Projects

DEVELOPMENT OF GENOMIC TOOLS TO STUDY RUMINANT RESISTANCE TO GASTROINTESTINAL NEMATODES Appropriated (D)   Accession Number: 422162

IMPROVING GENETIC PREDICTIONS IN DAIRY ANIMALS USING PHENOTYPIC AND GENOMIC INFORMATION Appropriated (D)   Accession Number: 423282

ENHANCING GENETIC MERIT OF RUMINANTS THROUGH GENOME SELECTION AND ANALYSIS Appropriated (D)   Accession Number: 423740

GENERATING AND ANALYZING DNA SEQUENCE USING NEXT-GENERATION SEQUENCING TECHNOLOGIES Nonfunded Cooperative Agreement (N)   Accession Number: 415162

IMPROVING LIVESTOCK PRODUCTIVITY THROUGH ENHANCED BREEDING PROGRAMS – APPLICATIONS IN GOAT GENOMICS Specific Cooperative Agreement (S)   Accession Number: 423525

IMPROVING LIVESTOCK PRODUCTIVITY THROUGH ENHANCED BREEDING PROGRAMS – APPLICATIONS IN GOAT GENOMICS 2 Specific Cooperative Agreement (S)   Accession Number: 423673

IMPLEMENTATION OF WHOLE GENOME SELECTION IN NORTH AMERICAN JERSEY CATTLE Trust (T)   Accession Number: 418902

NOVEL SNP DISCOVERY AND GENOME ASSEMBLY OF WATER BUFFALO Trust (T)   Accession Number: 420332

Publications (Clicking on the reprint icon will take you to the publication reprint.)

Laser capture microdissection coupled with RNA-seq reveals that short cuboidal trophoblast cells of the porcine placenta possess a transcriptome consistent with a migratory cell type - (Abstract Only) - (28-Mar-13)

ADAPTmap: International coordinated data resource for improving goat production effiency - (Other) - (27-Mar-13)

Analysis of population structure and genetic history of cattle breeds based on high-density SNP data - (Abstract Only)

Xu, L., Huson, H.J., Hou, Y., Bickhart, D.M., Song, J., Sonstegard, T.S., Van Tassell, C.P., Liu, G. 2013. Analysis of population structure and genetic history of cattle breeds based on high-density SNP data. BARC Poster Day. p.55 Abstract 48.

Insights into differential trophoblast function within the late gestation porcine placenta using laser capture microdissection and RNA-seq - (Proceedings) - (22-Mar-13)

Identification of single nucleotide polymorphisms (SNPs)associated to Red Maasai x Dorper resistance to gastrointestinal parasite infections - (Abstract Only)

Benavides, M., Sonstegard, T.S., Kemp, S., Mugambi, J., Gibson, J., Baker, R., Van Tassell, C.P. 2013. Identification of single nucleotide polymorphisms (SNPs)associated to Red Maasai x Dorper resistance to gastrointestinal parasite infections. BARC Poster Day. BARC {oster Day 2013 Abstract #3.

Fine mapping for Weaver Syndrome in the Brown Swiss breed with the identification of possible casual mutations across NRCAM, PNPLA8, and CTTNBP2 and Developement of a diagnostic SNP haplotype - (Peer Reviewed Journal)

Mcclure, M.C., Kim, E., Bickhart, D.M., Null, D.J., Cooper, T.A., Cole, J.B., Wiggans, G.R., Marsan, P.A., Colli, L., Santus, E., Liu, G., Schroeder, S.G., Matukumalli, L., Van Tassell, C.P., Sonstegard, T.S. 2013. Fine mapping for Weaver Syndrome in the Brown Swiss breed with the identification of possible casual mutations across NRCAM, PNPLA8, and CTTNBP2 and Developement of a diagnostic SNP haplotype. PLoS One. 8(3): e59251.

Identification of a nonsense mutation in CWC15 associated with decreased reproductive efficiency in Jersey cattle - (Peer Reviewed Journal)

Sonstegard, T.S., Cole, J.B., Van Raden, P.M., Van Tassell, C.P., Null, D.J., Schroeder, S.G., Bickhart, D.M., Mcclure, M.C. 2013. Identification of a nonsense mutation in CWC15 associated with decreased reproductive efficiency in Jersey cattle. PLoS One. 8(1):e54872.

Transcriptomic analysis of copper tolerance and wood decay in the brown rot fungus Fibroporia radiculosa - (Peer Reviewed Journal) - (17-Dec-12)

Technical note: Characteristics and use of the Illumina BovineLD and GeneSeek Genomic Profiler low-density bead chips for genomic evaluation - (Peer Reviewed Journal)

Wiggans, G.R., Cooper, T.A., Van Tassell, C.P., Sonstegard, T.S., Simpson, E.B. 2013. Technical note: Characteristics and use of the Illumina BovineLD and GeneSeek Genomic Profiler low-density bead chips for genomic evaluation. Journal of Dairy Science. 96(2):1258-1263.

