Strong collaboration and integration of research in the area of Genetic & Genomics maximizes the Department of Animal Science and Dairy Sciences’ global reach.
Faculty and Staff
Professor – Genetics and Beef Cattle Production
Professor – Genetics
Professor – Breeding and Genetics
Assistant Professor – Quantitative Genomics
Professor – Statistical Genetics
Professor and Director- Meat Science & Animal Biologics Discovery Program
Selected Peer-Reviewed Articles
Gomez-León, Victor E., João Paulo Andrade, Brian W. Kirkpatrick, Sadrollah Molaei Moghbeli, Alvaro Garcia-Guerra, O. J. Ginther, Milo C. Wiltbank. 2020. Gonadotropin pulses are necessary to increase number of dominant follicles in Trio carrier heifers. Biology of Reproduction 103(6):1217-1228. doi: 10.1093/biolre/ioaa167.
Hanna A, Hellenbrand D, Schomberg D, Salamat S, Loh M, Wheeler L, Hanna B, Ozaydin B, Shanmuganayagam D. Brachial Plexus Anatomy of Miniature Swine Compared to Human. Journal of Anatomy 2021; doi: 10.1111/joa.13525 (In Press).
Khatib H. 2021. Transgenerational epigenetic inheritance in farm animals: How substantial is the evidence?. Livestock Science (in press)
Madureira, Guilherme, Victor Gomez-León, Gustavo Fernandes Grillo, João Paulo Nascimento Andrade, Beth Lett, Sadrollah Molaei Moghbeli, Milo C. Wiltbank and Brian W. Kirkpatrick. 2020. Practical application of an impractical bovine genotype; creating bilateral twin pregnancies in Trio allele carriers. Journal of Animal Science 98(9):skaa292. doi: 10.1093/jas/skaa292.
Roudbar MA, Mousavi SF, Ardestani SS, Lopes FB, Momen M, Gianola D, Khatib H. 2021. Prediction of biological age and evaluation of genome-wide dynamic methylomic changes throughout human aging. G3 (Bethesda). 2021 Apr 7:jkab112. doi: 10.1093/g3journal/jkab112. Online ahead of print. PMID: 33826720
Rubinstein CD, McLean DT, Lehman BP, Meudt JJ, Schomberg DT, Krentz KJ, Reichert JL, Meyer MB, Adams M, Konsitzke CM, Shanmuganayagam D. Assessment of Mosaicism and Detection of Cryptic Alleles in CRISPR/Cas9-Engineered Neurofibromatosis Type 1 and TP53 Mutant Porcine Models Reveals Overlooked Challenges in Precision Modeling of Human Diseases. Frontiers in Genetics 2021; 12. doi: 10.3389/fgene.2021.721045 (In Press).
Schachtschneider KM, Jungersen G, Schook LB, Shanmuganayagam D. Editorial: “Humanized” Large Animal Cancer Models: Accelerating Time and Effectiveness of Clinical Trials. Frontiers in Oncology 2019; 9:793. doi: 10.3389/fonc.2019.00793. [Link]
Schachtschneider KM, Schook LB, Meudt JJ, Shanmuganayagam D, Zoller JA, Haghani A, Li CZ, Zhang J, Yang A, Raj K, Horvath S. Epigenetic clock and DNA methylation analysis of porcine models of aging and obesity. GeroScience 2021. doi.org/10.1007/s11357-021-00439-6 (In Press).
Uddin, M. E., H. A. Aguirre-Villegas, R. A. Larson, and M. A. Wattiaux. Carbonprint of milk from Holstein and Jersey cows fed low or high forage diet with alfalfa silage or corn silage as the main forage source. J. Cleaner Production 298:126720 (https://doi.org/10.1016/j.jclepro.2021.126720)
Shariat, N.W., K.M. Feye, A.K. Richards, B. Booher, Z. Flores, P.M. Rubinelli, E.G. Olson, and S.C. Ricke. Incidence of Salmonella serovars isolated from commercial animal feed mills in the United States and serovar identification using CRISPR analysis. J. Appl. Microbiol. doi:10.1111/jam.14933.
Feye, K., C.L. Swaggerty, M.H. Kogut, S.C. Ricke, A. Piva, and E. Grilli. The biological effects of microencapsulated organic acids and botanicals induces tissue-specific and dose-dependent changes to the Gallus gallus microbiota. BMC Microbiol. 20:332. https://doi.org/10.1186/s12866-020-02001-4.
Ricke, S.C., S.I. Lee, S.A. Kim, S.H. Park, and Z. Shi. Prebiotics and the poultry gastrointestinal tract microbiome. Poultry Sci. 99: 670-677.
Feye, K.M., D.R.Thompson, M.J. Rothrock, M.H. Kogut, and S.C. Ricke. Poultry processing and the application of microbiome mapping. Poultry Sci. 99: 678-688.
Mota, L. F. M., Lopes, F. B., Junior, G. A. F., Rosa, G. J. M., Magalhães, A. F. B., Carvalheiro, R. and Albuquerque, L. G. Genome-wide scan highlights the role of candidate genes on phenotypic plasticity for age at first calving in Nellore heifers. Scientific Reports 10:6481, 2020.
Roudbar, M. A., Mohammadabadi, M. R., Mehrgardi, A. A., Abdollahi-Arpanahi, R., Momen, M., Morota, G., Lopes, F. B., Gianola, D. and Rosa, G. J. M. Integration of single nucleotide variants and whole-genome DNA methylation profiles for classification of rheumatoid arthritis cases from controls. Heredity 2020 (in press; https://doi.org/10.1038/s41437-020-0301-4)
Li, Z., Wu, X.-L., Guo, W., He, J., Li, H., Rosa, G. J. M., Gianola, D., Tait Jr., R. G., Parham, J., Genho, J., Schultz, T and Bauck, S. Estimation of genomic breed composition of individual animals in composite beef cattle. Animal Genetics 51: 457-460, 2020.
Li, B., P. M. VanRaden, E. Gunal, D. J. Null, E. E. Connor, M. J. VandeHaar, R. J. Tempelman, K. A. Weigel, and J. B. Cole. 2020. Genomic prediction of residual feed intake in U.S. Holstein dairy cattle. Journal of Dairy Science 103:2477-2486.
Quick, A. E., T. L. Ollivett, B. W. Kirkpatrick, and K. A. Weigel. 2020. Genomic analysis of bovine respiratory disease and lung consolidation in pre-weaned Holstein calves using clinical scoring and lung ultrasound. Journal of Dairy Science 103:1632-1641.
Zhi Li, Xiao-Lin Wu, Wei Guo, Jun He, Hao Li, Guilherme J. M. Rosa, Daniel Gianola, Richard G. Tait Jr., Jamie Parham, John Genho, Tom Schultz, Stewart Bauck. Estimation of genomic breed composition of individual animals in composite beef cattle. Animal Genetics. 2020. 51(3): 457-460.
