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United States Department of Agriculture

Agricultural Research Service

Related Topics

Amanda Kay Lindholm-Perry
Nutrition and Environmental Management Research
Research Geneticist

Phone: (402) 762-4189
Fax: (402) 762-4209
P.O. BOX 166
CLAY CENTER, NE, 68933-0166

Projects
IMPROVED NUTRIENT EFFICIENCY OF BEEF CATTLE AND SWINE
Appropriated (D)
  Accession Number: 422392

Publications (Clicking on the reprint icon Reprint Icon will take you to the publication reprint.)
Rna-Seq Detection of Differential Gene Expression in the Rumen of Beef Steers Associated with Feed Efficiency Phenotypes - (Abstract Only)
Kern, R.J., Lindholm-Perry, A.K., Freetly, H.C., Snelling, W.M., Kern, J.W., Miles, J.R., Ludden, P.A. 2014. RNA-Seq detection of differential gene expression in the rumen of beef steers associated with feed efficiency phenotypes [abstract]. Journal of Animal Science. 92(E-Supplement 2):918.
DNA polymorphisms and transcript abundance of PRKAG2 and phosphorylated AMP-activated protein kinase in the rumen are associated with gain and feed intake in beef steers Reprint Icon - (Peer Reviewed Journal)
Lindholm-Perry, A.K., Kuehn, L.A., Oliver, W.T., Kern, R.J., Cushman, R.A., Miles, J.R., McNeel, A.K., Freetly, H.C. 2014. DNA polymorphisms and transcript abundance of PRKAG2 and phosphorylated AMP-activated protein kinase in the rumen are associated with gain and feed intake in beef steers. Animal Genetics. 45(4):461-472.
Surface enlargement factor of rumen papillae and expression of genes involved in dermatological diseases and their relationships with feed intake in beef steers - (Abstract Only)
Kern, R.J., Lindholm-Perry, A.K., Freetly, H.C., Snelling, W.M., Miles, J.R., Ludden, P.A. 2014. Surface enlargement factor of rumen papillae and expression of genes involved in dermatological diseases and their relationships with feed intake in beef steers [abstract]. Journal of Animal Science. 92(Supplement 2):32.
An evaluation of the differences in the rumen transcriptome among beef steers with extreme feed efficiency phenotypes - (Abstract Only)
Lindholm-Perry, A.K., Kern, R.J., Kuehn, L.A., Miles, J.R., Freetly, H.C., Snelling, W.M., Ludden, P.A. 2014. An evaluation of the differences in the rumen transcriptome among beef steers with extreme feed efficiency phenotypes. Plant & Animal Genome XXII Conference, January 11-15, 2014, San Diego, CA. Abstract No. W155.
Adipose and muscle tissue gene expression of two genes (NCAPG and LCORL) located in a chromosomal region associated with cattle feed intake and gain Reprint Icon - (Peer Reviewed Journal)
Lindholm-Perry, A.K., Kuehn, L.A., Oliver, W.T., Sexten, A.K., Miles, J.R., Rempel, L.A., Cushman, R.A., Freetly, H.C. 2013. Adipose and muscle tissue gene expression of two genes (NCAPG and LCORL) located in a chromosomal region associated with cattle feed intake and gain. PLoS One. 8(11):e80882.
Ruminal and adipose gene expression in beef steers selected for diverse feed intake and gain phenotypes - (Abstract Only)
Lindholm-Perry, A.K., Rempel, L.A., Hales, K.E., Oliver, W.T., Freetly, H.C., Kuehn, L.A. 2013. Ruminal and adipose gene expression in beef steers selected for diverse feed intake and gain phenotypes [abstract]. Journal of Animal Science Supplement. 91(E-Supplement 2):629.
Lipogenic-associated gene activity of adipose tissue from beef heifers and relation to production and reproductive traits - (Abstract Only)
Rempel, L.A., Cushman, R.A., McDaneld, T.G., Miles, J.R., Kuehn, L.A., Lindholm-Perry, A.K. 2013. Lipogenic-associated gene activity of adipose tissue from beef heifers and relation to production and reproductive traits. Journal of Animal Science. 91 (E-Supplement 2):466 (Abstract #510).