Genomic imputation and evaluation using high density Holstein genotypes - (Peer Reviewed Journal)

Van Raden, P.M., Null, D.J., Sargolzaei, M., Wiggans, G.R., Tooker, M.E., Cole, J.B., Sonstegard, T.S., Connor, E.E., Winters, M., Van Kaam, J., Van Doormaal, B.J., Faust, M.A., Doak, G.A. 2013. Genomic imputation and evaluation using high density Holstein genotypes. Journal of Dairy Science. 96(1):668-678.

Effect of sample stratification on dairy GWAS results - (Peer Reviewed Journal)

Ma, L., Wiggans, G.R., Wang, S., Sonstegard, T.S., Yang, J., Crooker, B.A., Cole, J.B., Van Tassell, C.P., Da, Y. 2012. Effect of sample stratification on dairy GWAS results. Biomed Central (BMC) Genomics. 13:536.

Fine mapping of copy number variations on two cattle genome assemblies using high density SNP array - (Peer Reviewed Journal)

Hou, Y., Bickhart, D.M., Hvinden, M.L., Li, C., Song, J., Boichard, D.A., Fritz, S., Eggen, A., Denise, S., Wiggans, G.R., Sonstegard, T.S., Van Tassell, C.P., Liu, G. 2012. Fine mapping of copy number variations on two cattle genome assemblies using high density SNP array. Biomed Central (BMC) Genomics. 13:376 doi:10.1186/1471-2164-13-376.

Imputation of Microsatellite Allele from Dense SNP Genotypes for Parentage Verification - (Peer Reviewed Journal)

Mcclure, M.C., Sonstegard, T.S., Van Tassell, C.P., Wiggans, G.R. 2012. Imputation of Microsatellite Allele from Dense SNP Genotypes for Parentage Verification [abstract]. Frontiers in Livestock Genomics. 3: 140.

Fine mapping and discovery of recessive mutations that cause abortions in dairy cattle - (Abstract Only)

Van Raden, P.M., Null, D.J., Sonstegard, T.S., Adams, H.A., Van Tassell, C.P., Olson, K.M. 2012. Fine mapping and discovery of recessive mutations that cause abortions in dairy cattle. Journal of Dairy Science. 95(Suppl. 2):ii–iii(abstr. LB6). 2012.

Signature of forty years of artificial selection in U.S. Holstein cattle identified by long-range frequency analyses - (Proceedings)

Sonstegard, T.S., Wang, S., Van Tassell, C.P., Ma, L., Wiggans, G.R., Crooker, B., Cole, J.B., Mariani, B.D., Kim, E., Garbe, J.R., Fahrenkrug, S., Liu, G., Da, Y. 2012. Signature of forty years of artificial selection in U.S. Holstein cattle identified by long-range frequency analyses. International Conference on Quantitative Genetics: Understanding Variation in Complex Traits, Edinburgh, Scotland, June 17–22, Programme & Book of Abstracts, p. 213, abstr. P-314.

Copy number variation detection in cattle reveals potential breed specific differences - (Abstract Only)

Bickhart, D.M., Hou, Y., Schroeder, S.G., Alkan, C., Cardone, M., Matukumalli, L.K., Song, J., Schnabel, R.D., Ventura, M., Taylor, J., Garcia, J., Van Tassell, C.P., Sonstegard, T.S., Eichler, E.E., Liu, G. 2012. Copy number variation detection in cattle reveals potential breed specific differences. BARC Poster Day. p. 13

Identification of single nucleotide polymorphisms (SNPs) associated to Red Maasai x Dorper resistance to gastrointestinal parasite infections - (Abstract Only) - (26-Mar-12)

Characteristics and use of the Illumina BovineLD BeadChip - (Abstract Only)

Wiggans, G.R., Van Raden, P.M., Cooper, T.A., Van Tassell, C.P., Sonstegard, T.S., Simpson, B. 2012. Characteristics and use of the Illumina BovineLD BeadChip. Journal of Dairy Science. 95(Suppl. 2):447(abstr. 450). 2012.

Analysis of copy number variations among cattle breeds - (Abstract Only)

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.

Design of a bovine low-density SNP array optimized for imputation - (Peer Reviewed Journal)

Boichard, D., Chung, H., Dassonneville, R., David, X., Eggen, A., Fritz, S., Gietzen, K.J., Hayes, B.J., Lawley, C.T., Sonstegard, T.S., Van Tassell, C.P., Van Raden, P.M., Viaud, K., Wiggans, G.R. 2012. Design of a bovine low-density SNP array optimized for imputation. PLoS One. 7(3):e34130.

Copy number variation of individual cattle genomes using next-generation sequencing - (Peer Reviewed Journal)

Bickhart, D.M., Hou, Y., Schroeder, S.G., Alkan, C., Cardone, M., Matukumalli, L.K., Song, J., Schnabel, R.D., Ventura, M., Taylor, J., Garcia, J., Van Tassell, C.P., Sonstegard, T.S., Eichler, E.E., Liu, G. 2012. Copy number variation of individual cattle genomes using next-generation sequencing. Genome Research. 22(4):778-90.