JP Nani and F Peñagaricano (2020) Whole-genome homozygosity mapping reveals candidate regions affecting bull fertility in US Holstein cattle. BMC Genomics 21: 338.
A Sigdel, L Liu, R Abdollahi-Arpanahi, I Aguilar, and F Peñagaricano (2020) Genetic dissection of reproductive performance of dairy cows under heat stress. Animal Genetics (in press)
R Abdollahi-Arpanahi, D Gianola, and F Peñagaricano (2020) Deep learning versus parametric and ensemble methods for genomic prediction of complex phenotypes. Genetics Selection Evolution 52: 12.
FS Lima, FT Silvestre, F Peñagaricano, and WW Thatcher (2020) Early genomic prediction of daughter pregnancy rate is associated with improved reproductive performance in Holstein dairy cows. Journal of Dairy Science 103: 3312-3324.
HA Pacheco, FM Rezende, and F Peñagaricano (2020) Gene mapping and genomic prediction of bull fertility using sex chromosome markers. Journal of Dairy Science 103: 3304-3311.
Uddin, M. E., R. A. Larson, and M. A. Wattiaux. 2020. Effects of dairy cow manure and dietary forage on greenhouse gas emissions from manure during storage and after field application. J. Cleaner Production. 270:122461.
Uddin, U. Md., O. Santana, K. Weigel, and M. A. Wattiaux. 2020. Enteric methane, lactation performances, digestibility, and metabolism of nitrogen and energy of Holsteins and Jerseys fed 2 levels of forage fiber from alfalfa silage or corn silage. J. Dairy Sci. 103:6087-6099.
Tricaricio, J., E. Kebreab, and M. A. Wattiaux. 2020. Sustainability of dairy production and consumption in low-income countries with emphasis on productivity and environmental impact. J. Dairy Sci. (In press).
Gross N, Strillacci MG, Peñagaricano F, Khatib H (2019) Characterization and functional roles of paternal RNAs in 2-4 cell bovine embryos. Sci Rep. 9(1):20347.
Khatib H, Gross N (2019) Embryo survival: a genomic perspective of the other side of fertility. J Dairy Sci. 102:3744–3753.
Li, B., L. Fang, D. J. Null, J. L. Hutchison, E. E. Connor, P. M. VanRaden, M. J. VandeHaar, R. J. Tempelman, K. A. Weigel, and J. B. Cole. 2019. High-density genome-wide association study for residual feed intake in Holstein dairy cattle. Journal of Dairy Science 102:11067-11080.
Schultz, N. E., and K. A. Weigel. 2019. Inclusion of herdmate data improves genomic prediction for milk production and feed efficiency traits within North American dairy herds. Journal of Dairy Science 102:11081-11091.
Williams, K. T., K. A. Weigel, W. K. Coblentz, N. M. Esser, H. Schlesser, P. C. Hoffman, H. Su, and M. S. Akins. 2019. Effect of diet energy density and genomic residual feed intake on pre-bred dairy heifer feed efficiency, growth, and manure excretion. Journal of Dairy Science 102:4041-4050.
Abdalla, E. B., F. B. Lopes, T. M. Byrem, K. A. Weigel, and G. J. M. Rosa. 2019. Genomic prediction of bovine leukosis incidence in a US Holstein population. Livestock Science 225:73-77.
Schachtschneider KM, Jungersen G, Schook LB, Shanmuganayagam D. Editorial: “Humanized” Large Animal Cancer Models: Accelerating Time and Effectiveness of Clinical Trials. Frontiers in Oncology 2019; 9:793. doi: 10.3389/fonc.2019.00793. [Link]
Hanfang Cai, Chaoqun Zhu, Zhilong Chen, Rexiati Maimaiti, Mingming Sun, Richard J. McCormick, Xianyong Lan, Hong Chen and Wei Guo. Angiotensin II influences pre-mRNA splicing regulation by enhancing RBM20 transcription through activation of the MAPK/ELK1 signaling pathway. Int. J Mol. Sci. 2019. 20(20): E5090. PMID: 31614708.
Zhi Li, Jun He, Jun Jiang, Richard G. Tait Jr., Stewart Bauck, Wei Guo, Xiao-Lin Wu. Impacts of SNP genotyping call rate and SNP genotyping error rate on imputation accuracy in Holstein cattle. Hereditas (Beijing) (Yi Chuan). 2019, 41(7): 644-652. PMID: 31307973
Kirkpatrick, B.W., R.M. Thallman and L.A. Kuehn. 2019. Validation of SNP associations with bovine ovulation and twinning rate. Animal Genetics 50:259-261.
A Sigdel, R Abdollahi-Arpanahi, I Aguilar, and F Peñagaricano (2019) Whole genome mapping reveals novel genes and pathways involved in milk production under heat stress in US Holstein cows. Frontiers in Genetics 10: 928.
R Abdollahi-Arpanahi, MR Carvalho, ES Ribeiro, and F Peñagaricano (2019)
Association of lipid-related genes implicated in conceptus elongation with female fertility traits in dairy cattle. Journal of Dairy Science 102: 10020–10029.
JP Nani, FM Rezende, and F Peñagaricano (2019) Predicting male fertility in dairy cattle using markers with large effect and functional annotation data. BMC Genomics 20: 258.
FM Rezende, JP Nani, and F Peñagaricano (2019) Genomic prediction of bull fertility in US Jersey dairy cattle. Journal of Dairy Science 102: 3230–3240.
Kurz, J.P, Richards, M.P, Garcia, M.M., and Wang Z. (2019). Exogenous phospholipase A2 affects inflammatory gene expression in primary bovine mammary epithelial cells. J. Dairy Res. 86, 177-180. doi: 10.1017/S0022029919000232.
Ricke, S.C. Impact of prebiotics on poultry production and food safety. Yale Journal of Biology and Medicine. 91: 151-159.
Ricke, S.C., S.A. Kim, and S. H. Park. Molecular-based identification and detection of Salmonella in food production systems: Current perspectives. J. Appl. Microbiol. 125: 313-327.
Namous H, Peñagaricano F, Del Corvo M, Capra E, Thomas DL, Stella A, Williams JL, Marsan PA, and Khatib H (2018). Integrative analysis of methylomic and transcriptomic data in fetal sheep muscle tissues in response to maternal diet during pregnancy. BMC Genomics 19(1):123.
Momen, M., Mehrgardi, A. A., Sheikhi, A., Kranis, A., Tusell, L., Morota, G., Rosa, G. J. M. and Gianola, D. Predictive ability of genome-assisted statistical models under various forms of gene action. Scientific Reports 8:12309, 2018.
Weigel, K. A., and G. E. Shook. 2018. Genetic selection for mastitis resistance. Veterinary Clinics – Food Animal Practice 34:457-472.
Pralle, R. S., K. A. Weigel, and H. M. White. 2018. Predicting blood β-hydroxybutyrate in multiparous cows using milk Fourier transform infrared spectrum, milk composition, and producer-recorded variables with multiple linear regression, partial least squares regression, and artificial neural network. Journal of Dairy Science 101:4378-4387.
