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United States Department of Agriculture

Agricultural Research Service

John W Keele
Molecular Biologist


Publications (Clicking on the reprint icon Reprint Icon will take you to the publication reprint.)
Selection enhanced estimates of marker effects on means and variances of beef tenderness -
Tait Jr, R.G., Shackelford, S.D., Wheeler, T.L., King, D.A., Keele, J.W., Casas, E., Thallman, R.M., Smith, T.P., Bennett, G.L. 2016. Selection enhanced estimates of marker effects on means and variances of beef tenderness. In proceedings: 2016 Beef Improvement Federation Annual Meeting & Symposium. Manhattan, KS, Jun 14-17, 2016. pp. 115-121. www.beefimprovement.org/library-2/convention-proceedings.
Transcriptome profile of genes differentially expressed in the mesenteric adipose tissue of beef cattle with variation in feed intake and gain -
Genome-wide copy number variation in the bovine genome detected using low coverage sequence of popular beef breeds -
Keel, B.N., Snelling, W.M., Keele, J.W. 2016. Genome-wide copy number variation in the bovine genome detected using low coverage sequence of popular beef breeds [abstract]. International Society for Animal Genetics (35th ISAG). Abstract Book. p. 83 (Abstract # P4008).
Scan for allele frequency differences from pooled samples in lines of pigs selected for components of litter size -
Freking, B.A., Keele, J.W., Rohrer, G.A. 2016. Scan for allele frequency differences from pooled samples in lines of pigs selected for components of litter size [abstract]. Journal of Animal Science Supplement. 94 (E-Supplement 5):161 (Abstract # 0344).
Resistance to toxic plants: The right animal in the right pasture at the right time -
Green, B.T., Welch, K.D., Keele, J.W., Mcdaneld, T.G., Pfister, J.A. 2016. Resistance to toxic plants: The right animal in the right pasture at the right time. American Society of Animal Science Annual Meeting. 128 - https://asas.confex.com/asas/jam2016/webprogram/Paper15551.html.
Transcriptome differences in the rumen of beef steers with variation in feed intake and gain Reprint Icon -
Kern, R.J., Lindholm-Perry, A.K., Freetly, H.C., Snelling, W.M., Kern, J.W., Keele, J.W., Miles, J.R., Foote, A.P., Oliver, W.T., Kuehn, L.A., Ludden, P.A. 2016. Transcriptome differences in the rumen of beef steers with variation in feed intake and gain. Gene. 586:12-26.
Genomewide association study of liver abscess in beef cattle Reprint Icon -
Keele, J.W., Kuehn, L.A., McDaneld, T.G., Tait Jr, R.G., Jones, S., Keel, B.N., Snelling, W.M. 2016. Genomewide association study of liver abscess in beef cattle. Journal of Animal Science. 94(2):490-499.
A survey of polymorphisms detected from sequences of popular beef breeds -
Snelling, W.M., Bennett, G.L., Keele, J.W., Kuehn, L.A., McDaneld, T.G., Smith, T.P., Thallman, R.M., Kalbfleisch, T.S., Pollak, E.J. 2015. A survey of polymorphisms detected from sequences of popular beef breeds. Journal of Animal Science. 93(11):5128-5143. doi:10.2527/jas2015-9356.
Effects of maternal lines and mating systems on susceptibility to parasitism in a pasture-lambing, low-input production system -
Jones, S., Chase, C.C., Heaton, M.P., Shuck, K.K., Leymaster, K.A., Keele, J.W. 2015. Effects of maternal lines and mating systems on susceptibility to parasitism in a pasture-lambing, low-input production system. [abstract] Joint Abstracts of the American Dairy Science and Society of Animal Science. Journal of Animal Science 93 (Supplement s3):786-787.
Evaluation of single nucleotide polymorphisms in chromosomal regions impacting pregnancy status in cattle Reprint Icon -
Psaros, K.M., McDaneld, T.G., Kuehn, L.A., Snelling, W.M., Keele, J.W. 2015. Evaluation of single nucleotide polymorphisms in chromosomal regions impacting pregnancy status in cattle. Journal of Animal Science. 93(3):978-987. doi: 10.2527/jas2014-8509.
Genomewide association study of lung lesions in cattle using sample pooling -
Keele, J.W., Kuehn, L.A., McDaneld, T.G., Tait Jr., R.G., Jones, S., Smith, T.P., Shackelford, S.D., King, D.A., Wheeler, T.L., Lindholm-Perry, A.K., McNeel, A.K. 2015. Genomewide association study of lung lesions in cattle using sample pooling. Journal of Animal Science. 93(3):956-964. DOI: 10.2527/jas.2014-8492.
CAPN1, CAST, and DGAT1 genetic effects on preweaning performance, carcass quality traits, and residual variance of tenderness in a beef cattle population selected for haplotype and allele equalization Reprint Icon -
Tait, R.G., Jr., Shackelford, S.D., Wheeler, T.L., King, D.A., Keele, J.W., Casas, E., Smith, T.P., Bennett, G.L. 2014. CAPN1, CAST, and DGAT1 genetic effects on preweaning performance, carcass quality traits, and residual variance of tenderness in a beef cattle population selected for haplotype and allele equalization. Journal of Animal Science. 92(12):5382-5393.
A genome-wide association study for the incidence of persistent bovine viral diarrhea virus infection in cattle Reprint Icon -
Casas, E., Hessman, B.E., Keele, J.W., Ridpath, J.F. 2015. A genome-wide association study for the incidence of persistent bovine viral diarrhea virus infection in cattle. Animal Genetics. 46:8-15. DOI: 10.1111/age.12239.
A genome-wide association study for the incidence of persistent bovine viral diarrhea virus infection in cattle -
A Genome-Wide Association Study for the Incidence of Persistent Bovine Viral Diarrhea Virus Infection in Cattle. -
Is there a genetic solution to bovine respiratory disease complex? -
Kuehn, L.A., Leach, R.J., McDaneld, T.G., Keele, J.W., Chitko-Mckown, C.G., Jones, S., Thallman, R.M. 2014. Is there a genetic solution to bovine respiratory disease complex? In: Proceedings of the 10th World Congress of Genetics Applied to Livestock Production, August 17-22, 2014, Vancouver, BC, Canada. Paper No. 106. https://asas.org/wcgalp-proceedings.
Selection enhanced estimates of µ-calpain, calpastatin, and dacylglycerol O-acyltransferase 1 genetic effects on pre-weaning performance, carcass quality traits, and residual variance of tenderness in composite ... cattle -
Tait Jr, R.G., Shackelford, S.D., Wheeler, T.L., King, D.A., Keele, J.W., Casas, E., Smith, T.P.L., Bennett, G.L. 2014. Selection enhanced estimates of µ-calpain, calpastatin, and dacylglycerol O-acyltransferase 1 genetic effects on pre-weaning performance, carcass quality traits, and residual variance of tenderness in composite MARC III beef cattle. In: Proceedings of the 10th World Congress on Genetics Applied to Livestock Production, August 17-22, 2014, Vancouver, BC, Canada. Paper No. 232. Available: https://asas.org/wcgalp-proceedings.
Evaluation of anthelmintic resistance of intestinal parasitic nematodes in heifers in south central Nebraska -
Jones, S., Chase, C.C., Cortinas, R., Griffin, D., Kuehn, L.A., Shuck, K., Whitman, K., Tait Jr, R.G., Keele, J.W. 2014. Evaluation of anthelmintic resistance of intestinal parasitic nematodes in heifers in south central Nebraska [abstract]. Journal of Animal Science Supplement. 92(E-Supplement 2):462.
Genomewide association study of reproductive efficiency in female cattle Reprint Icon -
McDaneld, T.G., Kuehn, L.A., Thomas, M.G., Snelling, W.M., Smith, T.P.L., Pollak, E.J., Cole, J.B., Keele, J.W. 2014. Genomewide association study of reproductive efficiency in female cattle. Journal of Animal Science. 92(5):1945-1957.
Deletion on chromosome 5 associated with decreased reproductive efficiency in female cattle -
McDaneld, T.G., Kuehn, L.A., Thomas, M.G., Pollak, E.J., Keele, J.W. 2014. Deletion on chromosome 5 associated with decreased reproductive efficiency in female cattle. Journal of Animal Science. 92:1378-1384.
Identifying genetic loci controlling neonatal passive transfer of immunity using a hybrid genotyping strategy Reprint Icon -
Rohrer, G.A., Rempel, L.A., Miles, J.R., Keele, J.W., Wiedmann, R.T., Vallet, J.L. 2014. Identifying genetic loci controlling neonatal passive transfer of immunity using a hybrid genotyping strategy. Animal Genetics. 45(3):340-349.