Short read sequencing for Genomic Analysis of the brown rot fungus Fibroporia radiculosa - (Peer Reviewed Journal)

Tang, J.D., Perkins, A.D., Sonstegard, T.S., Schroeder, S.G., Burgess, S.C., Diehl, S.V. 2012. Short read sequencing for Genomic Analysis of the brown rot fungus Fibroporia radiculosa. Applied and Environmental Microbiology. 78(7):2272-81.

Box-Cox Transformation and Random Regression Models for Fecal Egg Count Data - (Peer Reviewed Journal)

Silva, M.V., Van Tassell, C.P., Sonstegard, T.S., Cobuci, J.A., Gasbarre, L.C. 2012. Box-Cox Transformation and Random Regression Models for Fecal Egg Count Data. Frontiers in Genetics. 2:112.

Copy number variation of individual cattle genomes using next-generation sequencing - (Abstract Only)

Bickhart, D.M., Hou, Y., Schroeder, S.G., Alkan, C., Cardone, M., Matukumalli, L.K., Song, J., Schnabel, R.D., Ventura, M., Taylor, J.F., Garcia, J., Van Tassell, C.P., Sonstegard, T.S., Eichler, E.E., Liu, G. 2012. Copy number variation of individual cattle genomes using next-generation sequencing. Plant and Animal Genome Conference. p. 549.

Y are you not pregnant: identification of Y chromosome segments in female cattle with decreased reproductive efficiency - (Peer Reviewed Journal)

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.

Whole genome analysis for backfat thickness in a tropically adapted, composite cattle breed from Brazil - (Peer Reviewed Journal)

Veneroni- Gouveia, G., Meirelles, S.L., Grossi, D.A., Santiago, A.C., Sonstegard, T.S., Yamagishi, M.B., Matukumalli, L.K., Coutinho, L.L., Alencar, M.M., Oliveira, H.N., Regitano, L.A. 2011. Whole genome analysis for backfat thickness in a tropically adapted, composite cattle breed from Brazil. Animal Genetics. DOI: 10.1111/j.1365-2052.2011.02286.x.

Applications of Genomics to Genetic Improvement of Dairy Cattle - (Proceedings)

Van Tassell, C.P., Wiggins, G.R., Vanraden, P.M., Cooper, T.A., Sonstegard, T.S. 2011. Applications of Genomics to Genetic Improvement of Dairy Cattle. Cornell Nutrition Conference for Feed Manufacturers. p. 57-68.

Copy number variations related to reproduction traits in Holstein cattle - (Abstract Only)

Hou, Y., Bickhart, D.M., Fang, X., Song, J., Van Tassell, C.P., Sonstegard, T.S., Seroussi, E., Liu, G. 2011. Copy number variations related to reproduction traits in Holstein cattle. Meeting Abstract. No. 7.

Genomic regions showing copy number variations associate with resistance or susceptibility to gastrointestinal nematodes in Angus cattle - (Abstract Only)

Hou, Y., Liu, G., Bickhart, D.M., Matukumalli, L.K., Li, C., Song, J., Gasbarre, L.C., Van Tassell, C.P., Sonstegard, T.S. 2011. Genomic regions showing copy number variations associate with resistance or susceptibility to gastrointestinal nematodes in Angus cattle [abstract]. Paper No. 6.

Individualized cattle copy number and segmental duplication maps using next generation sequencing - (Abstract Only)

Bickhart, D.M., Hou, Y., Schroeder, S.G., Alkan, C., Cardone, M., Matukumalli, L., Song, J., Schnabel, R.D., Ventura, M., Taylor, J.F., Garcia, J., Eichler, E.E., Sonstegard, T.S., Van Tassell, C.P., Liu, G. 2011. Individualized cattle copy number and segmental duplication maps using next generation sequencing. Meeting Abstract. No. 8.

US consortium for the genetic improvement of feed efficiency in beef cattle - (Abstract Only)

Taylor, J.F., Beever, J.E., Fahrenkrug, S.C., Faulkner, D.B., Freetly, H.C., Garrick, D.J., Johnson, K.A., Hansen, S.L., Kerley, M.S., Loy, D.D., Neibergs, H.L., Pollak, E.J., Pomp, D., Seabury, C.M., Schnabel, R.D., Shike, D.W., Sonstegard, T.S., Spangler, M.L., Tait, J.R., Weaber, R.L. 2011. US consortium for the genetic improvement of feed efficiency in beef cattle [abstract]. Proceedings of the International Workshop on Bovine Genomics: Contributions to the Future of Livestock, October 6, 2011. Clermont-Ferrand/Cournon, France.