Lu, Y., M. J. VandeHaar, D. M. Spurlock, K. A. Weigel, L. E. Armentano, E. E. Connor, M. Coffey, R. F. Veerkamp, Y. de Haas, C. R. Staples, Z. Wang, M. D. Hanigan and R. J. Tempelman. 2018. Genome wide association analyses based on a multiple trait approach for modeling feed efficiency. Journal of Dairy Science 101:3140-3154.
Zhilong Chen, Jiangping Song, Liang Chen, Hanfang Cai, Chaoqun Zhu, Mingming Sun, Allysa Stern, Paul Mozdziak, Ying Ge, Warrie J. Means and Wei Guo. Characterization of TTN novex splicing variants across species and the role of RBM20 in novex specific exon splicing. Genes (Basel). 2018. 9(2): 86-100. PMID: 29438341.
Kirkpatrick, B.W., Lett, B.M., 2018. Lett, Beth. and Brian W. Kirkpatrick. 2018. SHORT COMMUNICATION: Heritability of twinning rate in Holstein cattle. Journal of Dairy Science 101:4307-4311.
Kamalludin, Mamat H., Alvaro Garcia-Guerra, Milo C. Wiltbank, and Brian W. Kirkpatrick. 2018. Proteomic analysis of follicular fluid in carriers and non-carriers of the Trio allele for high ovulation rate in cattle. Reproduction, Fertility and Development, 30:1643-1650, doi: 10.1071/RD17252.
Kamalludin, M.H., A. Garcia-Guerra, M.C. Wiltbank, and B.W. Kirkpatrick. 2018. Trio, a novel high fecundity allele: I. Transcriptome analysis of granulosa cells from carriers and non-carriers of the Trio allele. Biology of Reproduction. doi: 10.1093/biolre/iox133
Garcia-Guerra, A., M.H. Kamalludin, B.W. Kirkpatrick and M.C. Wiltbank. 2018. Trio, a bovine high fecundity allele: II. Hormonal profile and follicular dynamics underlying the high ovulation rate. Biology of Reproduction. doi: 10.1093/biolre/iox156
Garcia-Guerra, A.M.O. Canavessi, P.L.J. Monteiro Jr., M.A. Mezera, R. Sartori, B.W. Kirkpatrick and M.C. Wiltbank. 2018. Trio, a novel bovine high fecundity allele: III. Acquisition of dominance and ovulatory capacity at a smaller follicle size. Biology of Reproduction. doi: 10.1093/biolre/iox157
JD Leal Gutierrez, FM Rezende, MA Elzo, DD Johnson, F Peñagaricano, and RG Mateescu (2018) Structural equation modeling and whole-genome scans uncover chromosome regions and enriched pathways for carcass and meat quality in beef. Frontiers in Genetics 9: 532.
HA Pacheco, S da Silva, A Sigdel, CK Mak, KN Galvão, RA Teixeira, LT Dias, and F Peñagaricano (2018) Gene mapping and gene-set analysis for milk fever incidence in Holstein dairy cattle. Frontiers in Genetics 9: 465.
Ricke, S.C. Insights and challenges of Salmonella infections in laying hens. Current Opinions in Food Science 18: 43-49.
Park, S.H., S.A. Kim, P.M. Rubinelli, S.M. Roto,and S.C. Ricke. Microbial compositional changes in broiler chicken cecal contents from birds challenged with different Salmonella vaccine candidate strains. Vaccine 35: 3204-3208. (1, 2, 3, 4, 5, 6, 7)
Rubinelli, P.M., S.A. Kim, S.H. Park, S.M. Roto*, N.J. Nealon, E.P. Ryan, and S.C. Ricke. Differential effects of rice bran cultivars to limit Salmonella Typhimurium in chicken cecal in vitro incubations and impact on the cecal microbiome and metabolome. PLoS ONE 12(9): e0185002. doi.org/10.137/journal.pone0185002.
Gross N, Kropp J, and Khatib H (2017) Sexual Dimorphism of miRNAs Secreted by Bovine In vitro-produced Embryos. Front. Genet. 8:39.
Kropp J, Carrillo JA, Namous H, Daniels A, Salih SM, Song J, and Khatib H (2017) Male fertility status is associated with DNA methylation signatures in sperm and transcriptomic profiles of bovine preimplantation embryos. BMC Genomics 18:280.
Weigel, K. A., P. M. VanRaden, H. D. Norman, and H. Grosu. 2017. A 100-Year Review: Methods and impact of genetic selection in dairy cattle – From daughter-dam comparisons to deep learning algorithms. Journal of Dairy Science 100:10234-10250.
Hardie, L. C., M. J. VandeHaar, R. J. Tempelman, K. A. Weigel, L. E. Armentano, G. R. Wiggans, R. F. Veerkamp, Y. de Haas, M. P. Coffey, E. E. Connor, M. D. Hanigan, C. Staples, Z. Wang, J. C. M. Dekkers, and D. M. Spurlock. 2017. The genetic and biological basis of feed efficiency in mid-lactation Holstein dairy cows. Journal of Dairy Science 100:9061-9075.
Rathbun, F., R. Pralle, S. Bertics, L. Armentano, K-H. Cho, C. Do, K. Weigel, and H. White. 2017. Relationships between body condition score change, prior mid-lactation phenotypic residual feed intake, and hyperketonemia onset in transition dairy cows. Journal of Dairy Science 100:3685-3696.
Weigel, K. A., R. S. Pralle, H. Adams, K. Cho, C. Do, and H. M. White. 2017. Prediction of whole genome risk for selection and management of hyperketonemia in Holstein dairy cattle. Journal of Animal Breeding and Genetics 134:275-285.
Yao, C., G. de los Campos, M. VandeHaar, D. Spurlock, L. Armentano, M. Coffey, Y. de Haas, R. Veerkamp, C. Staples, E. Connor, Z. Wang, M. Hanigan, R. Tempelman, and K. Weigel. 2017. Use of genotype x environment interaction model to accommodate genetic heterogeneity for residual feed intake, dry matter intake, net energy in milk, and metabolic body weight in dairy cattle. Journal of Dairy Science 100:2007-2016.
Mikshowsky, A. A., D. Gianola, and K. A. Weigel. 2017. Assessing genomic prediction accuracy for Holstein sires using bootstrap aggregation sampling and leave-one-out cross validation. Journal of Dairy Science 100:453-464.
Lu, Y., M. J. VandeHaar, D. M. Spurlock, K. A. Weigel, L. E. Armentano, C. R. Staples, E. E. Connor, Z. Wang, M. Coffey, R. F. Veerkamp, Y. de Haas and R. J. Tempelman. 2017. Modeling genetic and nongenetic variation of feed efficiency and its partial relationships between component traits as a function of management and environmental factors. Journal of Dairy Science 100:412-427.