Imputation of microsatellite alleles from dense SNP genotypes for parentage verification across multiple Bos taurus and Bos indicus breeds -
McClure, M.C., Sonstegard, T.S., Wiggans, G.R., Van Eenennaam, A., Weber, K., Penedo, M., Berry, D.P., Flynn, J., Garcia, J., Santana Do Carmo, A., Regitano, L., Albuquerque, M., Silva, M.V., Machado, M.A., Coffey, M., Moore, K., Boscher, M., Genestout, L., Mazza, R., Taylor, J.F., Schnabel, R., Simpson, B., Marques, E., Mc Ewan, J., Cromie, A., Lehmann Coutinho, L., Kuehn, L.A., Keele, J.W., Piper, E., Cook, J., Williams, R., Hap Map Consortium, B., Van Tassell, C.P. 2013. Imputation of microsatellite alleles from dense SNP genotypes for parentage verification across multiple Bos taurus and Bos indicus breeds. Frontiers in Genetics. 4:176. DOI.10.3389/fgene.2013.00176.
The change in differing leukocyte populations during vaccination to bovine respiratory disease and their correlations with lung scores, health records, and average daily gain Reprint Icon -
Leach, R.J., Chitko-McKown, C.G., Bennett, G.L., Jones, S.A., Kachman, S.D., Keele, J.W., Leymaster, K.A., Thallman, R.M., Kuehn, L.A. 2013. The change in differing leukocyte populations during vaccination to bovine respiratory disease and their correlations with lung scores, health records, and average daily gain. Journal of Animal Science. 91(8):3564-3573.
Genome-wide association study of reproductive efficiency in female cattle -
McDaneld, T.G., Kuehn, L.A., Thomas, M.G., Snelling, W.M., Pollak, E.J., Smith, T.P.L., Keele, J.W. 2013. Genome-wide association study of reproductive efficiency in female cattle [Abstract]. Journal of Animal Science. 91 (E-Supplement 2):392. (Abstract #319).
Genome wide association of white blood cell types during vaccination -
Microsatellite Imputation for parental verification from SNP across multiple Bos taurus and indicus breeds -
Mcclure, M.C., Sonstegard, T.S., Van Tassell, C.P., Wiggans, G.R., Van Eenennaam, A., Weber, K., Penedo, C., Berry, D., Flynn, J., Fernando Garcia, J., Santa, A., Regitano, L., Albuquerque, M., Silva, M., Coffey, M., Moore, K., Boscher, M., Genestout, L., Mazza, R., Taylor, J., Schnabel, R., Machado, M.A., Simpson, B., Mcewan, J., Cromie, A., Countinho, L.L., Kuehn, L.A., Keele, J.W., Piper, E., Cook, J., Marques, E. 2013. Microsatellite Imputation for parental verification from SNP across multiple Bos taurus and indicus breeds. Plant Animal Genome XXI, paper PO132, pp. 206.
Identification of QTL affecting a piglet’s ability to acquire and absorb gamma-immunoglobulin from colostrum -
Rohrer, G.A., Rempel, L.A., Miles, J.R., Keele, J.W., Vallet, J.L. 2013. Identification of QTL affecting a piglet’s ability to acquire and absorb gamma-immunoglobulin from colostrum [abstract]. Journal of Animal Science. 91 (Supplement 2):63-64 (Abstract #O189).
Chromosomal regions impacting pregnancy status in Braford, Brangus and Simbrah cattle -
Fleetwood, K.M., McDaneld, T.G., Kuehn, L.A., Keele, J.W. 2013. Chromosomal regions impacting pregnancy status in Braford, Brangus and Simbrah cattle [Abstract]. Plant & Animal Genome XXI Conference, July 12-16, 2013, San Diego, CA. Paper No. P0570.
A genome-wide association study for the incidence of persistent bovine viral diarrhea virus infection in cattle -
Casas, E., Hessman, B.E., Keele, J.W., Ridpath, J.F. 2013. A genome-wide association study for the incidence of persistent bovine viral diarrhea virus infection in cattle. Plant and Animal Genome. Proceedings of the Plant Animal Genome XXI. San Diego, CA. p.0560.
Genome-wide association of porcine lung lesions using DNA pooling -
Nonneman, D., Jones, S.A., Shackelford, S.D., Keele, J.W. 2013. Genome-wide association of porcine lung lesions using DNA pooling [abstract]. Plant and Animal Genome XXI Conference Proceedings. Abstract #P0594.
Gene number determination and genetic polymorphism of the gamma delta T cell co-receptor WC1 genes -
Networks and pathways to guide genomic selection -
Snelling, W.M., Cushman, R.A., Keele, J.W., Maltecca, C., Thomas, M.G., Fortes, M.R., Reverter, A. 2013. Networks and pathways to guide genomic selection. Journal of Animal Science. 91(2):537-552.
Accuracy of genomic breeding values in multibreed beef cattle populations derived from deregressed breeding values and phenotypes -
Weber, K.L., Thallman, R.M., Keele, J.W., Snelling, W.M., Bennett, G.L., Smith, T.P., McDaneld, T.G., Allan, M.F., Van Eenennaam, A.L., Kuehn, L.A. 2012. Accuracy of genomic breeding values in multibreed beef cattle populations derived from deregressed breeding values and phenotypes. Journal of Animal Science. 90(12):4177-4190.
Networks and pathways to guide genomic selection -
Snelling, W.M., Cushman, R.A., Keele, J.W., Maltecca, C., Thomas, M.G., Fortes, M.R., Reverter, A. 2012. Networks and pathways to guide genomic selection [abstract]. Journal of Animal Science Supplement. 90(Supplement 3):162. (Abstract No. 57).
Analysis of copy number variations among cattle breeds -
Liu, G., Hou, Y., Zhu, B., Cardone, M.F., Jiang, L., Cellamare, A., Mitra, A., Alexander, L.J., Coutinho, L.L., Gasbarre, L.C., Li, R.W., Matukumalli, L.K., Nonneman, D.J., Regitano, L.C., Smith, T.P., Song, J., Sonstegard, T.S., Van Tassell, C.P., Ventura, M., Eichler, E.E., Mcdaneld, T.G., Keele, J.W. 2012. Analysis of copy number variations among cattle breeds. [abstract] CONFERENCE ON THE BIOLOGY OF GENOMES. P. 182.
How single nucleotide polymorphism chips will advance our knowledge of factors controlling puberty and aid in selecting replacement beef females Reprint Icon -
Snelling, W.M., Cushman, R.A., Fortes, M., Reverter, A., Bennett, G.L., Keele, J.W., Kuehn, L.A., McDaneld, T.G., Thallman, R.M., Thomas, M.G. 2012. How single nucleotide polymorphism chips will advance our knowledge of factors controlling puberty and aid in selecting replacement beef females. Journal of Animal Science. 90:1152-1165.
Y are you not pregnant: identification of Y chromosome segments in female cattle with decreased reproductive efficiency -
McDaneld, T.G., Kuehn, L.A., Thomas, M.G., Snelling, W.M., Sonstegard, T.S., Matukumalli, L.K., Smith, T.P., Pollak, E.J., Keele, J.W. 2012. Y are you not pregnant: identification of Y chromosome segments in female cattle with decreased reproductive efficiency. Journal of Animal Science. 90(7):2142-2151.
Use of sample pooling in a genome-wide association study identifies chromosomal regions affecting incidence of bovine respiratory disease -
Kuehn, L.A., Keele, J.W., Casas, E., Jones, S., King, D.A., McDaneld, T.G., Smith, T.P.L., Wheeler, T.L. 2011. Use of sample pooling in a genome-wide association study identifies chromosomal regions affecting incidence of bovine respiratory disease [abstract]. Journal of Animal Science. 89 (E-Supplement 1):422 (Abstract #336).
Genomic regions associated with incidence of disease in cattle using DNA pooling and a high density single nucleotide polymorphism array -
Casas, E., Kuehn, L.A., McDaneld, T.G., Smith, T.P.L., Keele, J.W. 2011. Genomic regions associated with incidence of disease in cattle using DNA pooling and a high density single nucleotide polymorphism array [abstract]. Journal of Animal Science. 89 (E-Supplement 1):158. (Abstract 18).
