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- Author:
- Harvey C. Freetly, et al. ; Robert A. Cushman; Gary L. Bennett; Richard G. Tait; Anthony K. McNeel; Eduardo Casas; Timothy P.L. Smith; Show all 7 Authors
- Source:
- Theriogenology 2021 v.173 pp. 128-132
- ISSN:
- 0093-691X
- Subject:
- Angus; Hereford; Pinzgauer; Red Poll; beef; birth weight; calpastatin; calves; conception; diacylglycerol acyltransferase; estrus; genetic merit; genomics; heifers; marker-assisted selection; ovarian follicles; postpartum interval; prediction; puberty; regression analysis; reproductive performance; ultrasonics
- Abstract:
- ... Polymorphisms in μ-calpain (CAPN1) that beneficially associate with beef tenderness are reported to antagonistically associate with calving day in beef heifers and post-partum interval to estrus in beef cows. We, therefore, hypothesized that a molecular breeding value for slice shear force, calculated based on CAPN1 and calpastatin (CAST) genotypes, would demonstrate an antagonistic relationship b ...
- Handle:
- 10113/7465741
- DOI:
- 10.1016/j.theriogenology.2021.07.020
- https://doi.org/10.1016/j.theriogenology.2021.07.020
- Author:
- Harvey C Freetly, et al. ; Phillip R. Myer; Show all 2 Author
- Source:
- Proceedings of the Beef Improvement Federation Annual Meeting and Symposium 2016 v. no. pp. 65-74
- Subject:
- DNA; National Institute of Food and Agriculture; anaerobes; bacteria; beef; beef cattle; birds; body weight changes; cattle feeding; conceptus; diet; energy metabolism; feed conversion; food research; genetic traits; high-throughput nucleotide sequencing; humans; intestinal microorganisms; microbial communities; milk; nucleotide sequences; obesity; phenotype; rodents; rumen; rumen microorganisms
- Abstract:
- ... There is considerable variation in the efficiency that cattle convert feed for maintenance and product (body weight gain, milk, and conceptus). Both intake and gain are polygenic traits and to better understand factors that contribute to variation in feed efficiency more defined phenotypes are needed. Several studies have associated differences in the microbiota of the alimentary tract between obe ...
- Handle:
- 10113/5235113
- Author:
- Harvey C. Freetly, et al. ; Kashly R. Schweer; Stephen D. Kachman; Larry A. Kuehn; John E. Pollak; Matthew L. Spangler; Show all 6 Authors
- Source:
- Journal of animal science 2018 v.96 no.6 pp. 2086-2098
- ISSN:
- 1525-3163
- Subject:
- Bayesian theory; Markov chain; beef cattle; beef industry; bivariate analysis; breeding value; breeds; crossbreds; feed conversion; feed intake; feed prices; genetic variation; genome-wide association study; genotyping; haplotypes; heifers; models; phenotype; quantitative trait loci; single nucleotide polymorphism; sires; steers
- Abstract:
- ... Feed costs comprise the majority of variable expenses in beef cattle systems making feed efficiency an important economic consideration within the beef industry. Due to the expense of recording individual feed-intake phenotypes, a genomic-enabled approach could be advantageous toward improving this economically relevant trait complex. A genome-wide association study (GWAS) was performed using 748 ...
- Handle:
- 10113/6472295
- DOI:
- 10.1093/jas/sky119
- PubMed:
- 29617803
- PubMed Central:
- PMC6095269
- https://doi.org/10.1093/jas/sky119
- Author:
- Harvey C. Freetly, et al. ; Richard G. Tait; Robert A. Cushman; Anthony K. McNeel; Eduardo Casas; Timothy P.L. Smith; Gary L. Bennett; Show all 7 Authors
- Source:
- Theriogenology 2018 v.113 pp. 1-7
- ISSN:
- 0093-691X
- Subject:
- Angus; additive effect; beef; beef cows; body condition; body weight; breeding season; calpastatin; calves; calving; carcass quality; gene frequency; genetic markers; haplotypes; heifers; height; heterozygosity; hips; homozygosity; inheritance (genetics); marker-assisted selection; ovarian follicles; pleiotropy; pregnancy; reproductive traits; somatotropin receptors; weaning
- Abstract:
- ... Genetic marker effects and type of inheritance are estimated with poor precision when minor marker allele frequencies are low. An Angus population was subjected to marker assisted selection for multiple years to equalize CAPN1 haplotypes, CAST, and GHR genetic marker frequencies. The objective was to estimate the pleiotropic effects of these carcass quality oriented markers for body weight, reprod ...