Ruminal methanogens in steers that are negative or positive for residual gain - (Abstract Only)
Freetly, H., Wells, J., Kim, M., Hales, K., Lindholm-Perry, A. 2013. Ruminal methanogens in steers that are negative or positive for residual gain [abstract]. Journal of Animal Science Supplement. 91(E-Supplement 2):437.
Prioritizing sequence polymorphisms for potential association with phenotype - (Abstract Only) - (02-Mar-13)
Development and applications of low-cost, high-throughput genotyping - (Abstract Only)
Thallman, R.M., Lindholm-Perry, A.K., Curry, J.D., Fofanov, V.Y., Koshinsky, H. 2013. Development and applications of low-cost, high-throughput genotyping [abstract]. Journal of Animal Science. 91(Supplement 2):20. Abstract No. O063.
Low-cost genotyping by next generation sequencing: Next generation genotyping - (Abstract Only)
Curry, J.D., Snelling, W.M., Lindholm-Perry, A.K., Dier, P., Shin, M., Nguyen, J., Bulsara, N., Thallman, R.M., Fofanov, V.Y., Koshinsky, H. 2013. Low-cost genotyping by next generation sequencing: Next generation genotyping [abstract]. Plant and Animal Genome XXI Conference. Poster Abstract No. P0525.
Use of single nucleotide polymorphisms (SNP) to fine-map quantitative trait loci (QTL) in swine - (Abstract Only)
Rohrer, G.A., Lindholm-Perry, A.K., Shackelford, S.D., King, D.A., Wheeler, T.L., Nonneman, D. 2013. Use of single nucleotide polymorphisms (SNP) to fine-map quantitative trait loci (QTL) in swine [abstract]. Plant and Animal Genome XXI Conference Proceedings. Abstract #W047.
Development of low-cost, high-throughput genotyping to complement SNP discovery by individual animal whole-genome sequencing - (Abstract Only)
Thallman, R.M., Snelling, W.M., Curry, J.D., Smith, T.P., Kalbfleisch, T.S., Kuehn, L.A., McDaneld, T.G., Bennett, G.L., Lindholm-Perry, A.K., Fofanov, V.Y., Koshinsky, H., Pollak, E.J. 2013. Development of low-cost, high-throughput genotyping to complement SNP discovery by individual animal whole-genome sequencing [abstract]. Plant and Animal Genome XXI Conference. Workshop Abstract No. W146.
Adipose and muscle tissue expression of two genes (NCAPG and LCORL) located in a chromosomal region associated with cattle feed intake and gain - (Abstract Only)
Lindholm-Perry, A.K., Sexten, A.K., Kuehn, L.A., Rempel, L.A., Miles, J.R., Cushman, R.A., Freetly, H.C. 2012. Adipose and muscle tissue expression of two genes (NCAPG and LCORL) located in a chromosomal region associated with cattle feed intake and gain [abstract]. Journal of Animal Science. 90(Suppl. 3):453.
Evaluation of bovine chemerin (RARRES2) gene variation on beef cattle production traits - (Peer Reviewed Journal)
Lindholm-Perry, A.K., Kuehn, L.A., Rempel, L.A., Smith, T.P., Cushman, R.A., McDaneld, T.G., Wheeler, T.L., Shackelford, S.D., King, D.A., Freetly, H.C. 2012. Evaluation of bovine chemerin (RARRES2) gene variation on beef cattle production traits. Frontiers in Genetics. 3:39.
Association, effects and validation of polymorphisms within the NCAPG - LCORL locus located on BTA6 with feed intake, gain, meat and carcass traits in beef cattle - (Peer Reviewed Journal)
Lindholm-Perry, A.K., Sexten, A.K., Kuehn, L.A., Smith, T.P., King, D.A., Shackelford, S.D., Wheeler, T.L., Ferrell, C.L., Jenkins, T.G., Snelling, W.M., Freetly, H.C. 2011. Association, effects and validation of polymorphisms within the NCAPG - LCORL locus located on BTA6 with feed intake, gain, meat and carcass traits in beef cattle. BioMed Central (BMC) Genetics. 12:103.
