Alison Van Eennnaam's Publications, Outreach, and Applied Research

Recent Publications (2011-2018)

Buchanan, J., MacNeil, M.D., Raymond, R.C., Nilles, A.R., Van Eenennaam, A.L. 2018 Comparison of economic returns among genetic evaluation strategies in a 2-tiered Charolais-sired beef cattle production system. Journal of Animal Science 96(10):4076-4086.

Pohlmeier, W., R. C. Hovey, and A. L. Van Eenennaam. 2011. Reproductive abnormalities in mice expressing omega-3 fatty acid desaturase in their mammary glands. Transgenic Research. 20:283-92.

Wong, A.C., and A. L. Van Eenennaam. 2011. FLPe functions in zebrafish embryos. Transgenic Research. 20:409–415.

Van Eenennaam, A. L., J.H. van der Werf, and M.E. Goddard. 2011. The value of using DNA markers for beef bull selection in the seedstock sector. Journal of Animal Science. 89:307-320.

Van Eenennaam, A. L. E. M. Hallerman, and W.M. Muir. 2011. The Science and Regulation of Food from Genetically Engineered Animals. Council for Agricultural Science and Technology (CAST) Commentary QTA2011-2. CAST, Ames, Iowa.

Cooprider, K. L., F. M. Mitloehner, T. R. Famula, E. Kebreab, Y. Zhao, and A. L. Van Eenennaam. 2011. Feedlot efficiency implications on greenhouse gas emissions and sustainability. Journal of Animal Science. 89:2643-56

Van Eenennaam, A. L. 2011. Beef translational genomics: Lessons from the literature. Association for the Advancement of Animal Breeding and Genetics. 19: 271-278.

Van Eenennaam, A.L. and W.M. Muir. 2011. Transgenic salmon: a final leap to the grocery shelf? Nature Biotechnology. 29: 706–710

Rincon, G., K.L. Weber, A.L. Van Eenennaam, B.L. Golden, and J.F. Medrano. 2011. Performance of bovine high density genotyping platforms in Holsteins and Jerseys. Journal of Dairy Science. 94: 6116–6121.

Q. Duan, R. G. Tait Jr, M.S. Mayes, D J. Garrick, Q. Liu, A. L. Van Eenennaam, R.G. Mateescu, D.L.Van Overbeke, A.J. Garmyn, D.C. Beitz, and J.M. Reecy. 2012. Genetic polymorphisms in bovine transferrin receptor 2 (TFR2) and solute carrier family 40 (iron-regulated transporter), member 1 (SLC40A1) genes and their association with beef iron content. Animal Genetics. 4:115-22.

Van Eenennaam, A. L., and D. J. Drake. 2012. Where in the beef cattle supply chain might DNA tests generate value? Livestock Production Science. 52(3) 185-196.

Mateescu RG, Garmyn AJ, O'Neil MA, Tait RG Jr, Abuzaid A, Mayes MS, Garrick DJ, Van Eenennaam AL, Vanoverbeke DL, Hilton GG, Beitz DC, Reecy JM. 2012. Genetic parameters for carnitine, creatine, creatinine, carnosine, and anserine concentration in longissimus muscle and their association with palatability traits in Angus cattle.  Journal of Animal Science. 90:4248-4255.

Weber, K. L., R. M. Thallman, J. W. Keele, W. M. Snelling, G. L. Bennett, T. P. L. Smith, T. G. McDaneld, M. F. Allan, A. L. Van Eenennaam, and L. A. Kuehn. 2012.  Accuracy of genomic breeding values in multi-breed beef cattle populations derived from deregressed breeding values and phenotypes. Journal of Animal Science. 90:4191-4202

Weber, K. L., D. J. Drake, J. F. Taylor, D. J. Garrick, L.A. Kuehn, R. M. Thallman, R. D. Schnabel, W. M. Snelling, E. J. Pollak, A. L. Van Eenennaam. 2012. The accuracies of DNA-based genetic merit prediction equations derived from Angus- and multi-breed beef cattle training populations. Journal of Animal Science. 90:4177-4190.