- Handle:
- 10113/5922794
- DOI:
- 10.1016/j.theriogenology.2018.02.002
- CHORUS:
- 10.1016/j.theriogenology.2018.02.002
- https://doi.org/10.1016/j.theriogenology.2018.02.002
- Author:
- Harvey C. Freetly, et al. ; Phillip R. Myer; MinSeok Kim; Timothy P.L. Smith; Show all 4 Authors
- Source:
- Journal of microbiological methods 2016 v.127 pp. 132-140
- ISSN:
- 0167-7012
- Subject:
- Proteobacteria; Verrucomicrobia; bacterial communities; databases; genes; high-throughput nucleotide sequencing; phylogeny; ribosomal RNA; rumen bacteria; species diversity; steers
- Abstract:
- ... Next generation sequencing technologies have vastly changed the approach of sequencing of the 16S rRNA gene for studies in microbial ecology. Three distinct technologies are available for large-scale 16S sequencing. All three are subject to biases introduced by sequencing error rates, amplification primer selection, and read length, which can affect the apparent microbial community. In this study, ...
- DOI:
- 10.1016/j.mimet.2016.06.004
- CHORUS:
- 10.1016/j.mimet.2016.06.004
- Chorus Open Access:
- 10.1016/j.mimet.2016.06.004
- https://doi.org/10.1016/j.mimet.2016.06.004
- Author:
- Harvey C. Freetly, et al. ; Virginia M. Artegoitia; Andrew P. Foote; Ronald M. Lewis; Show all 4 Authors
- Source:
- Scientific Reports 2017 v.7 no.2864 pp. -
- ISSN:
- 2045-2322
- Subject:
- average daily gain; biohydrogenation; blood; body weight; crossbreds; discriminant analysis; dry matter intake; fatty acids; feed conversion; least squares; liquid chromatography; mass spectrometry; metabolites; metabolomics; rumen fermentation; rumen fluids; slaughter; steers; t-test
- Abstract:
- ... The rumen has a central role in the efficiency of digestion in ruminants. To identify potential differences in rumen function that lead to differences in average daily gain (ADG), rumen fluid metabolomic analysis by LC-MS and multivariate/univariate statistical analysis were used to identify differences in rumen metabolites. Individual feed intake and body-weight was measured on 144 steers during ...
- Handle:
- 10113/5700739
- DOI:
- 10.1038/s41598-017-02856-0
- PubMed:
- 28588266
- PubMed Central:
- PMC5460109
- https://doi.org/10.1038/s41598-017-02856-0
- Author:
- Harvey C. Freetly, et al. ; Courtney N. Hemphill; Tryon A. Wickersham; Jason E. Sawyer; T. M. Brown-Brandl; Kristin E. Hales; Show all 6 Authors
- Source:
- Journal of animal science 2018 v.96 no.3 pp. 1171-1180
- ISSN:
- 1525-3163
- Subject:
- body weight; calorimetry; cattle feeding; corn; corn stover; diet; digestion; dry matter intake; energy balance; excretion; fetal development; heat; heifers; methane; methane production; monensin; nitrogen; nitrogen balance; urine
- Abstract:
- ... The objective of this study was to determine if feeding monensin would improve diet digestion, energy and nitrogen balance in bred heifers receiving a limit-fed corn stalk-based diet. Sixteen pregnant Meat Animal Research Center (MARC) III composite heifers were used in a 161 d completely randomized design. Heifers were randomly assigned to 1 of 2 treatments, no monensin (CON) or 150 mg/d monensin ...