Mass genotyping by sequencing technology - (Abstract Only)
Curry, J.D., Lindholm-Perry, A.K., Shin, M., Liu, J.T., Bulsara, N., Dier, P., Thallman, R.M., Fofanov, V.Y., Koshinsky, H. 2012. Mass genotyping by sequencing technology. Plant & Animal Genome XX Conference, January 14-18, 2012, San Diego, California. Poster No. P0182.
Genetic markers on BTA14 predictive for residual feed intake in beef steers and their effects on carcass and meat quality traits - (Peer Reviewed Journal)
Lindholm-Perry, A.K., Kuehn, L.A., Snelling, W.M., Smith, T.P., Ferrell, C.L., Jenkins, T.G., King, D.A., Shackelford, S.D., Wheeler, T.L., Freetly, H.C. 2012. Genetic markers on BTA14 predictive for residual feed intake in beef steers and their effects on carcass and meat quality traits. Animal Genetics. 43:599-603.
Genetic markers in bovine chromosome 14 are significant for residual feed intake in steers - (Abstract Only)
Lindholm-Perry, A.K., Kuehn, L.A., Smith, T.P., Snelling, W.M., Freetly, H.C. 2011. Genetic markers in bovine chromosome 14 are significant for residual feed intake in steers. Journal of Animal Science. 89(E-Suppl. 1):422-423.
A region on BTA14 that includes the positional candidate genes LYPLA1, XKR4 and TMEM68 is associated with feed intake and growth phenotypes in cattle - (Peer Reviewed Journal)
Lindholm-Perry, A.K., Kuehn, L.A., Smith, T.P., Ferrell, C.L., Jenkins, T.G., Freetly, H.C., Snelling, W.M. 2012. A region on BTA14 that includes the positional candidate genes LYPLA1, XKR4 and TMEM68 is associated with feed intake and growth phenotypes in cattle. Animal Genetics. 43(2):216-219.
Predictive markers in calpastatin for tenderness in commercial pig populations - (Peer Reviewed Journal)
Nonneman, D.J., Lindholm-Perry, A.K., Shackelford, S.D., King, D.A., Wheeler, T.L., Rohrer, G.A., Bierman, C.D., Schneider, J.F., Miller, R.K., Zerby, H., Moeller, S.J. 2011. Predictive markers in calpastatin for tenderness in commercial pig populations. Journal of Animal Science. 89:2663-2672.
Evaluation of polymorphisms within the genes GSHR and SLC2A2 that are within a region on bovine chromosome 1 (BTA1) previously associated with feed intake and weight gain - (Peer Reviewed Journal)
Lindholm-Perry, A.K., Kuehn, L.A., Snelling, W.M., Smith, T.P., Ferrell, C.L., Jenkins, T.G., Freetly, H.C. 2012. Evaluation of polymorphisms within the genes GSHR and SLC2A2 that are within a region on bovine chromosome 1 (BTA1) previously associated with feed intake and weight gain. Animal Genetics. 43(1):112.
Genomic regions associated with kyphosis in swine Reprint Icon - (Peer Reviewed Journal)
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.
The effects of genetic markers on BTA6 significant for steer feed intake and gain traits on carcass and meat traits - (Abstract Only)
Lindholm-Perry, A.K., Sexten, A.K., Kuehn, L.A., Smith, T.P., King, D.A., Shackelford, S.D., Wheeler, T.L., Snelling, W.M., Freetly, H.C. 2011. The effects of genetic markers on BTA6 significant for steer feed intake and gain traits on carcass and meat traits. Plant & Animal Genome XIX Conference. Poster No. P531. p. 230
Polymorphisms in POMC are not associated with dry matter intake and average daily gain phenotypes in beef cattle Reprint Icon - (Peer Reviewed Journal)
Lindholm-Perry, A.K., Kuehn, L.A., Snelling, W.M., Smith, T.P.L., Ferrell, C.L., Jenkins, T.G., Freetly, H.C. 2010. Polymorphisms in POMC are not associated with dry matter intake and average daily gain phenotypes in beef cattle. Animal Genetics. 41(6):669-670.