Mateescu, RG, Garmyn, AJ, Tait, RG, Duan, Q, Liu, Q, Mayes, MS, Garrick, DJ, Van Eenennaam, AL, Vanoverbeke, DL, Hilton, GG, Beitz, DC, Reecy, JM. 2013. Genetic parameters for concentrations of minerals in longissimus muscle and their associations with palatability traits in Angus cattle. Journal of Animal Science, 91: 1067-75.

Mateescu, RG, Garrick, DJ, Tait, RG, Garmyn, AJ, Duan, Q, Liu, Q, Mayes, MS, Van Eenennaam, AL, Vanoverbeke, DL, Hilton, GG, Beitz, DC, Reecy, JM. 2013. Genome-wide association study of concentrations of iron and other minerals in longissimus muscle. Journal of Animal Science, 91: 3593-3600.

Van Eenennaam, A.L., W. M. Muir, and E. A. Hallerman. 2013. Is Unaccountable Regulatory Delay and Political Interference Undermining the FDA and Hurting American Competitiveness? A Response to Tim Schwab’s ‘Is FDA Ready to Regulate the World’s First Biotech Food Animal’? The Food and Drug Law Institute (FDLI) Food and Drug Policy Forum. Volume 3 (12) July 24, 2013.

Van Eenennaam, A.L. 2013. GMOs in Animal Agriculture: Time to Include a Risk: Benefit Analysis in Regulatory Decisions. Journal of Animal Science and Biotechnology. 4:37.

McClure, M.C., T. S. Sonstegard, G. R. Wiggans, A. L. Van Eenennaam, K. L. Weber, M. C. Torres Penedo, D. Berry, J. Flynn, J. F. Garcia, A. Santana Carmo, L. C.A. Regitano, M. Albuquerque, M. V. G. B Silva, M. A. Machado,  M. Coffey, K. Moore, M.-Y. Boscher, L. Genestout, R. Mazza,  J. F. Taylor, R. D. Schnabel, B. Simpson, E. Marques, J. McEwan,  A. Cromie, L. Lehmann Coutinho, L. Kuehn, J. Keele, E. Piper,  J. Cook, R. Williams, C. Van Tassell. 2013. "Imputation of Microsatellite Alleles from Dense SNP Genotypes for Parentage Verification Across Multiple Bos taurus and Bos indicus breeds" Frontiers in Livestock Genomics. 4: 1-11.

Van Eenennaam, A. L., K. L. Weber, and D. J. Drake. 2013. The California Commercial Ranch Project. Association for the Advancement of Animal Breeding and Genetics (AAABG). 20: 10-13.

Van Eenennaam, A.L., K. A. Weigel, A. E. Young, M. A. Cleveland, and J. C. M. Dekkers 2014. Applied Animal Genomics: Results from the Field.  Annual Review of Animal Biosciences. 2:105—139.

Van Eenennaam, A.L., K. L. Weber, and D. J. Drake. 2014. Evaluation of bull prolificacy on commercial beef cattle ranches using DNA paternity analysis. Journal of Animal Science. 92:2693-701.

Van Eenennaam, A.L., B.M. Chassy, N. Kalaitzandonakes, and T.P. Redick. 2014. The Potential Impacts of Mandatory Labeling for Genetically Engineered Food in the United States. Issue Paper 54. Council for Agricultural Science and Technology (CAST). Ames, Iowa.

Van Eenennaam, A. L., and A. Young. 2014. Prevalence and impacts of genetically engineered feedstuffs on livestock populations. Journal of Animal Science. 92:4255-4278.

Love, W. J., T. W. Lehenbauer, P. H. Kass, A. L. Van Eenennaam, and S. S. Aly. 2014. Development of a novel clinical scoring system for on-farm diagnosis of bovine respiratory disease in pre-weaned dairy calves. PeerJ 2: e238.

Neibergs HL, Seabury CM, Wojtowicz AJ, Wang Z, Scraggs E, Kiser J, Neupane M, Womack JE, Van Eenennaam A, Hagevoort GR, Lehenbauer TW, Aly S, Davis J, Taylor JF. 2014. Susceptibility loci revealed for bovine respiratory disease complex in pre-weaned Holstein calves. BMC Genomics. 2014 Dec 22; 15(1):1164.