- Handle:
- 10113/6472204
- DOI:
- 10.1093/jas/skx030
- PubMed:
- 29617807
- PubMed Central:
- PMC6093575
- https://doi.org/10.1093/jas/skx030
- Author:
- Harvey C. Freetly, et al. ; Phillip R. Myer; MinSeok Kim; Timothy P.L. Smith; Show all 4 Authors
- Source:
- Data in Brief 2016 v.8 pp. 1048-1053
- ISSN:
- 2352-3409
- Subject:
- bacterial communities; metagenomics; nucleotide sequences; phylogeny
- Abstract:
- ... Amplicon sequencing utilizing next-generation platforms has significantly transformed how research is conducted, specifically microbial ecology. However, primer and sequencing platform biases can confound or change the way scientists interpret these data. The Pacific Biosciences RSII instrument may also preferentially load smaller fragments, which may also be a function of PCR product exhaustion d ...
- DOI:
- 10.1016/j.dib.2016.07.027
- PubMed:
- 27508263
- PubMed Central:
- PMC4969246
- CHORUS:
- 10.1016/j.dib.2016.07.027
- Chorus Open Access:
- 10.1016/j.dib.2016.07.027
- https://doi.org/10.1016/j.dib.2016.07.027
- Author:
- Harvey C. Freetly, et al. ; Henry A. Paz; Kristin E. Hales; James E. Wells; Larry A. Kuehn; Elaine D, Berry; Michael D. Flythe; Matthew L. Spangler; Samodha C. Fernando; Show all 9 Authors
- Source:
- Journal of animal science 2018 v.96 no.3 pp. 1045-1058
- ISSN:
- 1525-3163
- Subject:
- Lachnospiraceae; Victivallaceae; bacterial communities; beef cattle; biogeochemical cycles; community structure; diet; feed conversion; heifers; microbiome; models; phenotype; regression analysis; ribosomal RNA; rumen; rumen bacteria; sequence analysis; steers
- Abstract:
- ... The importance of the rumen microbiota on nutrient cycling to the animal is well recognized; however, our understanding of the influence of the rumen microbiome composition on feed efficiency is limited. The rumen microbiomes of two large animal cohorts (125 heifers and 122 steers) were characterized to identify specific bacterial members (operational taxonomic units [OTUs]) associated with feed e ...
- Handle:
- 10113/6472203
- DOI:
- 10.1093/jas/skx081
- PubMed:
- 29617864
- PubMed Central:
- PMC6093515
- https://doi.org/10.1093/jas/skx081
- Author:
- Harvey C. Freetly, et al. ; Phillip R. Myer; James E. Wells; Timothy P.L. Smith; Larry A. Kuehn; Show all 5 Authors
- Source:
- SpringerPlus 2015 v.4 no. pp. 454
- ISSN:
- 2193-1801
- Subject:
- Butyrivibrio; Oscillospira; Prevotella; Pseudobutyrivibrio; Sphingomonadaceae; average daily gain; body weight; colon; feed conversion; feed intake; fermentation; genes; high-throughput nucleotide sequencing; intestinal microorganisms; microbial communities; nucleotide sequences; ribosomal RNA; rumen microorganisms; species diversity; steers
- Abstract:
- ... Ruminal microbial fermentation plays an essential role in host nutrition, and as a result, the rumen microbiota have been a major focus of research examining bovine feed efficiency. Microbial communities within other sections of the gastrointestinal tract may also be important with regard to feed efficiency, since it is critical to the health and nutrition of the host. The objective of this study ...