Innate immune response to a bovine mastitis pathogen profiled in milk and blood monocytes using a systems biology approach - (Abstract Only) - (19-Aug-11)

Genomic regions showing copy number variations associate with resistance or susceptibility to gastrointestinal nematodes in Angus Cattle - (Peer Reviewed Journal)

Hou, Y., Liu, G., Bickhart, D.M., Matukumalli, L.K., Li, C., Song, J., Gasbarre, L.C., Van Tassell, C.P., Sonstegard, T.S. 2011. Genomic regions showing copy number variations associate with resistance or susceptibility to gastrointestinal nematodes in Angus Cattle. Functional and Integrative Genomics. 12(1):81-92.

Genome-wide association analysis of thirty one production, health, reproduction and body conformation traits in contemporary U.S. Holstein cows - (Peer Reviewed Journal)

Cole, J.B., Wiggans, G.R., Ma, L., Sonstegard, T.S., Lawlor, T.J., Crooker, B.A., Van Tassell, C.P., Yang, J., Wang, S., Matukumalli, L.K., Da, Y. 2011. Genome-wide association analysis of thirty one production, health, reproduction and body conformation traits in contemporary U.S. Holstein cows. Biomed Central (BMC) Genomics. Online, 12:408.

A high-resolution cattle CNV map by population-scale genome sequencing - (Abstract Only)

Bickhart, D.M., Hou, Y., Schroeder, S.G., Alkan, C., Cardone, M.F., Matukumalli, L.K., Schnabel, R.D., Ventura, M., Taylor, J.F., Eichler, E.E., Sonstegard, T.S., Van Tassell, C.P., Liu, G. 2011. A high-resolution cattle CNV map by population-scale genome sequencing [abstract]. Gordon Research Conference. No. 48.

Cattle from the Isle of Jersey: A perfect storm for change - (Government Publication)

Sonstegard, T.S., Van Tassell, C.P., Wolfe, C. 2011. Cattle from the Isle of Jersey: A perfect storm for change. GlobalDiv Newsletter. vol. 19 p. 15-18.

Bovine Genetic Diversity Revealed By mtDNA Sequence Variation - (Abstract Only)

Sonstegard, T.S., Van Tassell, C.P., Mcclure, M.C., Chung, H. 2011. Bovine Genetic Diversity Revealed By mtDNA Sequence Variation [abstrac]. BARC Poster Day. No. 15.

Discovery of Genetic Variation that Enhances Improvement of Dairy Production and Health in Cattle and Buffalos - (Abstract Only) - (14-Mar-11)

A Probabilistic Approach for Improved Sequence Mapping in Metatranscriptomic Studies - (Abstract Only) - (11-Mar-11)

A Statistical Approach for Ambiguous Sequence Mappings - (Abstract Only) - (11-Mar-11)

A high-resolution cattle CNV map by population-scale genome sequencing - (Abstract Only)

Bickhart, D.M., Hou, Y., Liu, G., Schroeder, S.G., Can, A., Maria, C., Matukumalli, L., Song, J., Schnabel, R., Ventura, M., Taylor, J., Eichler, E., Sonstegard, T.S., Van Tassell, C.P., Illumina Bovine Hd, C. 2011. A high-resolution cattle CNV map by population-scale genome sequencing. BARC Poster Day [abstract]. No. 5.

Next Generation Sequencing of a Bos taurus indicus (Nellore) animal: Genome Assembly and SNP Analysis - (Abstract Only) - (08-Mar-11)

Genomic and functional characteristics of copy number variations in Angus cattle selected for resistance or susceptibility to gastrointestinal nematodes - (Abstract Only)

Hou, Y., Liu, G., Bickhart, D.M., Matukumalli, L., Song, J., Gasbarre, L., Van Tassell, C.P., Sonstegard, T.S. 2011. Genomic and functional characteristics of copy number variations in Angus cattle selected for resistance or susceptibility to gastrointestinal nematodes [abstract]. BARC Poster Day. No. 17.

Genomic imputation and evaluation using 342 high density Holstein genotypes - (Abstract Only)

Van Raden, P.M., Null, D.J., Wiggans, G.R., Sonstegard, T.S., Connor, E.E. 2011. Genomic imputation and evaluation using 342 high density Holstein genotypes. Journal of Animal Science 89(E-Suppl. 1)/ Journal of Dairy Science 94(E-Suppl. 1):533(abstr. W53).

Genomic characteristics of cattle copy number variations - (Peer Reviewed Journal)

Hou, Y., Liu, G., Bickhart, D.M., Cardone, M.F., Wang, K., Kim, E., Matukumalli, L., Ventura, M., Song, J., Van Raden, P.M., Sonstegard, T.S., Van Tassell, C.P. 2011. Genomic characteristics of cattle copy number variations. Biomed Central (BMC) Genomics. 12:127.

A high-resolution cattle CNV map by population-scale genome sequencing - (Abstract Only)

Bickhart, D.M., Hou, Y., Schroeder, S.G., Alkan, C., Cardone, M.F., Matukumalli, L.K., Schnabel, R.D., Ventura, M., Taylor, J.F., Eichler, E.E., Sonstegard, T.S., Van Tassell, C.P., Liu, G. 2011. A high-resolution cattle CNV map by population-scale genome sequencing. CONFERENCE ON THE BIOLOGY OF GENOMES [abstract]. p. 32.