Van Eenennaam, A., Neibergs, H, Seabury, C. Taylor, J., Wang, Z., Scraggs, E., Schnabel, R.D.,  Decker, J., Wojtowicz, A., Aly, S., Davis, J., Blanchard, P., Crossley, B., Rossitto, P., Lehenbauer, T., Hagevoort, R., Chavez, E., Neibergs, J.S., Womack, J.E. 2014. Results of the BRD CAP: progress toward identifying genetic markers associated with BRD susceptibility. Animal Health Research Reviews 15(2): 157-160.

Aly, S., Love, W., Williams, D., Lehenbauer, T., Van Eenennaam, A., Drake, C., Kass, P.,

Farver, T. 2014. Agreement between bovine respiratory disease scoring systems for pre-weaned dairy calves. Animal Health Research Reviews 15(2): 148-150.

Ng, TF, Kondov, NO, Deng, X, Van Eenennaam, A, Neibergs, HL, Delwart, E.  2015. A metagenomics and case-control study to identify viruses associated with bovine respiratory disease. Journal of Virology. 89(10): 5340-9.

Gershwin, L. J., Van Eenennaam, A.L., Anderson, M. L., Heather A McEligot, H. A., Matt X Shao, M. X., Toaff-Rosenstein, R., Taylor, J. F., Neibergs, H. L. 2015. Single Pathogen Challenge with Agents of the Bovine Respiratory Disease Complex: developing a tissue resource for RNA sequence analysis of disease response. PLoS One 10(11): e0142479.

Tizioto, P., Kim, J., Seabury, C., Schnabel, R., Gershwin, L., Van Eenennaam, A., Roaff-Rosenstein, R., Neibergs, H., Taylor, J. 2015. Immunological Response to Single Pathogen Challenge with Agents of the Bovine Respiratory Disease Complex: An RNA-sequence analysis of the bronchial lymph node transcriptome. PLoS One 10(6): e0131459.

Welly, B.T., MacNeil, M.D., McClain, A.R., Raymond, R.C., Simpson, E.B, and A.L. Van Eenennaam. 2015. A public:private collaboration to evaluate the potential value of genomic information to a vertically-integrated commercial beef cattle enterprise. Proceedings 21st Association for the Advancement of Animal Breeding and Genetics (AAABG).  September 28-30, 2015, Lorne, Victoria, Australia, 21: 213-216.

Van Eenennaam, A.L. and A.E. Young. 2015. Animal agriculture and the importance of agnostic governance of biotechnology. Agriculture and Food Security 4(21): 1-10.

Murray, J.D., Ross, P.J., Van Eenennaam, A.L. and E.A. Maga. 2016. Ten transgenic animal research conferences and counting.  Transgenic Res. 25: 271-272.

Love, W.J., Lehenbauer, T.W., Karle, B.M., Hulbert, L.E., Anderson, R.J., Van Eenennaam, A.L., Farver, T.B., Aly, S.S.. 2016. Survey of management practices related to bovine respiratory disease in preweaned calves on California dairies, Journal of Dairy Science 99(2): 1483-1494.

Love, W.J., Lehenbauer, T.W., Van Eenennaam, A.L., Drake, C.M., Kass, P.H., Farver, T.B., Aly, S.S. 2016. Sensitivity and Specificity of On-Farm Scoring Systems and Nasal Culture to Detect Bovine Respiratory Disease Complex in Pre-weaned Dairy Calves. Journal of Veterinary Diagnostic Investigation 28(2): 119-128.

Weber, K.L., Welly, B.T., Van Eenennaam, A.L., Young, A.E., Portoneto, L.R., Reverter, A., Rincon, G. Identification of gene networks for residual feed intake in Angus cattle using genomic prediction and RNA-seq. PLoS One 11(3): e0152274.

Carroll, D., Van Eenennaam, A., Taylor, J.R., Seger, J., Voytas, D. 2016. Regulate genome-edited products, not genome editing itself. Nature Biotechnology. 34(5):477-479.

Petracca, Y., Van Eenennaam, A.L., Lema, M.A. 2016. Gene Editing: Do not forget about Animal Agriculture. Journal of Advanced Research in Biotechnology. 1(1):1-2.

Buchanan, J.W., MacNeil, M.D., Raymond, R.C., McClain, A.R., Van Eenennaam, A.L. 2016. Variance component estimates for Charolais-sired fed cattle and relative economic impact of bovine respiratory disease. Journal of Animal Science. 94:1-6.