Using growth traits and adipose function to identify indicators of heifer fertility - (Abstract Only)
Cushman, R.A., Allan, M.F., Mcdaneld, T.G., Kuehn, L.A., Rempel, L.A., Lindholm-Perry, A.K., Snelling, W.M., Freetly, H.C. 2010. Using growth traits and adipose function to identify indicators of heifer fertility [abstract]. Proceedings of 8th International Ruminant Reproduction Symposium. p. 130 (Abstract # M43).
A Region on BTA6 Is Associated with Feed Intake and Gain in Beef Cattle - (Abstract Only)
Sexten, A.K., Kuehn, L.A., Smith, T.P., Freetly, H.C., Snelling, W.M., Lindholm-Perry, A.K. 2010. A Region on BTA6 Is Associated with Feed Intake and Gain in Beef Cattle [abstract]. Journal of Animal Science. 88 (E-Supplement 2):185.
Evaluation of Two Positional Candidate Genes on BTA14 for Association with Dry Matter Intake in Beef Cattle - (Abstract Only)
Lindholm-Perry, A.K., Kuehn, L.A., Smith, T.P., Freetly, H.C., Snelling, W.M. 2010. Evaluation of Two Positional Candidate Genes on BTA14 for Association with Dry Matter Intake in Beef Cattle [abstract]. Plant & Animal Genome XVIII Conference. Poster No. P553. p. 216.
Allele-Specific Transcription Factor Binding in Pig Calpastatin Promoter Regions Reprint Icon - (Abstract Only)
Nonneman, Dan J., Lindholm-Perry, Amanda K., Shackelford, Steven D., King, D.Andy, Wheeler, Tommy L., Rohrer, Gary A. 2010. Allele-Specific Transcription Factor Binding in Pig Calpastatin Promoter Regions. Plant and Animal Genome Conference Proceedings XVIII. 1/9-13/2010. San Diego, CA. Abstract #P607.
Association of Functional SNPs in Pig Calpastatin Regulatory Regions with Tenderness Reprint Icon - (Abstract Only)
Nonneman, D.J., Lindholm-Perry, A.K., Shackelford, S.D., King, D.A., Wheeler, T.L., Rohrer, G.A., Bierman, C., Miller, R.K., Zerby, H., Moeller, S.J. 2010. Association of Functional SNPs in Pig Calpastatin Regulatory Regions with Tenderness. Proc., Midwestern Section of the American Society of Animal Science Meeting. March 15-17, 2010. Des Moines, IA. Abstract #34. p. 11-12.
Relationships among calpastatin single nucleotide polymorphisms, calpastatin expression and tenderness in pork longissimus Reprint Icon - (Peer Reviewed Journal)
Lindholm-Perry, A.K., Rohrer, G.A., Holl, J.W., Shackelford, S.D., Wheeler, T.L., Koohmaraie, M., Nonneman, D.J. 2009. Relationships among calpastatin single nucleotide polymorphisms, calpastatin expression and tenderness in pork longissimus. Animal Genetics. 40(5):713-721.
Positional candidate genes for kyphosis in commercial swine populations Reprint Icon - (Abstract Only)
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.
Update on genetic markers for pork quality - (Proceedings)
Rohrer, G.A., Holl, J.W., Lindholm-Perry, A.K., Nonneman, D.J., Shackelford, S.D., Wheeler, T.L., Koohmaraie, M. 2007. Update on genetic markers for pork quality. Conference Proc., National Swine Improvement Federation Conference & Ann. Mtg., Dec. 5-7, 2007. Kansas City, MO, NSIF Volume 32, www.nsif.com
Last Modified: 9/2/2014
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