Overview of genomic selection in small populations of beef cattle -
Bennett, G.L., Snelling, W.M., Thallman, R.M., Keele, J.W., Kuehn, L.A. 2011. Overview of genomic selection in small populations of beef cattle [abstract]. Journal of Animal Science Supplement. 89(E-Supplement 1):665. Abstract # 598.
How SNP chips will advance our knowledge of factors controlling puberty and aid in selecting replacement females -
Snelling, W.M., Cushman, R.A., Bennett, G.L., Keele, J.W., Kuehn, L.A., Mcdaneld, T.G., Thallman, R.M., Thomas, M.G. 2011. How SNP chips will advance our knowledge of factors controlling puberty and aid in selecting replacement females [abstract]. Journal of Animal Science Supplement. 89(E-Supplement 1):494. Abstract # 534.
Partial-genome evaluation of postweaning feed intake and efficiency of crossbred beef cattle Reprint Icon -
Snelling, W.M., Allan, M.F., Keele, J.W., Kuehn, L.A., Thallman, R.M., Bennett, G.L., Ferrell, C.L., Jenkins, T.G., Freetly, H.C., Nielsen, M.K., Rolfe, K.M. 2011. Partial-genome evaluation of postweaning feed intake and efficiency of crossbred beef cattle. Journal of Animal Science. 89:1731-1741.
Predicting breed composition using breed frequencies of 50,000 markers from the U.S. Meat Animal Research Center 2,000 bull project -
Kuehn, L.A., Keele, J.W., Bennett, G.L., Mcdaneld, T.G., Smith, T.P., Snelling, W.M., Sonstegard, T.S., Thallman, R.M. 2011. Predicting breed composition using breed frequencies of 50,000 markers from the U.S. Meat Animal Research Center 2,000 bull project. Journal of Animal Science. 89:1742-1750.
Genomic regions associated with kyphosis in swine Reprint Icon -
Lindholm-Perry, A.K., Rohrer, G.A., Kuehn, L.A., Keele, J.W., Holl, J.W., Shackelford, S.D., Wheeler, T.L., Nonneman, D.J. 2010. Genomic regions associated with kyphosis in swine. BMC Genetics. 11:112.
Genomic selection in beef cattle: Training and validation in multibreed populations -
Weber, K., Bennett, G.L., Keele, J.W., Snelling, W.M., Thallman, R.M., Van Eenennaam, A., Kuehn, L.A. 2011. Genomic selection in beef cattle: Training and validation in multibreed populations [Abstract]. Plant and Animal Genome XIX Conference. Poster No. P514.
Genomics of bovine respiratory disease complex at USMARC -
Kuehn, L.A., Casas, E., Bennett, G.L., Chitko Mckown, C.G., Keele, J.W., McDaneld, T.G., Snelling, W.M., Thallman, R.M. 2011. Genomics of bovine respiratory disease complex at USMARC [Invited abstract]. Journal of Animal Science. 89(E-Suppl. 2):61-62. Abstract #43.
An atlas of bovine gene expression reveals novel distinctive tissue characteristics and evidence for improving genome annotation -
Harhay, G.P., Smith, T.P.L., Alexander, L.J., Haudenschild, C.D., Keele, J.W., Matukumalli, L.K., Schroeder, S.G., Van Tassell, C.P., Gresham, C.R., Bridges, S.M., Burgess, S.C., Sonstegard, T.S. 2010. An atlas of bovine gene expression reveals novel distinctive tissue characteristics and evidence for improving genome annotation. Genome Biology [online serial]. 11:R102.
Predicting Breed Composition Using Breed Frequencies of 50,000 Markers from the U.S. Meat Animal Research Center 2,000 Bull Project -
Kuehn, L.A., Keele, J.W., Bennett, G.L., McDaneld, T.G., Smith, T.P., Snelling, W.M., Sonstegard, T.S., Thallman, R.M. 2010. Predicting Breed Composition Using Breed Frequencies of 50,000 Markers from the U.S. Meat Animal Research Center 2,000 Bull Project. Proceedings of the 9th World Congress on Genetics Applied to Livestock Production, Leipzig, Germany. August 1-6, 2010. CD-ROM Communication No. 0283.
Analysis of copy number variations reveals differences among cattle breeds Reprint Icon -
Liu, G., Hou, Y., Zhu, B., Cardone, M.F., Jiang, L., Cellamare, A., Mitra, A., Alexander, L.J., Coutinho, L.L., Gasbarre, L.C., Heaton, M.P., Li, R.W., Matukumalli, L.K., Nonneman, D.J., De A Regitano, L.C., Smith, T.P., Song, J., Sonstegard, T.S., Van Tassell, C.P., Eichler, E.E., Mcdaneld, T.G., Keele, J.W. 2010. Analysis of copy number variations among cattle breeds. Genome Research. 20:693-703.
Information Theoretical Analysis of a Bovine Gene Atlas Reveals Chromosomal Regions with Tissue Specific Gene Expression. -
Sonstegard, T.S., Harhay, G.P., Alexander, L.J., Schroeder, S.G., Keele, J.W., Matukumalli, L., Bridges, S., Burgess, S., Van Tassell, C.P., Smith, T.P. 2010. Information Theoretical Analysis of a Bovine Gene Atlas Reveals Chromosomal Regions with Tissue Specific Gene Expression. Plant and Animal Genome VX Conference Abstracts.
Genome-Wide Association Study of Growth in Crossbred Beef Cattle -
Snelling, W.M., Allan, M.F., Keele, J.W., Kuehn, L.A., Mcdaneld, T.G., Smith, T.P., Sonstegard, T.S., Thallman, R.M., Bennett, G.L. 2010. Genome-Wide Association Study of Growth in Crossbred Beef Cattle. Journal of Animal Science. 88(3):837-848.
Proposed Strategy for Selection Against Recessive Genetic Defects Through a Combination of Inbreeding and DNA Markers -
Thallman, R.M., Keele, J.W., Bennett, G.L. 2009. Proposed Strategy for Selection Against Recessive Genetic Defects Through a Combination of Inbreeding and DNA Markers. Proc., Beef Improvement Federation 41st Research Symposium and Annual Meeting, Sacramento, CA. April 29-May 4, 2009. pp. 137-144.
Whole Genome Selection Project Involving 2,000 Industry AI Sires Reprint Icon -
Thallman, R.M., Allan, M.F., Kuehn, L.A., Keele, J.W., Snelling, W.M., Bennett, G.L. 2009. Whole Genome Selection Project Involving 2,000 Industry AI Sires [abstract]. Beef Improvement Federation Program, Sacramento, California. April 30-May 3, 2009. Abstract C4.1, p. 26.
Whole Genome Analysis for Beef Tenderness -
Snelling, W.M., Smith, T.P., Shackelford, S.D., King, D.A., Wheeler, T.L., Kuehn, L.A., Thallman, R.M., Keele, J.W., Bennett, G.L. 2009. Whole Genome Analysis for Beef Tenderness [abstract]. Bovine Genome Consortium, Cold Spring Harbor, New York. May 9-11, 2009. Session 5 Poster Session, p. 30.
The Genome Sequence of Taurine Cattle: A Window to Ruminant Biology and Evolution Reprint Icon -
Elsik, C.G., Gibbs, R., Skow, L., Tellam, R., Weinstock, G., Worley, K., Kappes, S.M., Green, R.D., Alexander, L.J., Bennett, G.L., Carroll, J.A., Chitko Mckown, C.G., Hamernik, D.L., Harhay, G.P., Keele, J.W., Liu, G., Macneil, M.D., Matukumalli, L.K., Rijnkels, M., Roberts, A.J., Smith, T.P., Snelling, W.M., Stone, R.T., Waterman, R.C., White, S.N. 2009. The Genome Sequence of Taurine Cattle: A Window to Ruminant Biology and Evolution. Science. 324:522-528.
Genomic Heritability of Beef Cattle Growth -
Snelling, W.M., Kuehn, L.A., Thallman, R.M., Keele, J.W., Bennett, G.L. 2009. Genomic Heritability of Beef Cattle Growth [abstract]. Journal of Animal Science Supplement. 87(E-Suppl. 2):396. Abstract # W37.
Estimation of Current Breed Differences in Multibreed Genetic Evaluations Using Quantitative and Molecular Approaches -
Kuehn, L.A., Keele, J.W., Thallman, R.M. 2009. Estimation of Current Breed Differences in Multibreed Genetic Evaluations Using Quantitative and Molecular Approaches. Proc., Beef Improvement Federation 9th Genetic Prediction Workshop, Kansas City, MO. December 8-10, 2008. pp. 49-60.