Zhu C, Yin Z, Tan B, Guo W. Insulin regulates titin pre-mRNA splicing through the PI3K-Akt-mTOR kinase axis in a RBM20-dependent manner. Biochimica et biophysica acta Mol Basis Dis. 2017, 1863(9): 2363-2371. PMID: 28676430.
Baker LA, B.W. Kirkpatrick, G.J. Rosa, D. Gianola, B. Valente, J.P. Sumner, W. Baltzer, Z. Hao, E.E. Binversie, N. Volstad, A. Piazza, S. J. Sample, and P. Muir. 2017. Genome-wide association analysis in dogs implicates 99 loci as risk variants for anterior cruciate ligament rupture. PLoS One 12(4):e0173810.
Sallam, A.M., Y. Zare, F.Alpay, G.E. Shook, M. T. Collins, S. Alsheikh, M. Sharaby, Y. Mabrouk and B. W. Kirkpatrick. 2017. An across-breed genome wide association analysis of susceptibility to paratuberculosis in dairy cattle. Journal of Dairy Research 84:61-67.
Bromage, T. G., Y. Idaghdour, R. S. Lacruz, T. D. Crenshaw, O. Ovsiy, B. Rotter, K. Hoffmeier, F. Schrenk. 2016. The Swine Metabolome Chronicles “Many Days” Biological Timing and Functions Linked to Growth. PLOS One. 11:1-19. (doi:10.1371/journal.pone.0145919).
Young, A.S. and B.W. Kirkpatrick. 2016. Frequency of leukochimerism in Holstein and Jersey twinsets. Journal of Animal Science 94:4507-15.
Kropp J and Khatib H (2015) Characterization of microRNA in bovine in vitro culture media associated with embryo quality and development. J. Dairy Sci. 98:6552-6563.
Chaoqun Zhu, Zhiyong Yin, Jun Ren, Richard J. McCormick, Stephen P. Ford and Wei Guo. RBM20 is an essential factor for thyroid hormone-regulated titin isoform transition. J Mol Cell Biol. 2015. 7(1): 88-90. PMID: 25573899.
Kirkpatrick, B.W. and C.A. Morris. 2015. A major gene for bovine ovulation rate. PLoS ONE 10(6): e0129025. doi:10.1371/journal.pone.0129025
Saengkerdsub, S. and S.C. Ricke. Ecology and characteristics of methanogenic archaea in animals and humans. Crit. Revs. Microbiol. 40: 97–116.
Peñagaricano F, Wang X, Rosa JM G, Radunz E A, and Khatib H (2014) Maternal nutrition induces gene expression changes in fetal muscle and adipose tissues in sheep. BMC Genomics 15:1034.
Alpay, F., Y. Zare, M.H. Kamalludin, X. Huang, X. Shi, G. E. Shook, M. T. Collins, and B. W. Kirkpatrick. 2014. Genome-wide association study of susceptibility to infection by Mycobacterium avium subspecies paratuberculosis in Holstein cattle. PLoS ONE 9(12): e111704. doi:10.1371/journal.pone.0111704
Zare Y., G.E. Shook, M.T. Collins and B.W Kirkpatrick. 2014. Genome-Wide Association Analysis and Genomic Prediction of Mycobacterium avium Subspecies paratuberculosis Infection in US Jersey Cattle. PLoS One. 2014 Feb 11;9(2):e88380
Foley, S.L., T.J. Johnson, S.C. Ricke, R. Nayakand J. Danzeisen. Salmonella pathogenicity and host adaptation in chicken-associated serovars. Microbiol. Mol. Biol. Revs. 77: 582-607.
Peñagaricano F, Souza AH, Carvalho PD, Driver AM, Gambra R, Kropp J, Hackbart KS, Luchini D, Shaver RD, Wiltbank MC, and Khatib H (2013) Effect of Maternal Methionine Supplementation on the Transcriptome of Bovine Preimplantation Embryos. PLoS One 8(8):e72302.
Driver A, Huang W, Kropp J, Peñagaricano F, and Khatib H (2013) Knockdown of CDKN1C (p57kip2) and PHLDA2 results in abnormal development of bovine pre-implantation embryos. PLoS One 8(7): e69490.
Lan X, Cretney EC, Kropp J, Khateeb K, Berg MA, Peñagaricano F, Magness R, Radunz AE, and Khatib H (2013) Maternal diet during pregnancy induces transcriptomic and epigenomic changes in fetal tissues in sheep. Front. Gene. 4:49.
Wei Guo, Jonathan M. Pleitner, Kurt W. Saupe and Marion L. Greaser. Pathophysiological defects and transcriptional profiling in the Rbm20-/- rat model. PLOS ONE. 2013. 8(12): e84281. PMID: 24367651.
Driver AM, Peñagaricano F, Huang W, Ahmad KR, Hackbart KS, Wiltbank MC, and Khatib H (2012) RNA-Seq analysis uncovers transcriptomic variations between morphologically similar in vivo- and in vitro-derived bovine blastocysts. BMC Genomics 13:118.
Wei Guo, Schafer S, Greaser ML, Radke MH, Liss M, Govindarajan Gotthardt M et al. RBM20, a gene for hereditary cardiomyopathy, regulates titin splicing. Nat. Med. 2012. 18: 766-773. PMID: 22466703 (Article received an Editorial in Nat. Med. (18: 660-661) and Dis. Model. Mech. (5:287).
Huang W, Yandell BS, Khatib H (2010) Transcriptomic Profiling of Bovine IVF Embryos Revealed Candidate Genes and Pathways Involved in Early Embryonic Death. BMC Genomics 11(1):23.
Blaschek, M., A. Kaya, N. Zwald, E. Memili and B.W. Kirkpatrick. 2010. A whole genome association analysis of non-compensatory fertility in Holstein bulls. Journal of Dairy Science 94:4695-4699.
The Bovine Genome Sequencing and Analysis Consortium (2009) The Genome sequence of taurine cattle: A window to ruminant biology and evolution. Science 324(5926):522-528.
Khatib H and Kim E (2008) The distribution and conservation of retrotransposable elements in cattle. Epigenetics 3(2).
Khatib H (2007) Is it genomic imprinting or preferential expression? BioEssays 29:1022-1028.
Selected Book Chapters
Rackerby, B., S.I. Lee, I. Moppert, S.C. Ricke, K.C. Jeong, and S.H. Park. Chapter 2. Application of whole genome sequencing to transposon mutants of Salmonella Heidelberg. pp. 17- 27. In: S.C. Ricke, S.H. Park, M.L. Davis. (Eds.) Microbial Transposon Mutagenesis: Methods and Applications. Springer Science, New York, NY
Yang, Y., R. Chandrashekar, S.C. Ricke, and Y.M. Kwon. Chapter 13. Construction of DNA- barcode-tagged Salmonella strains. pp. 141 – 150. In: S.C. Ricke, S.H. Park, M.L. Davis. (Eds.) Microbial Transposon Mutagenesis: Methods and Applications. Springer Science, New York, NY.