- Handle:
- 10113/61315
- DOI:
- 10.1186/s40064-015-1201-6
- PubMed:
- 26322260
- PubMed Central:
- PMC4549364
- https://doi.org/10.1186/s40064-015-1201-6
- Author:
- Harvey C. Freetly, et al. ; Olivia L. Amundson; Erin L. Larimore; Anthony K. McNeel; Chad C. Chase; Robert A. Cushman; George A. Perry; Show all 7 Authors
- Source:
- Animal reproduction science 2016 v.173 pp. 56-62
- ISSN:
- 0378-4320
- Subject:
- ammonia; beef cattle; blastocyst; blood glucose; body weight; breeding season; estrus; glucose; heifers; high protein diet; in vitro fertilization; nitrogen; oocytes; pH; pregnancy rate; reproductive performance; ultrasonography; urea; urea nitrogen
- Abstract:
- ... Diets high in protein are associated with lower reproductive performance and changes in the uterine environment. The objective of this study was to determine the effect of elevated systemic concentrations of urea nitrogen on the uterine environment and pregnancy success in beef heifers. Heifers (n=150) were matched by breed, age, and body weight then randomly assigned to one of two dietary treatme ...
- DOI:
- 10.1016/j.anireprosci.2016.08.011
- https://doi.org/10.1016/j.anireprosci.2016.08.011
- Author:
- Harvey C. Freetly, et al. ; Phillip R. Myer; Timothy P. L. Smith; James E. Wells; Larry A. Kuehn; Show all 5 Authors
- Source:
- Plos One 2015 v.10 no.6 pp. -
- ISSN:
- 1932-6203
- Subject:
- Firmicutes; alfalfa hay; cattle feeding; corn; distillers grains; feed conversion; feed intake; feed supplements; genes; high-throughput nucleotide sequencing; humans; liveweight gain; mice; microbiome; nucleotide sequences; ribosomal RNA; rumen bacteria; rumen fluids; steers; urea
- Abstract:
- ... The cattle rumen has a diverse microbial ecosystem that is essential for the host to digest plant material. Extremes in body weight (BW) gain in mice and humans have been associated with different intestinal microbial populations. The objective of this study was to characterize the microbiome of the cattle rumen among steers differing in feed efficiency. Two contemporary groups of steers (n=148 an ...
- Handle:
- 10113/60941
- DOI:
- 10.1371/journal.pone.0129174
- PubMed:
- 26030887
- PubMed Central:
- PMC4451142
- https://doi.org/10.1371/journal.pone.0129174
- Author:
- Harvey C. Freetly, et al. ; K. J. Retallick; R. L. Weaber; M. D. MacNeil; H. L. Bradford; Kristin E. Hales; D. W. Moser; W. M. Snelling; R. Mark Thallman; Larry A. Kuehn; Show all 10 Authors
- Source:
- Journal of animal science 2017 v.95 no.4 pp. 1444-1450
- ISSN:
- 0021-8812
- Subject:
- additive effect; animal growth; animal models; average daily gain; breed differences; calves; covariance; equations; feed conversion; feed intake; feed prices; finishing; genetic correlation; genetic variance; heifers; heterosis; selection response; steers; weaning weight; yearlings; Nebraska
- Abstract:
- ... Feed costs are a major economic expense in finishing and developing cattle; however, collection of feed intake data is costly. Examining relationships among measures of growth and intake, including breed differences, could facilitate selection for efficient cattle. Objectives of this study were to estimate genetic parameters for growth and intake traits and compare indices for feed efficiency to a ...