High-density SNP Scan of Production and Product Quality Traits in Beef Cattle -
Thallman, R.M., Snelling, W.M., Allan, M.F., Ferrell, C.L., Freetly, H.C., Jenkins, T.G., Wheeler, T.L., Shackelford, S.D., King, D.A., Kuehn, L.A., Keele, J.W., Bennett, G.L. 2009. High-density SNP Scan of Production and Product Quality Traits in Beef Cattle [abstract]. Journal of Animal Science Supplement. 87(E-Suppl. 2):532. Abstract #626.
Positional candidate genes for kyphosis in commercial swine populations Reprint Icon -
Lindholm-Perry, A.K., Rohrer, G.A., Keele, J.W., Holl, J.W., Shackelford, S.D., Wheeler, T.L., Koohmaraie, M., Nonneman, D.J. 2009. Positional Candidate Genes for Kyphosis in Commercial Swine Populations. Proc., Plant and Animal Genome Conference XVII. 1/10-14/2009, San Diego, CA. P529.
Studies on cattle genomic structural variation provide insights into ruminant speciation and adaptation -
Liu, G., Zhu, B., Alexander, L.J., Matukumalli, L.K., Van Tassell, C.P., Sonstegard, T.S., Nonneman, D.J., Keele, J.W. 2009. Studies on cattle genomic structural variation provide insights into ruminant speciation and adaptation. [abstract]. Plant and Animal Genome Conference Proceedings. W093.
Prevalence of the prion gene E211K variant in U.S. cattle -
Heaton, M.P., Keele, J.W., Harhay, G.P., Richt, J., Koohmaraie, M., Wheeler, T.L., Shackelford, S.D., Casas, E., King, D.A., Sonstegard, T.S., Van Tassell, C.P., Neibergs, H.L., Chase, C.C., Kalbfleisch, T.S., Smith, T.P., Clawson, M.L., Laegreid, W.W. 2008. Prevalence of the prion gene E211K variant in U.S. cattle. BioMed Central (BMC) Veterinary Research [journal online]. 4:25. Available: (http://www.biomedcentral.com/1746-6148/4/25).
A sequencing strategy for identifying variation throughout the prion gene of BSE-affected cattle -
Clawson, M.L., Heaton, M.P., Keele, J.W., Smith, T.P., Harhay, G.P., Richt, J., Laegreid, W.W. 2008. A sequencing strategy for identifying variation throughout the prion gene of BSE-affected cattle. BMC Research Notes [journal online]. 1:32. Available: http://www.biomedcentral.com/1756-0500/1/32.
ANALYSIS OF CATTLE COPY NUMBER VARIATION REVEALS INSIGHTS INTO THE EVOLUTION OF RUMINANTS -
Liu, G., Keele, J.W., Van Tassell, C.P., Sonstegard, T.S., Li, R.W., Alexander, L.J., Matukumalli, L.K., Smith, T.P., Gasbarre, L.C. 2008. Analysis of cattle copy number variation reveals insights into the evolution of ruminants. [abstract]. 2008 meeting on the Biology of Genomes, May 6-10, 2007, Cold Spring Harbor Laboratory, Cold Spring Harbor, NY. p197.
A high-resolution map of copy number variation in the cattle genome -
Liu, G., Keele, J.W., Van Tassell, C.P., Sonstegard, T.S., Alexander, L.J., Li, R.W., Matukumalli, L.K., Smith, T.P., Gasbarre, L.C. 2008. A high-resolution map of copy number variation in the cattle genome. Plant and Animal Genome VX Conference Abstracts. The NRI Animal Genome PD Meeting, San Diego, CA. p84.
Analysis of copy number variation in the bovine genome -
Liu, G., Van Tassell, C.P., Sonstegard, T.S., Li, R.W., Alexander, L.J., Keele, J.W., Matukumalli, L.K., Brown, T., Smith, T.P., Gasbarre, L.C. 2008. Analysis of copy number variation in the bovine genome. Plant and Animal Genome (PAG) XVI Conference. San Diego, CA. p517.
Detection of germline and somatic copy number variations in cattle -
Liu, G., Van Tassell, C.P., Sonstegard, T.S., Li, R.W., Alexander, L.J., Keele, J.W., Matukumalli, L.K., Smith, T.P., Gasbarre, L.C. 2008. Detection of germline and somatic copy number variations in cattle. Developments in Biologicals. 132:231-237.
Prevalence of the prion gene E211K variant in U.S. cattle -
Heaton, M.P., Keele, J.W., Harhay, G.P., Richt, J., Koohmaraie, M., Wheeler, T.L., Shackelford, S.D., Casas, E., King, D.A., Sonstegard, T.S., Van Tassell, C.P., Neibergs, H.L., Chase, C.C., Kalbfleisch, T.S., Smith, T.P., Clawson, M.L., Laegreid, W.W. 2008. Prevalence of the prion gene E211K variant in U.S. cattle (abstract). Plant and Animal Genome XVI Conference. Poster No. P538.
Integrating the USMARC genetic map for the pig with the pig physical map -
Wiedmann, R.T., Freking, B.A., Nonneman, D.J., Snelling, W.M., Keele, J.W., Harhay, G.P., Rohrer, G.A. Integrating the USMARC genetic map for the pig with the pig physical map. 2008. Annual International Plant & Animal Genome Conference. Poster No. P565, pg 259.
Description and analysis of the Bovine Gene Atlas - An extensive compendium of bovine transcript profiles -
Harhay, G.P., Keele, J.W., Smith, T.P., Alexander, L.J., Matukumalli, L.K., Schroeder, S.G., Liu, G., Van Tassell, C.P., Sonstegard, T.S. 2008. Description and analysis of the Bovine Gene Atlas - An extensive compendium of bovine transcript profiles (abstract). Plant and Animal Genome XVI Conference. Poster No. P516.
Bovine copy number variation and its implication in animal health -
Liu, G., Van Tassell, C.P., Sonstegard, T.S., Alexander, L.J., Keele, J.W., Matukumalli, L.K., Smith, T.P., Gasbarre, L.C. 2007. Bovine copy number variation and its implication in animal health. [ abstract]. International Symposium on Animal Genomics for Animal Health. pp. 32.
A physical map of the bovine genome -
Snelling, W.M., Chiu, R., Schein, J.E., Hobbs, M., Abbey, C.A., Adelson, D.L., Aerts, J., Bennett, G.L., Bosdet, I.E., Boussaha, M., Brauning, R., Caetano, A.R., Costa, M.M., Crawford, A.M., Dalrymple, B.P., Eggen, A., Everts-Van Der Wind, A., Floriot, S., Gautier, M., Gill, C.A., Green, R.D., Holt, R., Jann, O., Jones, S.J., Kappes, S.M., Keele, J.W., De Jong, P.J., Larkin, D.M., Lewin, H.A., Mcewan, J.C., Mckay, S., Marra, M.A., Mathewson, C.A., Matukumalli, L.K., Moore, S.S., Murdoch, B., Nicholas, F.W., Osoegawa, K., Roy, A., Salih, H., Schibler, L., Schnabel, R.D., Silveri, L., Skow, L.C., Smith, T.P., Sonstegard, T.S., Taylor, J.F., Tellam, R., Van Tassell, C.P., Williams, J.L., Womack, J.E., Wye, N.H., Yang, G., Zhao, S. 2007. A physical map of the bovine genome. Genome Biology. 8:R165 (17 pp).
Initial analysis of copy number variation in the cow genome -
Liu, G., Van Tassell, C.P., Sonstegard, T.S., Li, R.W., Alexander, L.J., Keele, J.W., Matukumalli, L.K., Smith, T.P., Gasbarre, L.C. 2007. Initial analysis of copy number variation in the cow genome. [abstract}. Gordon Research Conference Proceedings.
Creation of a Gene Atlas in cattle using sequence-based transcriptional profiling -
Sonstegard, T.S., Keele, J.W., Harhay, G.P., Smith, T.P., Matukumalli, L.K., Van Tassell, C.P., Liu, G., Alexander, L.J. 2007. Creation of a Gene Atlas in cattle using sequence-based transcriptional profiling. [abstract] Joint Abstracts of the American Dairy Science and Society of Animal Science.
Novel porcine repetitive elements -
Wiedmann, R.T., Nonneman, D.J., Keele, J.W. 2006. Novel porcine repetitive elements. Biomed Central (BMC) Genomics. 7:304 (12 pp). Online. BMC Genomics doi:10.1186/1471-2164/7/304. Available: http://www.biomedcentral.com/1471-2164/7/304.