Lee, S.I., S.A. Kim, S.H. Park, and S.C. Ricke. Molecular and new generation techniques for rapid detection of foodborne pathogens and characterization of microbial communities in poultry meat. pp. 235-260, In: Venkitanarayanan, K., S. Thakur, and S.C. Ricke (Eds.) Food Safety in Poultry Meat Production Springer Science, New York, NY.
JE Koltes and F Peñagaricano (2019) Linking genotype to phenotype: functional annotation as a tool to advance dairy cattle breeding. In: Advances in Breeding of Dairy Cattle. Chapter 16. Burleigh Dodds Science.
F Peñagaricano (2019) Genetics and genomics of dairy cattle. In: Animal Agriculture: Challenges, Innovations, and Sustainability. pp 101-119. Elsevier.
Ricke, S.C., T.M. Dawoud, S. A. Kim, S.H. Park, and Y.M. Kwon. Chapter 1. Salmonella cold stress response: Mechanisms and occurrence in foods. In: G.M. Gadd and S. Sariaslani (Eds.) Advances in Applied Microbiology 104: 1-38.
Ricke, S.C., J. Hacker, K. Yearkey, Z. Shi, S.H. Park, and C. Rainwater. Chap. 19. Unravelling food production microbiomes: Concepts and future directions. In: S.C. Ricke, G.G. Atungulu, S.H. Park, and C.E. Rainwater (Eds.) Food and Feed Safety Systems and Analysis. Elsevier Inc., San Diego, CA pp. 347-374.
Ibeagha-Awemu EM and Khatib H (2017) Epigenetics of Livestock Breeding. Handbook of Epigenetics: The New Molecular and Medical Genetics. Edited by: Trygve Tollefsbol. Elsevier Science Publishing Co Inc, pp. 441-457. ISBN: ISBN: 9780128053881
F Peñagaricano, A De Vries, and DT Bennink (2017) Genomic selection and reproductive technologies to optimize herd replacements. In: Large Dairy Herd Management, 3rd ed. pp 379-388. ADSA® Foundation.
Wattiaux, M. A. 2017. Dairy sector across the world: National trends and opportunities for sustainable growth. Pp 3-18 in Large Dairy Herd Management, 3rd ed. American Dairy Science Association (https://doi.org/10.3168/ldhm.01101).
Weigel, K.A., Halbach, T.J. 2016. Making Effective Sire Selection and Corrective Mating Decisions. Large Dairy Herd Management, 3rd Ed.
Rosa, G. J. M., Felipe, V. P. S. and Peñagaricano, F. Applications of Graphical Models in Quantitative Genetics and Genomics. In: Systems Biology in Animal Production and Health, Volume 1. Kadarmideen, H. (Ed.) Springer, 2016.
Ricke, S.C., T.M. Dawoud, and Y.M. Kwon. Chapter 4. Application of molecular methods for traceability of foodborne pathogens in food safety systems. In: S.C. Ricke, J.R. Donaldson, and C.A. Phillips (Eds.) Food Safety: Emerging Issues, Technologies and Systems. Elsevier, Oxford, UK, pp. 37-63.
Khatib H (Editor) Molecular and Quantitative Animal Genetics. Wiley-Blackwell, Oxford, UK. (2015).
Ricke, S.C. and R.K. Gast. Salmonella/Salmonella Enteritidis. In Encyclopedia of Food Microbiology- 2nd Edition, Vol. 3, pp. 343-348. Carl Batt and Mary Lou Tortello (Eds.), Elsevier, Ltd. Oxford, UK.
Rosa, G. J. M. and Valente, B. D. Structural Equation Models for Studying Causal Phenotype Networks in Quantitative Genetics. In: Probabilistic Graphical Models for Genetics, Genomics and Postgenomics. Sinoquet, C. and Mourad, R. (Eds.) Oxford University Press, 2014.
Rosa, G. J. M. Basic Genetic Model for Quantitative Traits. In: Molecular and Quantitative Animal Genetics. Khatib, H. (Ed.) Wiley-Blackwell, Oxford, UK, 2014.
Rosa, G. J. M. Heritability and Repeatability. In: Molecular and Quantitative Animal Genetics. Khatib, H. (Ed.) Wiley-Blackwell, Oxford, UK, 2014.
Kirkpatrick, B.W. 2014. Genetics of Reproduction in Cattle. Chapter 12 in The Genetics of Cattle. Ed. A. Ruvinsky and D. Garrick. CAB International, Wallinford, Oxon, UK, pp. 260-283.
Kirkpatrick, B.W. 2014. Single Genes in Animal Breeding. Chapter 18 in Molecular and Quantitative Genetics. Ed. H. Khatib. CAB International, Wallinford, Oxon, UK, pp. 177-186
Ricke, S.C., O.-K. Koo, S. Foley, and R. Nayak. Chapter 7. Salmonella. In Guide to Foodborne Pathogens- 2nd Edition, R. Labbé and S. García (Eds.), Wiley-Blackwell, Oxford, UK, pp. 112-137.
Valente, B. D. and Rosa, G. J. M. Mixed effects structural equation models and phenotypic causal networks. In: Genome-Wide Association Studies. Gondro, C., van der Werf, J. and Hayes, B. (Eds.) Springer, 2013.
Rosa, G. J. M. Quantitative Trait. In: Brenner’s Encyclopedia of Genetics, 2nd ed. Maloy, S. and Hughes, K. (Editors). San Diego: Academic Press – Elsevier, 2013.
Rosa, G. J. M. Progeny Test. In: Brenner’s Encyclopedia of Genetics, 2nd ed. Maloy, S. and Hughes, K. (Editors). San Diego: Academic Press – Elsevier, 2013.
Rosa, G. J. M. Foundations of Animal Breeding. In: Sustainable Food Production. Christou, P., Savin, R., Costa-Pierce, B., Misztal, I. and Whitelaw, B. (Editors). New York: Springer, 2013.
Khatib H (Editor)(2012). Livestock Epigenetics. Wiley-Blackwell, Oxford, UK.
Coordinator of the special issue “Morris Soller: Energizing Animal Breeding & Genetics”. Animal Genetics 43, Issue Supplement s1, Pages 1–113 (2012).
Driver A, Huang W, and Khatib H (2012). Roles of Imprinted Genes in Fertility and Promises of the Genome-Wide Technologies. Livestock Epigenetics. Wiley-Blackwell, Oxford, UK, pp. 43-57.
Kirkpatrick, B.W. 2009. Genetics of Host susceptibility to Paratuberculosis. Chapter 6 in Paratuberculosis: Organism, Disease, Control. Ed. D. Collins and M. Behr. CAB International, Wallinford, Oxon, UK pp. 50-59.
Bagnato A, Khatib H, Ajmone-Marsan P, Schiavini F, Lipkin E (2007). Achievements of research in the field of molecular genetics – Recent advance and perspectives in cattle genome discovery and in application of genomic selection to breeding plans.
