. Calculated yield grade was lower (P [less than or equal to] 0.006) for the normal class during the cool season compared with dry and wet. For both the warm and combined seasons, the dry class had lower (P [less than or equal to] 0.004) calculated yield grade compared with normal and wet. Carcasses from cattle that experienced normal or wet warm seasons had greater (P [less than or equal to] 0.0005) marbling scores than dry, and normal had greater (P = 0.0009) marbling score than dry for the combined seasons. In conclusion, these data indicate that both dry and wet conditions during the preweaning phase may impact ultimate feedlot performance and carcass composition.Item QTL-mapping and genomic prediction for bovine respiratory disease in U.S. Holsteins using sequence imputation and feature selection(BioMed Central Ltd., 2019) Hoff, J. L.; Decker, J. E.; Schnabel, R. D.; Seabury, C. M.; Neibergs, H. L.; Taylor, J. F.; Animal ScienceBackground: National genetic evaluations for disease resistance do not exist, precluding the genetic improvement of cattle for these traits. We imputed BovineHD genotypes to whole genome sequence for 2703 Holsteins that were cases or controls for Bovine Respiratory Disease and sampled from either California or New Mexico to construct and compare genomic prediction models. The sequence variation reference dataset comprised variants called for 1578 animals from Run 5 of the 1000 Bull Genomes Project, including 450 Holsteins and 29 animals sequenced from this study population. Genotypes for 9,282,726 variants with minor allele frequencies ?5 percent were imputed and used to obtain genomic predictions in GEMMA using a Bayesian Sparse Linear Mixed Model. Results: Variation explained by markers increased from 13.6 percent using BovineHD data to 14.4 percent using imputed whole genome sequence data and the resolution of genomic regions detected as harbouring QTL substantially increased. Explained variation in the analysis of the combined California and New Mexico data was less than when data for each state were separately analysed and the estimated genetic correlation between risk of Bovine Respiratory Disease in California and New Mexico Holsteins was - 0.36. Consequently, genomic predictions trained using the data from one state did not accurately predict disease risk in the other state. To determine if a prediction model could be developed with utility in both states, we selected variants within genomic regions harbouring: 1) genes involved in the normal immune response to infection by pathogens responsible for Bovine Respiratory Disease detected by RNA-Seq analysis, and/or 2) QTL identified in the association analysis of the imputed sequence variants. The model based on QTL selected variants is biased but when trained in one state generated BRD risk predictions with positive accuracies in the other state. Conclusions: We demonstrate the utility of sequence-based and biology-driven model development for genomic selection. Disease phenotypes cannot be routinely recorded in most livestock species and the observed phenotypes may vary in their genomic architecture due to variation in the pathogen composition across environments. Elucidation of trait biology and genetic architecture may guide the development of prediction models with utility across breeds and environments.Item Improvement of in vitro and early in utero porcine clone development after somatic donor cells are cultured under hypoxia(John Wiley and Sons Inc., 2019) Mordhorst, B. R.; Benne, J. A.; Cecil, R. F.; Whitworth, K. M.; Samuel, M. S.; Spate, L. D.; Murphy, C. N.; Wells, K. D.; Green, J. A.; Prather, R. S.; Animal ScienceGenetically engineered pigs serve as excellent biomedical and agricultural models. To date, the most reliable way to generate genetically engineered pigs is via somatic cell nuclear transfer (SCNT), however, the efficiency of cloning in pigs is low (1–3 percent). Somatic cells such as fibroblasts frequently used in nuclear transfer utilize the tricarboxylic acid cycle and mitochondrial oxidative phosphorylation for efficient energy production. The metabolism of somatic cells contrasts with cells within the early embryo, which predominately use glycolysis. We hypothesized that fibroblast cells could become blastomere-like if mitochondrial oxidative phosphorylation was inhibited by hypoxia and that this would result in improved in vitro embryonic development after SCNT. In a previous study, we demonstrated that fibroblasts cultured under hypoxic conditions had changes in gene expression consistent with increased glycolytic/gluconeogenic metabolism. The goal of this pilot study was to determine if subsequent in vitro embryo development is impacted by cloning porcine embryonic fibroblasts cultured in hypoxia. Here we demonstrate that in vitro measures such as early cleavage, blastocyst development, and blastocyst cell number are improved (4.4 percent, 5.5 percent, and 17.6 cells, respectively) when donor cells are cultured in hypoxia before nuclear transfer. Survival probability was increased in clones from hypoxic cultured donors compared to controls (8.5 vs. 4.0 [plus or minus] 0.2). These results suggest that the clones from donor cells cultured in hypoxia are more developmentally competent and this may be due to improved nuclear reprogramming during somatic cell nuclear transfer.Item Concurrent and long-term associations between the endometrial microbiota and endometrial transcriptome in postpartum dairy cows(BioMed Central Ltd., 2019) Moore, S. G.; Ericsson, A. C.; Behura, S. K.; Lamberson, W. R.; Evans, T. J.; McCabe, M. S.; Poock, S. E.; Lucy, M. C.; Animal ScienceBackground: Fertility in dairy cows depends on ovarian cyclicity and on uterine involution. Ovarian cyclicity and uterine involution are delayed when there is uterine dysbiosis (overgrowth of pathogenic bacteria). Fertility in dairy cows may involve a mechanism through which the uterine microbiota affects ovarian cyclicity as well as the transcriptome of the endometrium within the involuting uterus. The hypothesis was that the transcriptome of the endometrium in postpartum cows would be associated with the cyclicity status of the cow as well as the microbiota during uterine involution. The endometrium of first lactation dairy cows was sampled at 1, 5, and 9 weeks postpartum. All cows were allowed to return to cyclicity without intervention until week 5 and treated with an ovulation synchronization protocol so that sampling at week 9 was on day 13 of the estrous cycle. The endometrial microbiota was measured by 16S rRNA gene sequencing and principal component analysis. The endometrial transcriptome was measured by mRNA sequencing, differential gene expression analysis, and Ingenuity Pathway Analysis. Results: The endometrial microbiota changed from week 1 to week 5 but the week 5 and week 9 microbiota were similar. The endometrial transcriptome differed for cows that were either cycling or not cycling at week 5 and cyclicity status depended in part on the endometrial microbiota. Compared with cows cycling at week 5, there were large changes in the transcriptome of cows that progressed from non-cycling at week 5 to cycling at week 9. There was evidence for concurrent and longer-term associations between the endometrial microbiota and transcriptome. The week 1 endometrial microbiota had the greatest effect on the subsequent endometrial transcriptome and this effect was greatest at week 5 and diminished by week 9. Conclusions: The cumulative response of the endometrial transcriptome to the microbiota represented the combination of past microbial exposure and current microbial exposure. The endometrial transcriptome in postpartum cows, therefore, depended on the immediate and longer-term effects of the uterine microbiota that acted directly on the uterus. There may also be an indirect mechanism through which the microbiome affects the transcriptome through the restoration of ovarian cyclicity postpartum.