Prion gene haplotypes of U.S. cattle -
Clawson, M.L., Heaton, M.P., Keele, J.W., Smith, T.P., Harhay, G.P., Laegreid, W.W. 2006. Prion gene haplotypes of U.S. cattle. BioMed Central (BMC) Genetics. 7:51.
A rapid sequence-based method for comprehensive polymorphism identification within a 25.2-kb region of the bovine prion gene in BSE-affected cattle -
Clawson, M.L., Heaton, M.P., Keele, J.W., Smith, T.P., Harhay, G.P., Laegreid, W.W. 2007. A rapid sequence-based method for comprehensive polymorphism identification within a 25.2-kb region of the bovine prion gene in BSE-affected cattle [abstract]. Plant and Animal Genome XV Conference. Poster No. P533.
A marker set for parentage-based DNA traceback in beef and dairy cattle -
Heaton, M.P., Snelling, W.M., Smith, T.P., Keele, J.W., Harhay, G.P., Wiedmann, R.T., Bennett, G.L., Freking, B.A., Van Tassell, C.P., Sonstegard, T.S., Gasbarre, L.C., Moore, S.S., Murdoch, B., Mckay, S.D., Kalbfleisch, T., Laegreid, W.W. 2007. A marker set for parentage-based DNA traceback in beef and dairy cattle [abstract]. Plant and Animal Genome XV Conference. Poster No. P516.
Polymorphisms and haplotype structure of bovine PRND (doppel) and PRNT -
Laegreid, W.W., Clawson, M.L., Smith, T.P., Harhay, G.P., Keele, J.W., Heaton, M.P. 2007. Polymorphisms and haplotype structure of bovine PRND (doppel) and PRNT [abstract]. Plant and Animal Genome XV Conference. Poster No. P535.
An updated USMARC genetic map for the pig integrated with the pig physical map -
Rohrer, G.A., Snelling, W.M., Freking, B.A., Nonneman, D.J., Harhay, G.P., Keele, J.W. 2007. An updated USMARC genetic map for the pig integrated with the pig physical map [abstract]. Plant and Animal Genome XV Conference. Poster No. W421.
Evaluation in beef cattle of six deoxyribonucleic acid markers developed for dairy traits reveals an osteopontin polymorphism associated with postweaning growth. -
White, S.N., Casas, E., Allan, M.F., Keele, J.W., Snelling, W.M., Wheeler, T.L., Shackelford, S.D., Koohmaraie, M., Smith, T.P. 2007. Evaluation in beef cattle of six deoxyribonucleic acid markers developed for dairy traits reveals an osteopontin polymorphism associated with post-weaning growth. Journal of Animal Science. 85:1-10.
PROPOSED STRATEGY FOR SELECTION AGAINST RECESSIVE GENETIC DEFECTS THROUGH A COMBINATION OF INBREEDING AND DNA MARKERS -
Thallman, R.M., Keele, J.W., Bennett, G.L. 2006. Proposed strategy for selection against recessive genetic defects through a combination of inbreeding and DNA markers. Proceedings of the 8th World Congress of Genetics Applied in Livestock Production. CD-Rom Communication No. 03-08. Belo Horizonte, Brazil.
CHARACTERIZATION OF 954 BOVINE FULL-CDS CDNA SEQUENCES -
Harhay, G.P., Sonstegard, T.S., Keele, J.W., Heaton, M.P., Clawson, M.L., Snelling, W.M., Wiedmann, R.T., Van Tassell, C.P., Smith, T.P. 2005. Characterization of 954 bovine full-CDS cDNA sequences. Biomed Central (BMC) Genomics 6:166 (11 pp).
LINKAGE DISEQUILIBRIUM AND HAPLOTYPE STRUCTURE IN THE PRION GENE OF U.S. BEEF AND DAIRY CATTLE -
Clawson, M.L., Heaton, M.P., Keele, J.W., Smith, T.P., Laegreid, W.W. 2006. Linkage disequilibrium and haplotype structure in the prion gene of U.S. beef and dairy cattle (abstract). Plant and Animal Genome Conference Proceedings. p. 145.
SOFTWARE AGENTS IN MOLECULAR COMPUTATIONAL BIOLOGY -
Keele, J.W., Wray Jr, J.E. 2005. Software agents in molecular computational biology. Briefings in Bioinformatics 6(4):370-379.
IDENTIFICATION OF GENETIC MARKERS FOR FAT DEPOSITION AND MEAT TENDERNESS ON BOVINE CHROMOSOME 5: DEVELOPMENT OF A LOW DENSITY SNP MAP -
Stone, R.T., Casas, E., Smith, T.P.L., Keele, J.W., Harhay, G.P., Bennett, G.L., Koohmaraie, M., Wheeler, T.L., Shackelford, S.D., Snelling, W.M. 2005. Identification of genetic markers for fat deposition and meat tenderness on bovine chromosome 5: Development of a low-density single nucleotide polymorphism map. Journal of Animal Science. 83:2280-2288.
A NEW SNP IN CAPN1 EXTENDS THE CURRENT TENDERNESS MARKER TEST TO INCLUDE CATTLE OF BOS INDICUS, BOS TAURUS, AND CROSSBRED DESCENT -
White, S.N., Casas, E., Wheeler, T.L., Shackelford, S.D., Koohmaraie, M., Riley, D.G., Chase, C.C., Johnson, D.D., Keele, J.W., Smith, T.P. 2005. A new snp in capn1 extends the current tenderness marker test to include cattle of bos indicus, bos taurus, and crossbred descent. Journal of Animal Science. 83:2001-2008.
LINKAGE MAPPING BOVINE EST-BASED SNP -
Snelling, W.M., Casas, E., Stone, R.T., Keele, J.W., Harhay, G.P., Bennett, G.L., Smith, T.P. 2005. Linkage mapping bovine EST-based SNP. Biomed Central (BMC) Genomics 6:74.
IDENTIFICATION OF NOVEL PORCINE REPEAT ELEMENTS -
Wiedmann, R.T., Nonneman, D.J., Keele, J.W. Identification of novel porcine repeat elements. Proc., Plant & Animal Genome XIII, San Diego, CA. P528. p. 203. 2005.
CORRELATION OF AMINO ACID PREFERENCE AND MAMMALIAN VIRAL GENOME TYPE -
Rose, J.R., Turkett Jr., W.H., Oroian, I.C., Laegreid, W.W., Keele, J.W. 2005. Correlation of amino acid preference and mammalian viral genome type. Bioinformatics 21(8):1349-1357.
A NEW SNP MARKER IN CAPN1 IS ASSOCIATED WITH TENDERNESS IN CATTLE OF INDICINE, TAURINE, AND ADMIXED DESCENT -
White, S.N., Casas, E., Wheeler, T.L., Shackelford, S.D., Koohmaraie, M., Riley, D.G., Chase, C.C., Johnson, D.D., Keele, J.W., Smith, T.P. 2005. A new snp marker in capn1 is associated with tenderness in cattle of indicine, taurine, and admixed descent. Proc., Plant & Animal Genome XIII, San Diego, CA. P528. p. 203. 2005.
INTEGRATING LINKAGE AND RADIATION HYBRID MAPPING DATA FOR BOVINE CHROMOSOME 15 -
Snelling, W.M., Gautier, M., Keele, J.W., Smith, T.P., Stone, R.T., Harhay, G.P., Bennett, G.L., Ihara, N., Takasuga, A., Takeda, H., Sugimoto, Y., Eggen, A. Integrating linkage and radiation hybrid mapping data for bovine chromosome 15. Biomed Central (BMC) Genomics. 5:77. 2004.
ASSOCIATION OF MARKERS IN THE BOVINE CAPN1 GENE WITH MEAT TENDERNESS IN LARGE CROSSBRED POPULATIONS THAT SAMPLE INFLUENTIAL INDUSTRY SIRES -
Page, B.T., Casas, E., Quaas, R.L., Thallman, R.M., Wheeler, T.L., Shackelford, S.D., Koohmaraie, M., White, S.N., Bennett, G.L., Keele, J.W., Dikeman, M.E., Smith, T.P. Association of markers in the bovine capn1 gene with meat tenderness in large crossbred populations that sample influential industry sires. Journal of Animal Science. 82:3474-3481. 2004.