Identification of quantitative trait loci affecting resistance to gastro-intestinal parasites in a double backcross population of Red Maasai and Dorper sheep - (Peer Reviewed Journal)

Silva, M.V., Sonstegard, T.S., Hanotte, O., Mugambi, J., Garcia, J.F., Nagda, S., Gibson, J., Iraqi, F., Mcclintock, A.E., Kemp, S., Boettcher, P., Malek, M., Van Tassell, C.P., Baker, R.L. 2012. Identification of quantitative trait loci affecting resistance to gastro-intestinal parasites in a double backcross population of Red Maasai and Dorper sheep. Animal Genetics. 43(1):63-71.

Predicting breed composition using breed frequencies of 50,000 markers from the U.S. Meat Animal Research Center 2,000 bull project - (Peer Reviewed Journal)

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 and evolutionary characteristics of cattle copy number variations - (Abstract Only)

Hou, Y., Liu, G., Cardone, M.F., Wang, K., Kim, E., Matukumalli, L.K., Ventura, M., Van Raden, P.M., Sonstegard, T.S., Van Tassell, C.P. 2011. Genomic and evolutionary characteristics of cattle copy number variations [abstract]. Plant and Animal Genome Conference Proceedings. p. 537.

An atlas of bovine gene expression reveals novel distinctive tissue characteristics and evidence for improving genome annotation - (Peer Reviewed Journal)

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.

Multi-platform next-generation sequencing of the domestic turkey (Meleagris gallopavo) genome assembly and analysis - (Peer Reviewed Journal)

Dalloul, R.A., Long, J.A., Zimin, A.V., Reed, K.M., Blomberg, L., Van Tassell, C.P., Schroeder, S.G., Sonstegard, T.S., Aslam, L., Beal, K., Biedler, J., Burt, D.W., Crasta, O., Crooijmans, R.P., Cooper, K., Coulombe, R.A., De, S., Delany, M.E., Dodgson, J.B., Dong, J.J., Evans, C., Flicek, P., Florea, L., Folkerts, O., Groenen, M.A., Harkins, T.T., Herrero, J., Hoffmann, S., Megens, H., Jiang, A., Jong, P., Kaiser, P., Kim, H., Kim, K., Kim, S., Langenberger, D., Lee, M., Lee, T., Mane, S., Marcais, G., Marz, M., Mcelroy, A.P., Modise, T., Nefedov, M., Notredame, C., Paton, I.R., Payne, W.S., Pertea, G., Prickett, D., Puiu, D., Qioa, D., Raineri, E., Salzberg, S.L., Schatz, M.C., Scheuring, C., Schmidt, C.J., Schroeder, S.G., Smith, E.J., Smith, J., Sonstegard, T.S., Stadler, P.F., Tafer, H., Tu, Z., Van Tassell, C.P., Vilella, A.J., Williams, K., Yorke, J.A., Zhang, L., Zhang, H., Zhang, Z., Zhang, Y. 2010. Multi-platform next-generation sequencing of the domestic turkey (Meleagris gallopavo) genome assembly and analysis. PLoS Biology. 8(9):e1000475.

High Resolution QTL Maps Of 31 Traits in Contemporary U.S. Holstein Cows - (Abstract Only)

Cole, J.B., Wiggans, G.R., Ma, L., Sonstegard, T.S., Crooker, B.A., Van Tassell, C.P., Yang, J., Matukumalli, L.K., Da, Y. 2010. High Resolution QTL Maps Of 31 Traits in Contemporary U.S. Holstein Cows. World Congress of Genetics Applied in Livestock Production. Proc. 9th World Congr. Genet. Appl. Livest. Prod., Leipzig, Germany, Aug. 1–6., abstr. p. 22.

High Resolution QTL Maps Of 31 Traits in Contemporary U.S. Holstein Cows - (Proceedings)

Cole, J.B., Wiggans, G.R., Ma, L., Sonstegard, T.S., Crooker, B.A., Van Tassell, C.P., Yang, J., Matukumalli, L.K., Da, Y. 2010. High Resolution QTL Maps Of 31 Traits in Contemporary U.S. Holstein Cows. World Congress of Genetics Applied in Livestock Production. Proc. 9th World Congr. Genet. Appl. Livest. Prod., Leipzig, Germany, Aug. 1–6., 4 pp.

Sequence analysis for a de novo genome assembly of Bos indicus (Nelore) cattle - (Abstract Only)

Sonstegard, T.S., Schroeder, S.G., Smith, T.P., Zimin, A., Matukumalli, L.K., Ajmone-Marsan, P., Wiedmann, R.T., Negrini, R., Yorke, J., Van Tassell, C.P., Garcia, J.F. 2010. Sequence analysis for a de novo genome assembly of Bos indicus (Nelore) cattle. Animal Genetics International Conference Proceedings.