- Handle:
- 10113/5700711
- DOI:
- 10.2527/jas2016.1260
- https://doi.org/10.2527/jas2016.1260
- Author:
- Harvey C. Freetly, et al. ; Amanda K. Lindholm-Perry; Rebecca J. Kern; Brittney N. Keel; Warren M. Snelling; Larry A. Kuehn; Show all 6 Authors
- Source:
- Frontiers in genetics 2016 v.7 no.127 pp. 1-9
- ISSN:
- 1664-8021
- Subject:
- aldosterone; antigens; beef cattle; coagulation; epithelial cells; feed conversion; feed intake; gene dosage; gene expression; gene expression regulation; heat shock proteins; immune response; microarray technology; multigene family; olfactory receptors; prothrombin; rumen; small intestine; spleen; stress response; transcriptome; ubiquitination; weight gain
- Abstract:
- ... We have previously identified components of the immune system contributing to feed intake and gain in both the rumen and small intestine of beef steers. In this study, we examined the spleen, a major lymphatic organ near the digestive tract, to determine whether it was also contributing to an animal’s feed efficiency status through immune responses. Animals (n=16) that were divergent for gain and ...
- Handle:
- 10113/5661749
- DOI:
- 10.3389/fgene.2016.00127
- PubMed:
- 27504120
- PubMed Central:
- PMC4958634
- https://doi.org/10.3389/fgene.2016.00127
- Author:
- Harvey C. Freetly, et al. ; Richard Mark Thallman; Larry A. Kuehn; Warren M. Snelling; Kelli J. Retallick; Jennifer M. Bormann; Kristen E. Hales; Gary L. Bennett; Robert L. Weaber; Daniel W. Moser; Michael D. MacNeil; Show all 11 Authors
- Source:
- Journal of animal science 2018 v.96 no.3 pp. 854-866
- ISSN:
- 0021-8812
- Subject:
- beef cattle; data collection; feed conversion; feed intake; genetic correlation; heifers; pedigree; selection index; selection response; steers; weaning; yearlings
- Abstract:
- ... Shortening the period of recording individual feed intake may improve selection response for feed efficiency by increasing the number of cattle that can be recorded given facilities of fixed capacity. Individual DMI and ADG records of 3,462 steers and 2,869 heifers over the entire intake recording period (range 62 to 154 d; mean 83 d; DMI83 and ADG83, respectively), DMI and ADG for the first 42 d ...
- Handle:
- 10113/6472296
- DOI:
- 10.1093/jas/skx077
- PubMed:
- 29401225
- PubMed Central:
- PMC6093535
- https://doi.org/10.1093/jas/skx077
- Author:
- Harvey C. Freetly, et al. ; Rebecca J. Kern; Amanda K. Lindholm-Perry; Warren M. Snelling; John W. Kern; John W. Keele; Jeremy R. Miles; Andrew P. Foote; William T. Oliver; Larry A. Kuehn; Paul A. Ludden; Show all 11 Authors
- Source:
- Gene 2016 v.586 no.1 pp. 12-26
- ISSN:
- 0378-1119
- Subject:
- RNA; apoptosis; beef; beef cattle; biochemical pathways; feed conversion; feed intake; feeds; gene expression regulation; genes; genomics; immunologic diseases; meat production; metabolic diseases; mortality; nucleotide sequences; phenotype; quantitative polymerase chain reaction; rumen; ruminant nutrition; statistical analysis; steers; transcriptome; volatile fatty acids
- Abstract:
- ... Feed intake and gain are economically important traits in beef production. The rumen wall interacts with feed, microbial populations, and fermentation products important to cattle nutrition. As such, it is likely to be a critical component in the beef steer's ability to utilize feedstuffs efficiently. To identify genes associated with steer feed intake and body weight gain traits, and to gain an u ...
- Handle:
- 10113/62352
- DOI:
- 10.1016/j.gene.2016.03.034
- https://doi.org/10.1016/j.gene.2016.03.034
- Author:
- Harvey C. Freetly, et al. ; Amanda K. Lindholm-Perry; Larry A. Kuehn; William T. Oliver; Andrea K. Sexten; Jeremy R. Miles; Lea A. Rempel; Robert A. Cushman; Heiner Niemann; Show all 9 Authors
- Source:
- PloS one v.8 no.11 pp. -
- ISSN:
- 1932-6203
- Subject:
- adipose tissue; average daily gain; average daily intake; beef cattle; bioactive properties; birth weight; carcass weight; cattle feeds; cows; fat thickness; feed intake; gene expression; genes; genetic markers; heifers; messenger RNA; muscle tissues; quantitative polymerase chain reaction; steers
- Abstract:
- ... A region on bovine chromosome 6 has been implicated in cattle birth weight, growth, and length. Non-SMC conodensin I complex subunit G (NCAPG) and ligand dependent nuclear receptor corepressor-like protein (LCORL) are positional candidate genes within this region. Previously identified genetic markers in both genes were associated with average daily gain (ADG) and average daily feed intake (ADFI) ...