Rosa, G. J. M. and Tempelman, R. J. Bayesian Mapping Methodology. In: Genetic Analysis of Complex Traits with SAS. Saxton, A. (Editor). Cary, NC: SAS Institute Inc., 2004.
Tempelman, R. J. and Rosa, G. J. M. Empirical Bayes Approaches to Mixed Model Inference in Quantitative Genetics. In: Genetic Analysis of Complex Traits with SAS. Saxton, A. (Editor). Cary, NC: SAS Institute Inc., 2004.
Kirkpatrick, B.W. 1999. Genetics and biology of reproduction in cattle. Chapter 13 in The Genetics of Cattle. Ed. A. Ruvinsky and R. Fries. CAB International, Wallinford, Oxon, UK pp. 391-410.
Wattiaux, M. A. 1996. Technical Dairy Guide: Dairy Heifer Raising. UW-Madison Babcock Institute (125 pp).
Wattiaux, M. A. 1995. Technical Dairy Guide: Reproduction and Genetic Selection. UW-Madison Babcock Institute (161 pp).
Gruenbaum Y, Frumkin A, Rangini Z, Revel E, Yarus S, Margalit Y, Khatib H, Darvasi A, and Fainsod A (1993). Chox-cad Characterization and Rooster Sperm Preservation as a First Step in the Generation of Transgenic Chickens with Modified Homeobox Genes in: Manipulation of The Avian Genome. CRC Press, pp. 151-164.
Kirkpatrick BW, Rutledge JJ. 1990. Genetics and Transgenetics of Growth, In: Growth Regulation in Farm Animals. Advances in Meat Research, Volume 7, A. M. Pearson, Editor.
Selected Conference Proceedings
Steve Ricke: “Metabolism of the Microbiome” Symposium – The Future of the Poultry Gut-Health Nexus: Improving Food Safety. International Association for Food Protection Annual Virtual Meeting, Online, Oct. 26-28, 2020.
Steve Ricke: “Delivery of Bioinformatics in Poultry Processing” Poultry Science Annual Virtual Meeting, Online, July 20, 2020
Steve Ricke: “Optimizing Feed Additives in Poultry Using Microbiome Analyses”, Symposium on Gut Health in Production of Food Animals, Hilton St. Louis at the Ballpark, St. Louis, MO, Nov. 5, 2019.
Steve Ricke: “Campylobacter Interventions and the Gastrointestinal Tract Microbiome”, Campylobacter, Helicobacter, and Related Organisms Conference- 2019, ICC Belfast, 2 Lanyon Place, Belfast, UK. Sept. 11, 2019.
Steve Ricke: “What is an Ideal Feed Additive for Broilers and How Can We Assess This? Keynote Presentation, 6th International Conference on Poultry Intestinal Health, Auditorium Del Massino Via Massimiliano Massino, 1 00144, Rome, Italy, Apr. 5, 2019.
Steve Ricke: “Application of Microbiome Sequencing in Food Processing Environments”, 16th Annual Conference of the Midsouth Computational Biology & Bioinformatics Society, McBios Informatics for Precision Medicine, UAB Informatics Institute. Hilton Birmingham at University of Alabama, Birmingham, AL, Mar. 29, 2019.
Should I consider using genomics and IVF? 2019. Western Dairy Management Conference, Reno, NV (February 26-28).
Zhi Li, Xiao-Lin Wu, Wei Guo, Jun He, Hao Li, Juan Jiang, Guilherme Rosa, Daniel Gianola, Richard G. Tait Jr., John Genho, Tom Schultz, Stewart Bauck. Comparing statistical methods and reference panels for estimating genomic breed compositions of individual animals in composite beef breeds. 2019 Gordon Research Conference on Quantitative Genetics and Genomics. Lucca (Barrga), Italy.
Steve Ricke: “Review of Existing In – Feed Solutions to Reduce Antibiotic Dependence on Farm”, Symposium on Interventions to Reduce Antibiotic Resistance and Antibiotic Use in Animal Production, International Association or Food Protection – European Symposium on Food Safety, Stockholm, Sweden, Apr. 26, 2018.
Steve Ricke: “Prebiotics and the Avian Microbiome – Research Strategies and Applications”, Dept. of Pathology, Bacteriology, and Avian Diseases, Faculty of Veterinary Medicine – Merelbeke, Ghent University, Ghent, Belgium, Mar. 7, 2018.
Wei Guo, Chaoqun Zhu, Vikram Chhatre and Qiurong Wang. Diverse splicing mode of a giant gene TTN and its splicing regulation. The 2nd –international Caparica Conference in Splicing, Caparica, Portugal, July 16th-19th 2018.
Kirkpatrick, B.W., M.E. Cooke, M. Frie, K.R.B. Sporer, P.M. Coussens, & S.J. Wells. 2018. Genome-wide association analysis for infection by Mycobacterium avium subspecies paratuberculosis in US Holsteins. 11th World Congress on Genetics Applied to Livestock Production.
Steve Ricke: “Salmonella Vaccines and the Microbiome in Poultry – A New Food Safety Paradigm”, The Korean Society of Food Hygiene and Safety, The K Hotel, Seoul, South Korea, Nov. 10, 2017.
Steve Ricke: “Foodborne Salmonella in Poultry and Food Production: Research Strategies”, William C. Frazier Lecture, Food Research Institute – Spring Meeting, Pyle Center – University of Wisconsin, Madison, WI, May 17, 2017.
Steve Ricke: “Stacking the Deck in the Gut – Current Status and Future Prospects of Prebiotics”, 59th Annual Meeting Puerto Rico Society of Microbiologists – American Society for Microbiology – Local Branch, Industrial Microbiology – From the Lab Bench to the Production Line and Beyond, Verdanza Hotel, 8020 Tartak Street, Isla Verde Carolina, Puerto Rico, May 27, 2016.
Chaoqun Zhua, Zhiyong Yina, Jun Ren, Richard J. McCormick, Stephen P. Ford and Wei Guo. 2014. RBM20 is an essential factor for thyroid hormone-regulated titin isoform transition via the PI3K/Akt pathway. The 9th Annual ACRE/CNAHA Cardiovascular Research Symposium of American Heart Association. Abs11. (Selected as poster oral presentation and received Outstanding Presentation Award)
Chaoqun Zhu, Zhiyong Yin and Wei Guo. 2014. T3-regulated titin isoform transition is Rbm20 dependent. 5th Biennial NISBRE meeting. Washington D.C., June 16-18, 2014, 133-Pos (Highlighted Poster and Received Student Travel award)
Kirkpatrick, B.W. and C. Morris. 2014. Mapping of a major gene for bovine ovulation rate. 10th World Congress on Genetics Applied to Livestock Production.
Steve Ricke: “Application of Genomics and Metabolite Analysis to Assess Poultry Gastrointestinal Ecology Response to Prebiotics”, College of Food Science & Nutritional Engineering, East Campus, China Agricultural University, No. 17 Quinghua Donglu, Hai Dian District, Beijing, P.R. China, Nov. 14, 2013.