Genome-Wide Association Analysis to Identify Loci for Milk Yield in Gyr Breed - (Abstract Only)

Silva, M., Verneque, R.S., Machado, M.A., Peixota, M.G., Guimaraes, M.M., Arbex, W.A., Guedes, E., Van Tassell, C.P., Sonstegard, T.S. 2010. Genome-Wide Association Analysis to Identify Loci for Milk Yield in Gyr Breed. Animal Genetics International Conference Proceedings.

Forty Years Of Artificial Selection In U.S. Holstein Cattle Had Genome-wide Signatures - (Proceedings)

Sonstegard, T.S., Ma, L., Van Tassell, C.P., Kim, E., Cole, J.B., Wiggans, G.R., Crooker, B.A., Mariani, B.D., Gerber, J.R., Fahrenkrug, S.C., Liu, G., Da, Y. 2010. Forty Years Of Artificial Selection In U.S. Holstein Cattle Had Genome-wide Signatures. World Congress of Genetics Applied in Livestock Production.

The use of SNP data for the monitoring of genetic diversity in cattle breeds - (Proceedings)

Flury, C., Tapio, M., Sonstegard, T.S., Drogemuller, C., Leeb, T., Hanotte, O., Simianer, H., Rieder, S. 2010. The use of SNP data for the monitoring of genetic diversity in cattle breeds. World Congress of Genetics Applied in Livestock Production.

Predicting Breed Composition Using Breed Frequencies of 50,000 Markers from the U.S. Meat Animal Research Center 2,000 Bull Project - (Proceedings)

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.

A Deletion Mutation in Bovine SLC4A2 is Associated with Osteopetrosis in Red Angus Cattle - (Peer Reviewed Journal)

Meyers, S.N., McDaneld, T.G., Swist, S.L., Marron, B.M., Steffen, D.J., O'Toole, D., O'Connell, J.R., Beever, J.E., Sonstegard, T.S., Smith, T.P. 2010. A Deletion Mutation in Bovine SLC4A2 is Associated with Osteopetrosis in Red Angus Cattle. Biomed Central (BMC) Genomics. 11:337.

Metagenomics detects functional shifts in the bovine rumen microbiota in response to propionate intake - (Book / Chapter)

Sparks, M., Huang, Y., Baldwin, R.L., Connor, E.E., Li, C., Sonstegard, T.S., Schroeder, S.G., Li, R.W. 2011. Metagenomics detects functional shifts in the bovine rumen microbiota in response to propionate intake. In: Li, R.W. editor. Metagenomics and its Applications in Agriculture. New York, NY: Nova Science Publishers. p. 165-183.

WHOLE GENOME ASSOCIATION ANALYSIS IDENTIFIES SUSCEPTIBILITY ALLELES FOR PARASITIC INFECTION IN BOS TAURUS CATTLE - (Abstract Only)

Sonstegard, T.S., Silva, M.V., Kim, E., Matukumalli, L.K., Schroeder, S.G., Gasbarre, L.C., Van Tassell, C.P. 2010. Whole genome association analysis identifies susceptibility alleles for parasitic infection in Bos taurus cattle. International Symposium on Animal Genomics for Animal Health.

Analysis of copy number variations reveals differences among cattle breeds - (Peer Reviewed Journal)

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.

Chasing your honey: Worldwide diaspora of the small hive beetle, a parasite of honey bee colonies - (Peer Reviewed Journal)

Lounsberry, Z.T., Spiewok, S., Pernal, S., Sonstegard, T.S., Hood, M.W., Pettis, J.S., Neumann, P., Evans, J.D. 2010. Chasing your honey: Worldwide diaspora of the small hive beetle, a parasite of honey bee colonies. Annals of the Entomological Society of America. 104:671-677.

High Throughput Sequence Analysis for Disease Resistance in Maize - (Abstract Only)

Gautam, D., Johnston, I., Bhowmik, T., Ankala, A., Sonstegard, T.S., Schroeder, S.G., Wilkinson, J., Perkins, A.D. 2010. High Throughput Sequence Analysis for Disease Resistance in Maize. International Conference on Bioinformatics and Computational Biology.

Effective population size of an indigenous Swiss cattle breed estimated from linkage disequilibrium - (Peer Reviewed Journal)

Flury, C., Tapio, M., Sonstegard, T.S., Drogemuller, C., Leeb, T., Simianer, H., Hanotte, O., Rieder, S. 2010. Effective population size of an indigenous Swiss cattle breed estimated from linkage disequilibrium. Journal of Animal Breeding and Genetics. 127:339-347.

A Digital Gene Expression-Based Bovine Gene Atlas Evaluating 92 Adult, Juvenile and Fetal Cattle Tissues - (Abstract Only)

Harhay, G.P., Alexander, L.J., Smith, T.P.L., Matukumalli, L.K., Schroeder, S.G., Sonstegard, T.S. 2010. A Digital Gene Expression-Based Bovine Gene Atlas Evaluating 92 Adult, Juvenile and Fetal Cattle Tissues [abstract]. In: Proceedings of the Advances in Genome Biology & Technology Conference, February 24-27, 2010, Marco Island, Florida. p. 67.