PRION GENE SEQUENCE VARIATION WITHIN DIVERSE GROUPS OF U.S. SHEEP, BEEF CATTLE, AND DEER -
HEATON, M.P., LEYMASTER, K.A., FREKING, B.A., HAWK, D.A., KEELE, J.W., LAEGREID, W.W. PRION GENE SEQUENCE VARIATION WITHIN DIVERSE GROUPS OF U.S. SHEEP, BEEF CATTLE, AND DEER. PLANT AND ANIMAL GENOME CONFERENCE PROCEEDINGS. 2004. ABSTRACT NO. P311.
GENETIC RISK FACTORS FOR FAILURE OF PASSIVE TRANSFER IN THE BOVINE NEONATAL FC RECEPTOR -
LAEGREID, W.W., CLAWSON, M.L., HEATON, M.P., KEEN, J.E., CHITKO MCKOWN, C.G., FOX, J.M., SMITH, T.P., SNELLING, W.M., KEELE, J.W. GENETIC RISK FACTORS FOR FAILURE OF PASSIVE TRANSFER IN THE BOVINE NEONATAL FC RECEPTOR. PLANT AND ANIMAL GENOME CONFERENCE PROCEEDINGS. ABSTRACT NO. P642.
ASSOCIATION OF CAPN1 MARKERS WITH BEEF TENDERNESS IN CROSSBRED, MULTIBREED POPULATIONS -
White, S.N., Page, B.T., Casas, E., Koohmaraie, M., Wheeler, T.L., Shackelford, S.D., Keele, J.W., Smith, T.P. 2004. Association of CAPN1 markers with beef tenderness in crossbred, multibreed populations. Proc.,Plant and Animal Genome Abstracts. P644. p. 232.
BETA-2-MICROGLOBULIN HAPLOTYPES IN U.S. BEEF CATTLE AND ASSOCIATION WITH FAILURE OF PASSIVE TRANSFER IN NEWBORN CALVES -
Clawson, M.L., Heaton, M.P., Chitko Mckown, C.G., Fox, J.M., Smith, T.P., Snelling, W.M., Keele, J.W., Laegreid, W.W. 2004. Beta-2-microglobulin haplotypes in u.s. beef cattle and association with failure of passive transfer in newborn calves. Mammalian Genome. 2004. V. 15. P. 227-236.
IDENTIFICATION OF QUANTITATIVE TRAIT LOCI FOR GROWTH AND CARCASS COMPOSITION IN CATTLE -
CASAS, E., KEELE, J.W., SHACKELFORD, S.D., KOOHMARAIE, M., STONE, R.T. IDENTIFICATION OF QUANTITATIVE TRAIT LOCI FOR GROWTH AND CARCASS COMPOSITION IN CATTLE. ANIMAL GENETICS. 2004. 35:2-6.
DETECTION OF QUANTITATIVE TRAIT LOCI FOR GROWTH AND CARCASS COMPOSITION IN CATTLE -
CASAS, E., SHACKELFORD, S.D., KEELE, J.W., KOOHMARAIE, M., SMITH, T.P., STONE, R.T. DETECTION OF QUANTITATIVE TRAIT LOCI FOR GROWTH AND CARCASS COMPOSITION IN CATTLE. 2003. JOURNAL OF ANIMAL SCIENCE. 81:2976-2983.
PHYSICAL AND LINKAGE MAPPING OF MAMMARY-DERIVED EXPRESSED SEQUENCE TAGS IN CATTLE. -
Connor, E.E., Sonstegard, T.S., Keele, J.W., Bennett, G.L., Williams, J.L., Papworth, R., Van Tassell, C.P., Ashwell, M.S. 2004. Physical and lindage mapping of mammary-derived expressed sequence tags (EST) in cattle. Genomics. vol. 83, pp.148-152.
PRION GENE SEQUENCE VARIATION WITHIN DIVERSE GROUPS OF U.S. SHEEP, BEEF CATTLE, AND DEER -
HEATON, M.P., LEYMASTER, K.A., FREKING, B.A., HAWK, D.A., SMITH, T.P., KEELE, J.W., SNELLING, W.M., FOX, J.M., CHITKO MCKOWN, C.G., LAEGREID, W.W. PRION GENE SEQUENCE VARIATION WITHIN DIVERSE GROUPS OF U.S. SHEEP, BEEF CATTLE, AND DEER. MAMMALIAN GENOME. 2003. V. 14. P. 765-777.
QUANTITATIVE TRAIT LOCI FOR RETAIL PRODUCT YIELD AND MARBLING SCORE ON BOVINE CHROMOSOME 9 -
CASAS, E., SHACKELFORD, S.D., KEELE, J.W., STONE, R.T., KOOHMARAIE, M. QUANTITATIVE TRAIT LOCI FOR RETAIL PRODUCT YIELD AND MARBLING SCORE ON BOVINE CHROMOSOME 9. John M. Airy Beef Cattle Symposium: Visions for Genetics and Breeding. 2003. P. 128.
DEVELOPMENT OF MICROARRAYS FOR TRANSCRIPTOME RESEARCH IN RAINBOW TROUT -
Rexroad III, C.E., Keele, J.W. 2003. Development of microarrays for transcriptome research in rainbow trout. VI Inter Congress of Comparative Physiology & Biochemistry. Feb 2-7, 2003. Vol 134. Supl 1. Abstract 8.2. p.S29.
SEQUENCE ANALYSIS AND UTILIZATION OF RAINBOW TROUT EXPRESSED SEQUENCE TAGS (EST'S) -
Gahr, S.A., Keele, J.W., Palti, Y., Rexroad III, C.E. 2003. Sequence analysis and utilization of rainbow trout expressed sequence tags (est's). Plant and Animal Genome Abstracts. Abstract P667. p.241.
IDENTIFICATION AND MAPPING OF MICROSATELLITES IN RAINBOW TROUT EST SEQUENCES -
Rexroad III, C.E., Keele, J.W., Hostuttler, M.A., Palti, Y. 2003. Identification and mapping of microsatellites in rainbow trout est sequences. Plant and Animal Genome XI Book of Abstracts. p.242.
MAPPING OF GENE-ASSOCIATED SEQUENCE TAGGED SITES (STSS) TO THE BOVINE LINKAGE AND RADIATION HYBRID MAPS -
Connor, E.E., Sonstegard, T.S., Keele, J.W., Bennett, G.L., Williams, J., Papworth, R., Van Tassell, C.P., Ashwell, M.S. 2003. Mapping of gene-associated sequence tagged sites (stss) to the bovine linkage and radiation hybrid maps. Germplasm Release. Accession Numbers BV005755-BV005814.
PRODUCTION OF A PORCINE-HUMAN COMPARATIVE MAP BASED ON THE PORCINE GENETIC MAP AND HUMAN GENOME SEQUENCE -
Rohrer, G.A., Nonneman, D.J., Freking, B.A., Harhay, G.P., Snelling, W.M., Keele, J.W. 2002. Production of a porcine-human comparative map based on the porcine genetic map and human genome sequence. Plant and Animal Genome Conference Proceedings. Abstract P612.
DEVELOPMENT OF AN EST-DERIVED SNP-BASED LINKAGE MAP IN SWINE -
Nonneman, D.J., Keele, J.W., Freking, B.A., Rohrer, G.A. Proceeding of the Plant & Animal Genome XI, 1/11-15/2003, San Diego, CA. p. 231.
ASSOCIATION OF BOVINE NEONATAL FC RECEPTOR GENE (FCGRT) HAPLOTYPES WITH SERUM IGG CONCENTRATION IN NEWBORN CALVES -
LAEGREID, W.W., HEATON, M.P., KEEN, J.E., GROSSE, W.M., CHITKO MCKOWN, C.G., SMITH, T.P., KEELE, J.W., BENNETT, G.L., BESSER, T.E. ASSOCIATION OF BOVINE NEONATAL FC RECEPTOR GENE ALPHA-CHAIN GENE (FCGRT) HAPLOTYPES WITH SERUM IgG CONCENTRATION IN NEWBORN CALVES. MAMMALIAN GENOME. 2002. v. 13. p. 704-710.
IDENTIFICATION OF THE SINGLE BASE CHANGE CAUSING THE CALLIPYGE MUSCLE HYPERTROPHY PHENOTYPE, THE ONLY KNOWN EXAMPLE OF POLAR OVERDOMINANCE IN MAMMALS. -
Freking, B.A., Murphy, S., Wylie, A., Jirtle, R.L., Rhodes, S., Keele, J.W., Leymaster, K.A., Smith, T.P. 2002. Identification of the single base change causing the callipyge muscle hypertrophy phenotype, the only known example of polar overdominance in animals. Genome Research. 12:1496-1506.