- Handle:
- 10113/58066
- DOI:
- 10.1371/journal.pone.0080882
- PubMed:
- 24278337
- PubMed Central:
- PMC3835320
- https://doi.org/10.1371/journal.pone.0080882
- Author:
- Harvey C. Freetly, et al. ; Amanda K. Lindholm-Perry; Larry A. Kuehn; Lea A. Rempel; Timothy P.L. Smith; Robert A. Cushman; Tara G. McDaneld; Tommy L. Wheeler; Steven D. Shackelford; David A. King; Show all 10 Authors
- Source:
- Frontiers in genetics 2012 v.3 pp. 1-9
- ISSN:
- 1664-8021
- Subject:
- adipokines; adipose tissue; alleles; beef cattle; beef quality; body condition; carcass quality; carcass weight; cattle breeds; cattle production; chromosomes; fat thickness; feed intake; gene expression; genetic markers; genetic variation; heifers; liveweight gain; marbling; messenger RNA; metabolic syndrome; obesity; phenotype; siblings; single nucleotide polymorphism; steers; yearlings
- Abstract:
- ... A previous study in cattle based on >48,000 markers identified markers on chromosome 4 near the chemerin gene associated with average daily feed intake (ADFI) in steers (P < 0.008). Chemerin is an adipokine associated with obesity and metabolic syndrome in humans, representing a strong candidate gene potentially underlying the observed association. To evaluate whether the bovine chemerin gene is i ...
- Handle:
- 10113/57625
- DOI:
- 10.3389/fgene.2012.00039
- PubMed:
- 22479267
- PubMed Central:
- PMC3314841
- https://doi.org/10.3389/fgene.2012.00039
- Author:
- Harvey C. Freetly, et al. ; Mahdi Saatchi; Jonathan E. Beever; Jared E. Decker; Dan B. Faulkner; Stephanie L. Hansen; Helen Yampara-Iquise; Kristen A. Johnson; Stephen D. Kachman; Monty S. Kerley; JaeWoo Kim; Daniel D. Loy; Elisa Marques; Holly L. Neibergs; E. John Pollak; Robert D. Schnabel; Christopher M. Seabury; Daniel W. Shike; Warren M. Snelling; Matthew L. Spangler; Robert L. Weaber; Dorian J. Garrick; Jeremy F. Taylor; Show all 23 Authors
- Source:
- BMC genomics 2014 v.15 no.1 pp. 1004
- ISSN:
- 1471-2164
- Subject:
- Angus; average daily gain; beef cattle; body weight; carbohydrates; cytokines; dry matter intake; fatty acids; feed conversion; food law; genes; genetic markers; genetic variance; genotype; long-chain-fatty-acid-CoA ligase; marker-assisted selection; nitrogen metabolism; phenotype; quantitative trait loci; signal transduction; single nucleotide polymorphism
- Abstract:
- ... Background: The identification of genetic markers associated with complex traits that are expensive to record such as feed intake or feed efficiency would allow these traits to be included in selection programs. To identify large-effect QTL, we performed a series of genome-wide association studies and functional analyses using 50K and 770K SNP genotypes scored in 5,133 animals from 4 independent b ...
- Handle:
- 10113/60010
- DOI:
- 10.1186/1471-2164-15-1004
- PubMed:
- 25410110
- PubMed Central:
- PMC4253998
- https://doi.org/10.1186/1471-2164-15-1004