Selection and Management of DNA Markers for Use in Genomic Evaluation - (Peer Reviewed Journal)

Wiggans, G.R., Van Raden, P.M., Bacheller, L.R., Tooker, M.E., Hutchison, J.L., Cooper, T.A., Sonstegard, T.S. 2010. Selection and management of DNA markers for use in genomic evaluation. Journal of Dairy Science. 93(5):2287-2292.

Information Theoretical Analysis of a Bovine Gene Atlas Reveals Chromosomal Regions with Tissue Specific Gene Expression. - (Abstract Only)

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.

High Resolution QTL Map Of Net Merit Component Traits And Calving Traits From Genome-Wide Association Analysis In Contemporary U.S. Holstein Cows - (Abstract Only)

Cole, J.B., Sonstegard, T.S., Ma, L., Wiggans, G.R., Crooker, B.A., Van Tassell, C.P., Yang, J., Matukumalli, L., Da, Y. 2010. High Resolution QTL Map Of Net Merit Component Traits And Calving Traits From Genome-Wide Association Analysis In Contemporary U.S. Holstein Cows. Plant and Animal Genome Conference Proceedings. San Diego, Ca, Jan. 9-13, abstr. P565.

X Chromosome SNPs Were Heavily Involved In Epistasis Effects Of Net Merit Component Traits In Contemporary U.S. Holstein Cows - (Abstract Only)

Ma, L., Sonstegard, T.S., Cole, J.B., Wiggans, G.R., Crooker, B.A., Van Tassell, C.P., Yang, J., Matukumalli, L., Da, Y. 2010. X Chromosome SNPs Were Heavily Involved In Epistasis Effects Of Net Merit Component Traits In Contemporary U.S. Holstein Cows . Plant and Animal Genome Conference Proceedings. San Diego, Ca, Jan. 9-13, abstr. P542.

High Resolution QTL Map Of Body Conformation Traits From Genome-Wide Association Analysis In Contemporary U.S. Holstein Cows - (Abstract Only)

Wiggans, G.R., Ma, L., Sonstegard, T.S., Cole, J.B., Crooker, B.A., Van Tassell, C.P., Yang, J., Matukumalli, L.K., Da, Y. 2010. High Resolution QTL Map Of Body Conformation Traits From Genome-Wide Association Analysis In Contemporary U.S. Holstein Cows. Plant and Animal Genome Conference Proceedings. San Diego, Ca, Jan. 9-13, abstr. P547.

Estimation of Genomic Inbreeding Coefficients Using BovineSNP50 genotypes from U.S. Jersey Cattle - (Abstract Only)

Kim, E., Van Tassell, C.P., Sonstegard, T.S. 2010. Estimation of Genomic Inbreeding Coefficients Using BovineSNP50 genotypes from U.S. Jersey Cattle. Plant and Animal Genome Conference Proceedings.

Genome-Wide Association Study of Growth in Crossbred Beef Cattle - (Peer Reviewed Journal)

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.

CHARACTERIZATION OF DGAT1 ALLELIC EFFECTS IN A SAMPLE OF NORTH AMERICAN HOLSTEIN CATTLE. - (Peer Reviewed Journal)

Barbosa Da Silva, M.V., Sonstegard, T.S., Thallman, R.M., Connor, E.E., Schnabel, R.D., Van Tassell, C.P. 2010. CHARACTERIZATION OF DGAT1 ALLELIC EFFECTS IN A SAMPLE OF NORTH AMERICAN HOLSTEIN CATTLE. Animal Biotechnology. 21(2):88-99.

Resolving the Evolution of Extant and Extinct Ruminants With High-Throughput Phylogenomics - (Peer Reviewed Journal)

Decker, J.E., Pires, J.C., Conant, G.C., McKay, S.D., Heaton, M.P., Chen, K., Cooper, A., Vilkki, J., Seabury, C.M., Caetano, A.R., Johnson, G.S., Brenneman, R.A., Hanotte, O., Eggert, L.S., Wiener, P., Kim, J.J., Kim, K.S., Sonstegard, T.S., Van Tassell, C.P., Neibergs, H.L., McEwan, J.C., Brauning, R., Coutinho, L.L., Babar, M.E., Wilson, G.A., McClure, M.C., Rolf, M.M., Kim, J., Schnabel, R.D., Taylor, J.F. 2009. Resolving the Evolution of Extant and Extinct Ruminants With High-Throughput Phylogenomics. Proceedings of the National Academy of Sciences. 106(44):18644-18649.

A validated genome wide association study to breed cattle adapted to an environment altered by climate change - (Peer Reviewed Journal)

Hayes, B.J., Bowman, A.J., Chamberlain, A.J., Savin, K., Van Tassell, C.P., Sonstegard, T.S., Goddard, M.E. 2009. A validated genome wide association study to breed cattle adapted to an environment altered by climate change. PLoS One. Aug 18:4(8)e:6676.