EVALUATION OF SINGLE NUCLEOTIDE POLYMORPHISMS IN CAPN1 FOR ASSOCIATION WITH MEAT TENDERNESS IN CATTLE. -
Page, B.T., Casas, E., Heation, M.P., Cullen, N.G., Hyndman, D.L., Morris, C.A., Crawford, A.M., Wheeler, T.L., Koohmaraie, M., Keele, J.W., Smith, T.P.L. Journal Animal Science. 2002. v. 80. p. 3077-3085.
POSITIONAL CANDIDATE GENE SELECTION FROM LIVESTOCK EST DATABASES USING GENE ONTOLOGY -
Harhay, G.P., Keele, J.W. 2003. Positional candidate gene selection from livestock EST databases using Gene Ontology. Bioinformatics. 19:249-255.
MAPPING OF MAMMARY GLAND-DERIVED EXPRESSED SEQUENCE TAGS (ESTS) IN CATTLE. -
Connor, E.E., Sonstegard, T.S., Keele, J.W., Bennett, G.L., Williams, J., Papworth, R., Ashwell, M.S. Mapping of mammary gland-derived expressed sequence tags (ests) in cattle.. Animal Genetics International Conference Proceedings.
PORCINE GENE-DISCOVERY BY NORMALIZED CDNA-LIBRARY SEQUENCING AND EST CLUSTER ASSEMBLY -
FAHRENKRUG, S.C., SMITH, T.P., FREKING, B.A., CHO, J., WHITE, J., VALLET, J.L., WISE, T.H., ROHRER, G.A., KEELE, J.W. PORCINE GENE-DISCOVERY BY NORMALIZED CDNA-LIBRARY SEQUENCING AND EST CLUSTER ASSEMBLY. MAMMALIAN GENOME. 2002. v. 13. p. 475-478.
QUANTITATIVE TRAIT LOCI FOR BIRTH WEIGHT, LONGISSIMUS MUSCLE AREA, AND MARBLING ON BOVINE CHROMOSOME 5 -
CASAS, E., KEELE, J.W., SHACKELFORD, S.D., STONE, R.T. QUANTITATIVE TRAIT LOCI FOR BIRTH WEIGHT, LONGISSIMUS MUSCLE AREA, AND MARBLING ON BOVINE CHROMOSOME 5. ANIMAL GENETICS INTERNATIONAL CONFERENCE PROCEEDINGS. Gottingen, Germany. 2002. P. 163. Abstract No. E010.
SELECTION AND USE OF SNP MARKERS FOR ANIMAL IDENTIFICATION AND PATERNITY ANALYSIS IN U.S. BEEF CATTLE -
Mammalian Genome. 2002. v. 13. p. 272-281.
USE OF BOVINE EST DATA AND HUMAN GENOMIC SEQUENCES TO MAP 100 GENE-SPECIFIC BOVINE MARKERS -
Stone, R.T., Grosse, W., Casas, E., Smith, T.P., Keele, J.W., Bennett, G.L. 2002. Use of bovine EST data and human genomic sequences to map 100 gene-specific bovine markers. Mammalian Genome. 13:211-215.
GENOMIC SAMPLE SEQUENCING OF THREE SHIGA-TOXIGENIC E. COLI (STEC) ISOLATED FROM BOVINE FECES -
SELECTION AND USE OF SINGLE NUCLEOTIDE POLYMORPHISM (SNP) MARKERS FOR ANIMAL IDENTIFICATION AND PATERNITY ANALYSIS IN U.S. BEEF CATTLE -
SCREENING FOR QUANTITATIVE TRAIT LOCI AFFECTING GROWTH AND CARCASS TRAITS IN CATTLE -
Casas, E., Keele, J.W., Shackelford, S.D., Stone, R.T., Koohmaraie, M. 2002. Screening for quantitative trait loci affecting growth and carcass traits in cattle [Abstract]. Plant and Animal Genome X. San Diego, CA. p. 220.
SINGLE NUCLEOTIDE POLYMORPHISM (SNP) DISCOVERY IN PORCINE EXPRESSED GENES -
Fahrenkrug, S.C., Freking, B.A., Smith, T.P., Rohrer, G.A., Keele, J.W. 2002. Single nucleotide polymorphism (SNP) discovery in porcine expressed genes. Animal Genetics. 33:186-195.
GENOMIC SAMPLE SEQUENCING OF THREE BOVINE SHIGA-TOXIGENIC E. COLI (STEC) O157, O111 AND O26 -
OPTIMUM MATING SYSTEMS FOR THE MYOSTATIN LOCUS IN CATTLE -
COMPARATIVE MAPPING OF BTA15 AND HSA11 INCLUDING A REGION CONTAINING A QTL FOR MEAT TENDERNESS -
A COMPREHENSIVE SEARCH FOR QUANTITATIVE TRAIT LOCI AFFECTING GROWTH AND CARCASS COMPOSITION OF CATTLE SEGREGATING ALTERNATIVE FORMS OF THE MYOSTATIN GENE -
Casas, E., Stone, R.T., Keele, J.W., Shackelford, S.D., Kappes, S.M., Koohmaraie, M. 2001. A comprehensive search for quantitative trait loci affecting growth and carcass composition of cattle segregating alternative forms of the myostatin gene [Abstract]. Journal of Animal Science Supplement. 79(2):40.
MAPPING EXPRESSED SEQUENCE TAGS (ESTS) IN PIGS USING SINGLE NUCLEOTIDE POLYMORPHISMS (SNPS) -
CONSTRUCTION OF SNP-BASED EST COMPARATIVE MAP OF SWINE, CATTLE, AND HUMAN GENOMES -
A COMPREHENSIVE SEARCH FOR QUANTITATIVE TRAIT LOCI AFFECTING GROWTH AND CARCASS COMPOSITION OF CATTLE SEGREGATING ALTERNATIVE FORMS OF MYOSTATIN -
Casas, E., Stone, R.T., Keele, J.W., Shackelford, S.D., Kappes, S.M., Koohmaraie, M. 2001. A comprehensive search for quantitative trait loci affecting growth and carcass composition of cattle segregating alternative forms of myostatin. Journal of Animal Science. 79:854-860.
INTERLEUKIN-8 HAPLOTYPE STRUCTURE FROM NUCLEOTIDE SEQUENCE VARIATION IN COMMERCIAL POPULATIONS OF U.S. BEEF CATTLE -
Heaton, M.P., Chitko Mckown, C.G., Grosse, W.M., Keele, J.W., Keen, J.E., Laegreid, W.W. 2001. Interleukin-8 haplotype structure from nucleotide sequence variation in commercial populations of U.S. beef cattle. Mammalian Genome. 12:219-226.
ESTIMATION OF DNA SEQUENCE DIVERSITY IN BOVINE CYTOKINE GENES -
Heaton, M.P., Grosse, W.M., Kappes, S.M., Keele, J.W., Chitko Mckown, C.G., Cundiff, L.V., Braun, A., Little, D.P., Laegreid, W.W. 2001. Estimation of DNA sequence diversity in bovine cytokine genes. Mammalian Genome. 12:32-37.
INITIAL RESULTS OF A GENOMIC SCAN FOR OVULATION RATE IN A CATTLE POPULATIONSELECTED FOR INCREASED TWINNING RATE -
Kappes, S.M., Bennett, G.L., Keele, J.W., Echternkamp, S.E., Gregory, K.E., Thallman, R.M. 2000. Initial results of a genomic scans for ovulation rate in a cattle population selected for increased twinning rate. Journal of Animal Science. 78(12):3053-3059.