Buchanan, J.W., James, S.T., Marquess, F.L., Woronuk, G.N., Deobald, H., Welly, B.T., Van Eenennaam, A.L. 2016. Analysis of validated and population specific SNP parentage panels in pedigreed and commercial beef cattle populations. Canadian Journal of Animal Science. 97(2): 231-240.

Van Eenennaam, A.L. 2017. Genetic Modification of Food Animals. Current Opinion in Biotechnology 44:27-34.

Welly, B.T., Miller, M.R., Stott, J.L., Blanchard, M.T., Islas-Trejo, A.D., O’Rourke, S.M., Young, A.E., Medrano, J.F., Van Eenennaam, A.L. 2017. Identification of antigenic proteins from the etiologic agent of epizootic bovine abortion using de novo assembly, reverse vaccinology and immunological validation of candidate proteins. G3: Genes, Genomes, Genetics 7(2): 321-331.

Van Eenennaam, A.L. and A.E. Young. 2017. Detection of dietary DNA, protein and glyphosate in meat, milk and eggs. Journal of Animal Science. 95(7): 3247-3269.

Owen, J.R., Noyes, N., Young, A.E., Prince, D.J., Blanchard, P.C., Lehenbauer, T.W., Aly, S.S., Davis, J.H., O’Rourke, S.M., Abdo, Z., Belk, K., Miller, M.R., Morley, P., Van Eenennaam, A.L. 2017. Whole-Genome Sequencing and Concordance Between Antimicrobial Susceptibility Genotypes and Phenotypes of Bacterial Isolates Associated with Bovine Respiratory Disease. G3: Genes, Genomes, Genetics. G3: Genes, Genomes, Genetics 7:3059-307:

Behura SK, Tizioto PC, Kim J, Grupioni NV, Seabury CM, Schnabel RD, Gershwin LJ, Van Eenennaam AL, Toaff-Rosenstein R, Neibergs HL, Regitano LCA, Taylor JF. 2017. Tissue Tropism in Host Transcriptional Response to Members of the Bovine Respiratory Disease Complex. Sci Rep. 20;7(1):17938.

Van Eenennaam, AL. 2018. The Importance of a Novel Product Risk-Based Trigger for Gene-Editing Regulation in Food Animal Species. The CRISPR Journal 1(2): 1-6.

Van Eenennaam, A.L. 2018. The future of genetic alteration in food animal production. OIE Scientific and Technical Review 37(1).

    Applied Research and Outreach

    Genetic containment of livestock via CRISPR-mediated gene knock-in. USDA – Biotechnology Risk Assessment Competitive Grant 2015-33522-24106. A.L. Van Eenennaam (PD). 9/1/2015-8/31/2018

    Optimization of CRISPR-mediated gene knock-in in bovine fibroblasts. UC Davis Academic Federation Innovative Development Award Program. A.L. Van Eenennaam (PD). 7/1/2015-6/30/2017.

    Immunogenicity testing of putative recombinant vaccine candidates for Epizootic Bovine Abortion.  Rustici grant program. A.L. Van Eenennaam (PD). 1/1/2015 – 12/31/2016.

    Improvement of dairy animal well-being by genetic dehorning.  USDA National Institute of Food and Agriculture Competitive Grant 2015-67015-23316. S. Fahrenkrug (PD). D. Carlson, J. Murray, E. Maga and A.L. Van Eenennaam (Co-PDs). 4/15/2015 – 4/14/2018.

    Identification and management of alleles impairing heifer fertility while optimizing genetic gain in Angus cattle. USDA National Institute of Food and Agriculture Competitive Grant 2013-68004-20364. PD: Dave Patterson. Co-PD: A. L. Van Eenennaam. 1/1/13-12/31/17.

    Comparative evaluation of the phenotype, genome and animal products derived from offspring of a genome edited, hornless bull and controls. USDA Biotechnology Risk Assessment Research Grants Program (BRAG). A.L. Van Eenennaam (PD). 09/01/2017 - 8/31/2020

    Beef Cattle Extension Programming Through the eBEEF Community of Practice. Rustici grant program. A.L. Van Eenennaam (PD). 1/1/2017 – 12/31/2017