Kirkpatrick, B.W., X. Shi, G. Shook and M. Collins. 2010. Whole genome association analysis of susceptibility to paratuberculosis in Holstein cattle. Proceedings of the 9th World Congress on Genetics Applied to Livestock Production, CD-ROM communication no 0939. ISBN 978-3-00-031608-1.
Kirkpatrick, B.W. 2002. QTL and candidate gene effects on reproduction in livestock: Progress and Prospects. Proceedings of the 7th World Congress on Genetics Applied to Livestock Production, CD-ROM communication no 08-01
Kirkpatrick, B.W. 2001. Management of twinning cow herds. Journal of Animal Science 80(E. Suppl. 2):E14–E18.
Casas-Carrillo, E., A. Prill-Adams, S.G. Price and B.W. Kirkpatrick. 1994. Association of growth hormone and insulin-like growth factor-1 genotypes with growth and carcass traits in offspring of purebred swine. Proceedings of the 5th World Congress on Genetics Applied to Livestock Production, Vol. 21, p 272-5
Selected Popular Press Articles
Quick, A. E., and K. A. Weigel. 2018. Genetics could reduce respiratory disease. Hoard’s Dairyman (November).
Weigel, K. A. 2018. Reproductive technologies to consider – genomics, IVF. Progressive Dairyman – Canada Edition (June).
Baker, C.A., S. H. Park, and S.C. Ricke. 2015. Salmonella poultry detection methods, advances. WATT Poultry USA 16: 30-32, 34-35.
Halbach, T.J. Learning Linear Evaluation. Pp. 28. Hoard’s Dairyman. 10 January, 2014.
Halbach, T.J. Analyzing the Frame. Pp. 60. Hoard’s Dairyman. 25 January, 2014.
Halbach, T.J. Analyzing the Rear Feet and Legs. Pp. 98. Hoard’s Dairyman. 10 February, 2014.
Halbach, T.J. Dairy Strength. Pp. 134. Hoard’s Dairyman. 25 February, 2014.
Halbach, T.J. Analyzing the Udder. Pp. 180. Hoard’s Dairyman. 10 March, 2014.
Selected Research Posters
Dittoe, D.K., K. M. Feye, and S. Ricke. 2020. Salmonella and Campylobacter influence the microbiota response of skin-on, bone-in chicken thighs treated with different antimicrobials. Poultry Science Association Annual Virtual Meeting, Online, July 20th – 22nd.
Clark, K.M., J.P. Holt, L.E. Anderson, D.K. Dittoe, and S.C. Ricke. 2020. Characterizing sow microbiome and drinking water quality at different production locations. Animal Science Association Annual Virtual Meeting, Online, July 19th – 23rd.
Wages, J.A., K.M. Feye, B.J. Bench, and S.C. Ricke. 2019. Next generation sequencing of subsamples used for traditional microbiological analysis of Campylobacter in broiler carcass rinsates collected with neutralizing buffered peptone water or buffered peptone water. Poultry Science Association Annual Meeting, Montreal, Québec, Canada, July 15th – 18th.
Feye, K.M., P.M. Rubinelli, H.O. Pavlidis, J.A. Byrd, W.E. Chaney, D.R. McIntyre, and S.C. Ricke. 2019. Changes to the microbiome may mediate the anti-Salmonella effects demonstrated by XPCTM, International Poultry Scientific Forum, Atlanta, GA, Feb. 11-12th.
Pralle, R.S., K. W. Weigel, N. E. Schultz, H. M. White. Hyperketonemia genome-wide association study in Holstein cows. Annual Meeting of the European Federation of Animal Science. 70(25):538. 2019
Pralle, R.S., K. W. Weigel, N. E. Schultz, and H. M. White. Hyperketonemia SNP by parity group genome-wide interaction study in Holstein cows. Annual Meeting of the European Federation of Animal Science. 70(25):541. 2019
Feye, K.M., L. R. Meyer, H. Lekkala, D.R. Thompson and S.C. Ricke. 2018. Assessment of computer science and cybersecurity skills of undergraduate students interested in food safety. Poultry Science Association Annual Meeting, San Antonio, TX, July 22nd – 26th.
Micciche, A.C., L.M., Meyer, and S. C. Ricke. 2018. 16S rDNA-based sequencing as a rapid method to identify bacteria cultivated from nonselective aerobic plate bacterial colonies isolated from commercial poultry feed. Poultry Science Association Annual Meeting, San Antonio, TX, July 22nd – 26th.
Lett, B., B.W. Kirkpatrick. 2018. Genome-wide association study of twinning rate in Holstein cattle. Plant and Animal Genome Meeting XXVI
Quick, A.E., T. L. Ollivett, B. W. Kirkpatrick, K. A. Weigel. 2018. Genome wide association study and whole genome selection for resistance to bovine respiratory disease in pre-weaned Holstein calves using thoracic ultrasonography. European Association of Animal Production.
Kirkpatrick, B.W., M.H. Kamalludin, A. Garcia-Guerra, M.C. Wiltbank. 2018. Proteomic analysis of follicular fluid in carriers and non-carriers of the Trio allele for high ovulation rate in cattle. Society for the Study of Reproduction, 458
Kim,S.A. S.H. Park, A.D. Wolfenden, B.M. Hargis, H.O. Pavlidis, D.R. McIntrye, and S.C. Ricke. 2017. Characterization of mixed bacterial populations in chicken ceca recovered from colonies on Campylobacter selective commercial media using 16S rRNA next generation sequencing. Poultry Science Association Annual Meeting, Orlando, FL, July 16th -20th.
Park, S.H., S.A. Kim, P. Rubinelli, C.A. Baker, and S.C. Ricke. 2017. Effect of Salmonella vaccine strains on broiler chicken cecal microbiota. International Assoc. Food Prot. Annual Meeting, Tampa, FL July, 9-12
Young, A., B.W. Kirkpatrick. 2017. Frequency of leukochimerism in Holstein and Jersey twinsets. Plant and Animal Genome Meeting XXV
García-Guerra, Alvaro, Jéssica C. L. Motta, Leonardo F. Melo, Brian Kirkpatrick, Milo C. Wiltbank. 2017. Antral Follicle Count, and Circulating Anti-Müllerian Hormone in Trio Allele Carriers, a Novel High Fecundity Bovine Genotype. Society for the Study of Reproduction, P372.
Wiltbank, Milo C., Alvaro García-Guerra, Brian W. Kirkpatrick. 2017. Follicular Waves and Hormonal Profiles during the Estrous Cycle of Carriers and Non-Carriers of the Trio Allele, a Major Bovine Gene for High Ovulation and Fecundity. Society for the Study of Reproduction, P368.
Kim, S.A., S.H. Park, and S.C. Ricke. 2016. Development of a rapid method to quantify Salmonella Typhimurium using a combination of MPN and qPCR with a shortened enrichment time. International Assoc. Food Prot. Annual Meeting, St. Louis, MO, July 31st– Aug. 3rd.