DATABASE MANAGEMENT OF HIGH THROUGHPUT EST SEQUENCING AND SNP DISCOVERY -
BOVINE CAPN1 MAPS TO A REGION OF BTA29 CONTAINING A QTL FOR MEAT TENDERNESS -
EPISTATIC INTERACTIONS WITH MYOSTATIN FOR CARCASS COMPOSITION IN BEEF CATTLE -
Casas, E., Keele, J.W., Shackelford, S.D., Stone, R.T., Kappes, S.M., Koohmaraie, M. 2000. Epistatic interactions with myostatin for carcass composition in beef cattle. 27th International Conference on Animal Genetics. p. 23. (Abstract)
LINKAGE MAPPING OF ESTS IN PIGS USING SINGLE NUCLEOTIDE POLYMORPHISMS (SNPS): II. HIGH-THROUGHPUT GENOTYPING AND MAPPING -
DEVELOPMENT AND MAPPING OF TYPE-I (GENE-RELATED) MARKERS IN THE BOVINE GENOME BY LARGE-SCALE EXPRESSED SEQUENCE TAG (EST) SEQUENCING AND SINGLE NUCLEOTIDE POLYMORPHISM (SNP) DETECTION -
LINKAGE MAPPING ESTS IN PIGS USING SINGLE NUCLEOTIDE POLYMORPHISMS (SNPS): SNP DISCOVERY -
BOVINE CAPN1 MAPS TO A REGION OF BTA29 CONTAINING A QTL FOR MEAT TENDERNESS -
QUANTITATIVE TRAIT LOCI AFFECTING GROWTH AND CARCASS COMPOSITION OF CATTLE SEGREGATING ALTERNATE FORMS OF MYOSTATIN -
Casas, E., Shackelford, S.D., Keele, J.W., Stone, R.T., Kappes, S.M., Koohmaraie, M. 2000. Quantitative trait loci affecting growth and carcass composition of cattle segregating alternate forms of myostatin. Journal of Animal Science. 78:560-569.
SINGLE NUCLEOTIDE POLYMORPHISM (SNP) DISCOVERY AND LINKAGE MAPPING OF BOVINE CYTOKINE GENES -
Grosse, W.M., Kappes, S.M., Laegreid, W.W., Keele, J.W., Chitko Mckown, C.G., Heaton, M.P. 1999. Single nucleotide polymorphism (SNP) discovery and linkage mapping of bovine cytokine genes. Mammalian Genome. 10:1062-1069.
EVIDENCE OF QUANTITATIVE TRAIT LOCI AFFECTING GROWTH AND CARCASS COMPOSITION TRAITS IN CATTLE SEGREGATING THE MUSCLE HYPERTROPHY LOCUS -
GENOTYPIC EFFECTS AT THE CALLIPYGE LOCUS FOR MEAT QUALITY TRAITS IN LAMBS -
LINKAGE ASSIGNMENT OF THE LAST UNMAPPED ERYTHROCYTE ANTIGEN, EAF -
QUANTITATIVE TRAIT LOCI ON BOVINE CHROMOSOMES 15 AND 29 EVIDENCE THAT HUMAN CHROMOSOME 11 HARBORS ORTHOLOGOUS GENES ASSOCIATED WITH LONGISSIMUS TENDERNESS IN BOVINE -
Casas, E., Keele, J.W., Shackelford, S.D., Smith, T.P., Koohmaraie, M., Kappes, S.M., Stone, R.T. 1999. Quantitative trait loci on bovine chromosomes 15 and 29 evidence that human chromosome 11 harbors orthologous genes associated with longissimus tenderness in bovine. From Jay Lush to Genomics: Visions for Animal Breeding and Genetics., Iowa State University, Ames, IA. p. 153. (Abstract)
FINE MAPPING OF A WARNER-BRATZLER SHEAR FORCE QUANTITATIVE TRAIT LOCUS ON BOVINE CHROMOSOME 15 -
THE PROCESS AND USE OF FUNCTIONAL GENOMICS IN BEEF CATTLE: SO YOU HAVE A QTL, NOW WHAT? -
TECHNICAL NOTE: DIRECT GENOTYPING OF THE DOUBLE-MUSCLING LOCUS (MH) IN PIEDMONTESE AND BELGIAN BLUE CATTLE BY FLUORESCENT PCR -
QUANTITATIVE ANALYSIS OF BIRTH, WEANING AND YEARLING WEIGHTS, AND CALVING DIFFICULTY IN PIEDMONTESE CROSSBREDS SEGREGATING AN INACTIVE MYOSTATIN ALLELE -
EVALUATION OF THE OVINE CALLIPYGE LOCUS: III. GENOTYPIC EFFECTS ON MEAT QUALITY TRAITS -
A QUANTITATIVE TRAIT LOCUS FOR BIRTH AND YEARLING WEIGHT SEGREGATES ON CHROMOSOME 6 IN BOS TAURUS CATTLE -
FINE MAPPING OF A WARNER-BRATZLER SHEAR FORCE QTL ON BTA15 -
STATUS OF MAPPING BOVINE QTL AT THE U.S. MEAT ANIMAL RESEARCH CENTER -
A REGION ON BOVINE CHROMOSOME 15 INFLUENCES BEEF LONGISSIMUS TENDERNESS IN STEERS -
A PRIMARY SCREEN OF THE BOVINE GENOME FOR QUANTITATIVE TRAIT LOCI AFFECTING CARCASS AND GROWTH TRAITS -
DEVELOPMENT OF SINGLE NUCLEOTIDE POLYMORPHISM (SNP) MARKERS FOR BOVINE C-X-C CHEMOKINE GENES -
A QUANTITATIVE TRAIT LOCUS FOR MARBLING ON BOVINE CHROMOSOME 27 -
MAPPING BOVINE AND OVINE GENES WITH INTRONIC SINGLE NUCLEOTIDE POLYMORPHISMS -
EVALUATION OF THE OVINE CALLIPYGE LOCUS: II. GENOTYPIC EFFECTS ON GROWTH, SLAUGHTER, AND CARCASS TRAITS -
DISCOVERY OF MYOSTATIN AS THE GENE RESPONSIBLE FOR DOUBLE MUSCLING, AND IMPLICATIONS FOR MEAT PRODUCTION -
IDENTIFICATION OF QTL AFFECTING CARCASS COMPOSITION IN SWINE: FAT DEPOSITION TRAITS -
IDENTIFICATION OF QTL AFFECTING CARCASS COMPOSITION IN SWINE: MUSCLING AND WHOLESALE PRODUCT YIELD TRAITS -
REFINEMENT OF BOVINE CHROMOSOME 2 LINKAGE MAP NEAR THE MH LOCUS REVEALS COMPLEX REARRANGEMENTS BETWEEN THE BOVINE AND HUMAN GENOMES. -
EVALUATION OF THE OVINE CALLIPYGE LOCUS: I. RELATIVE CHROMOSOMAL POSITION AND GENE ACTION -
EFFECT OF A MUTATION AT THE MYOSTATIN GENE ON EARLY LIFE WEIGHTS AND CALVING EASE IN A POPULATION OF PIEDMONTESE INHERITANCE -
SIMPLE GENETIC TEST THAT SUPPORTS MARKER ASSISTED SELECTION TO INCREASE RETAIL PRODUCT YIELD IN CATTLE -
REPORT OF THE FIRST WORKSHOP ON THE GENETIC MAP OF BOVINE CHROMOSOME 1 -
MAPPING QTL FOR CARCASS COMPOSITION IN SWINE -
MYOSTATIN MUTATIONS CAUSE DOUBLE MUSCLING IN CATTLE -
A SECOND GENERATION LINKAGE MAP OF THE SHEEP GENOME -
MYOSTATIN MUTATIONS CAUSE DOUBLE MUSCLING IN CATTLE -
ASSOCIATION OF THE MUSCLE HYPERTROPHY LOCUS WITH CARCASS TRAITS IN BEEF CATTLE -
ASSOCIATION OF THE DOUBLE-MUSCLING LOCUS ON BOVINE CHROMOSOME TWO (BTA2) WITH CARCASS TRAITS -
ESTIMATION OF CHROMOSOMAL POSITION AND EFFECTS OF THE CALLIPYGE ALLELE (CLPG) USING QUANTITATIVE MEASUREMENTS OF CARCASS TRAITS -
INTEGRATION OF FOUR PUBLISHED BOVINE LINKAGE MAPS -
POSTERIOR PROBABILITIES OF SCORING ERRORS IN GENETIC MARKER DATA -
A GENETIC MAP OF THE OVINE GENOME -
GENETIC ANALYSIS OF MEAT QUALITY IN CATTLE -
A SECOND GENERATION LINKAGE MAP OF THE BOVINE GENOME -
SHORT COMMUNICATION: CHARACTERIZATION OF 109 BOVINE MICROSATELLITES -
MAPPING QUANTITATIVE TRAIT LOCI USING SELECTION PROJECTS ORIGINATING FROM COMPOSITE POPULATIONS -
A SECOND GENERATION GENETIC MAP OF THE OVINE GENOME -
A COMPARISON OF THE BOVINE AND OVINE GENETIC LINKAGE MAPS -
A COMPREHENSIVE MAP OF THE PORCINE GENOME -
A SMALL-INSERT BOVINE GENOMIC LIBRARY HIGHLY ENRICHED FOR MICROSATELLITE REPEAT SEQUENCES -
Last Modified: 8/26/2016
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