Kim, S.A., S.H. Park, S.I. Lee, and S.C. Ricke. 2016. Assessment of different microbial populations on chicken carcasses at various first processing steps using a next generation sequencing approach. Poultry Science Association Annual Meeting, New Orleans, LA, July 11th -14th.
Park, S.H., S.I. Lee, and S.C. Ricke. 2016. In-depth analysis of broiler chicken gut microbiome responses over time fed a commercial yeast-based prebiotic. Amer. Soc. Microbiol. General Annual Meeting, Boston, MA, June 16-20.
Wages, J., J. Handley, S. H. Park, and S.C. Ricke. 2016. Comparison of indicator microbial populations occurring during multiple stages of commercial poultry carcass processing by conventional plating method and next generation sequencing. International Poultry Scientific Forum, Atlanta, GA, Jan. 26-27th.
Kirkpatrick, B.W., D.P. Berry. 2016. Mapping a gene for harelip in cattle. Plant and Animal Genome Meeting XXIV
Sallam, A.M., Y. Zare, F. Alpay, G. E. Shook, M. T. Collins, S. Alsheikh, M. Sharaby, and B. W. Kirkpatrick. 2015. An Across-Breed Genome Wide Association Analysis of Susceptibility to Paratuberculosis in Dairy Cattle. Plant and Animal Genome Meeting.
Kirkpatrick, BW, Morris, CA. 2012. Discovery of a major gene for bovine ovulation rate. Plant and Animal Genome XX Conference, San Diego, CA, January 15-17, 2012, abstract P0572
Selected Other Publications
Ricke, S.C. (Ed.) 2020. Improving Gut Health in Poultry. Burleigh Dodd Publishing, Cambridge, UK. 522 pp.
Venkitanarayanan, K., S. Thakur, and S.C. Ricke (Eds.) 2019. Food Safety in Poultry Meat Production, Springer Science, New York, NY. 301 pp.
Pandey, A., C. Larroche, C.-G. Dussap, E. Gnansounou, S.K. Khanal, and S. Ricke. (Eds.) 2019. Biofuels: Alternative Feedstocks and Conversion Processes for the Production of Liquid and Gaseous Biofuels. Second Edition. Academic Press, Elsevier, London, UK. 867 pp
Ricke, S.C., S.H. Park, and M.L. Davis. (Eds.) 2019. Microbial Transposon Mutagenesis: Protocols and Applications. Methods and Applications. Humana Press. Springer Science, New York, NY 183 pp.
Transgenerational Epigenetic Inheritance: How Strong is the Evidence? 37th International Society for Animal Genetics Conference. Universitat de Lleida, Spain, July 11, 2019.
Transgenerational Epigenetic Effects of Nutrition. Michigan State University, May 7, 2019.
Genetics and Epigenetics of male fertility. Erciyes University, Kayseri, Turkey, March 6, 2019.
Does diet affect the traits of the next generations? Erciyes University, Kayseri, Turkey, March 7, 2019.
The Identification of Biomarkers for Atherosclerosis using the Rapacz Swine Model. The Plant and Animal Genome Meeting, San Diego, CA, January 11, 2019.
Embryo survival: the other side of fertility; a genomic perspective. American Dairy Science Association meeting. Knoxville, Tennessee, USA, June 26, 2018.
Effects of maternal diet on traits of the next generations. Obihiro University of Agriculture and Veterinary Medicine. Obihiro, Japan, June 4, 2018.
The development of non-invasive biomarkers for embryo development and male fertility. Obihiro University of Agriculture and Veterinary Medicine, Obihiro, Japan, June 8, 2018.
The Role of Epigenetics in Male Infertility. Genetics Institute, The University of Florida, USA, March 14, 2018.
Ricke, S.C. (Ed.) 2017. Achieving Sustainable Production of Poultry Meat- Volume 1 Safety, Quality and Sustainability. Burleigh Dodd Publishing, Cambridge, UK. 480 pp.
Ricke, S.C., G.G. Atungulu, S.H. Park, and C.E. Rainwater (Eds.) 2017. Food and Feed Safety Systems and Analysis. Elsevier Inc., San Diego, CA 406 pp.
Series of lectures on molecular genetics and molecular techniques applications in agricultural research, Universidad Nacional Toribio Rodríguez de Mendoza (UNTRM), Chachapoyas, Peru, December 2-9, 2017.
Applications of epigenetics in human health and animal production. The University of Milan, Italy, November 27, 2017.
Applications of Epigenetics in Fertility Research. Bioinformatics Institute, Denmark Technical University, Denmark, November 10, 2017.
Epigenetic signatures of early embryonic development and fertility in cattle. The Leibniz Institute for Farm Animal Biology (FBN), Dummerstorf, Germany, November 6, 2017.
Genetics and epigenetics of male fertility. The Department of Growth and Reproduction, Rigshospitalet hospital, Copenhagen, Denmark, October 6, 2017.
Integrative analysis of methylomic and transcriptomic data in fetal sheep muscle tissues in response to maternal diet during pregnancy. International Society of Animal Genetics Meeting (ISAG), Dublin, Ireland July 13, 2017.
Weigel, K. A., R. S. Pralle, H. Adams, K. Cho, C. Do, and H. M. White. Prediction of whole genome risk for selection and management of hyperketonemia in Holstein dairy cattle. J. Anim. Breed. Genet. 134:275-285. https://doi.org/10.1111/jbg.12259. 2017
Ricke, S.C. and R.K. Gast (Eds.). 2016. Producing Safe Eggs-The Microbial Ecology of Salmonella. Elsevier, Inc., San Diego, CA. 436 pp.
Ricke, S.C., J.R. Donaldson, and C.A. Phillips (Eds.) 2015. Food Safety: Emerging Issues, Technologies and Systems. Academic Press, Elsevier, Inc., Oxford, UK, 449 pp.
McCann, C. C., M. E. Viner, S. S. Donkin, and H. M. White. Hepatic patatin-like phospholipase domain-containing 3 sequence, SNP presence, and protein confirmation and responsiveness to energy balance in dairy cows. J. Dairy Sci. 97:1-9. https://doi.org/10.3168/jds.2014-7910. 2014
Ricke, S.C., E.J. Van Loo, M.G. Johnson and C.A. O’Bryan (Eds.), 2012. Organic Meat Production and Processing. Wiley Scientific/IFT, New York, NY 444 pp.
Callaway, T.R. and S.C. Ricke (Eds.), 2012. Direct Fed Microbials/Prebiotics for Animals: Science and Mechanisms of Action, Springer Science, New York, NY, 206 pp.
Kwon, Y.M. and S.C. Ricke (Eds), 2011. High-Throughput Next Generation Sequencing: Methods and Applications. Methods in Molecular Microbiology 733 – Springer Protocols, Humana Press, New York, NY 308 pp.
Ricke, S.C. and F.T. Jones (Eds), 2010. Perspectives on Food Safety Issues of Food Animal Derived Foods, University of Arkansas Press, Fayetteville, AR, 362 pp.