GENOME SIGNATURES OF ARTIFICIAL SELECTION IN HOLSTEIN CATTLE - (Abstract Only)

Sonstegard, T.S., Ma, L., Cole, J.B., Van Tassell, C.P., Wiggans, G.R., Crooker, B.A., Garbe, J.R., Fahrenkrug, S.C., Mariani, B.D., Liu, G., Da, Y. 2009. GENOME SIGNATURES OF ARTIFICIAL SELECTION IN HOLSTEIN CATTLE. Cold Spring Harbor Meeting.

HIGH-THROUGHPUT PHYLOGENOMICS: FROM ANCIENT DNA TO SIGNATURES OF HUMAN ANIMAL HUSBANDRY - (Abstract Only)

Decker, J.E., Pires, J.C., Conant, G.C., Mckay, S.D., Heaton, M.P., Vilkki, J., Seabury, C.M., Caetano, A.R., Johnson, G.S., Brenneman, R.A., Hanotte, O., Eggert, L.S., Wiener, P., Kim, J., Kim, K.S., Sonstegard, T.S., Van Tassell, C.P., Neibergs, H.L., Chen, K., Cooper, A., Mcewan, J.C., Brauning, R., Coutinho, L.L., Babar, M.E., Wilson, G.A., Mcclure, M.C., Rolf, M.M., Kim, J., Schnabel, R.D., Taylor, J.F. 2009. HIGH-THROUGHPUT PHYLOGENOMICS: FROM ANCIENT DNA TO SIGNATURES OF HUMAN ANIMAL HUSBANDRY. Cold Spring Harbor Meeting.

A whole-genome assembly of the domestic cow, Bos taurus - (Peer Reviewed Journal)

Zimin, A.V., Delcher, A.L., Florea, L., Kelley, D.R., Schatz, M.C., Puiu, D., Hanrahan, F., Pertea, G., Van Tassell, C.P., Sonstegard, T.S., Marcais, G., Roberts, M., Subramanian, P., Yorke, J.A., Salzberg, S.L. 2009. A whole-genome assembly of the domestic cow, Bos taurus. Genome Biology. 10(4):R42.

Análise de Associação por Todo o Genoma para Identificar Locos Relacionados ao Lucro Líquido, à Vida Produtiva e ao Escore de Células Somáticas na raça Jersey1 - (Peer Reviewed Journal)

Silva, M., Van Raden, P.M., Van Tassell, C.P., Sonstegard, T.S., Matukumalli, L.K., Schroeder, S.G., Kim, E., Wiggans, G.R. 2009. Análise de Associação por Todo o Genoma para Identificar Locos Relacionados ao Lucro Líquido, à Vida Produtiva e ao Escore de Células Somáticas na raça Jersey1. Brazilian Animal Science Society.

WHOLE GENOME-WIDE SNP ASSOCIATION: IDENTIFICATION OF SUSCEPTIBILITY ALLELES FOR PARASITIC INFECTION - (Abstract Only)

Silva, M.V., Van Tassell, C.P., Sonstegard, T.S., Matukumalli, L.K., Schroeder, S.G., Kim, E., Gasbarre, L.C. 2009. WHOLE GENOME-WIDE SNP ASSOCIATION: IDENTIFICATION OF SUSCEPTIBILITY ALLELES FOR PARASITIC INFECTION. BARC Poster Day.

Development and Characterization of a High Density SNP Genotyping Assay for Cattle - (Peer Reviewed Journal)

Matukumalli, L.K., Lawley, C.T., Schnabel, R.D., Taylor, J.F., Allan, M.F., Heaton, M.P., O'Connell, J., Moore, S.S., Smith, T.P., Sonstegard, T.S., Van Tassell, C.P. 2009. Development and Characterization of a High Density SNP Genotyping Assay for Cattle. PLoS One. 4(4):e5350. Available: http://dx.doi.org/10.1371/journal.pone.0005350.

The Genome Sequence of Taurine Cattle: A Window to Ruminant Biology and Evolution - (Peer Reviewed Journal)

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.

Transition of genomic evaluation from a research project to a production system - (Abstract Only)

Wiggans, G.R., Van Raden, P.M., Bacheller, L.R., Ross Jr, F.A., Sonstegard, T.S., Ge Meerman, G., Van Tassell, C.P. 2009. Transition of genomic evaluation from a research project to a production system. Journal of Dairy Science. 92(E-Suppl. 1):313-314(abstr. 278).

Accelerating genetic improvement with SNP chips and DNA sequencing - (Abstract Only)

Van Tassell, C.P., Van Raden, P.M., Wiggans, G.R., Matukumalli, L.K., Schroeder, S.G., O'Connell, J., Schnabel, R.D., Taylor, J.F., Pollak, E.J., Munson, M., Bailey, D., Sonstegard, T.S. 2009. Accelerating genetic improvement with SNP chips and DNA sequencing. Joint Abstracts of the American Dairy Science and Society of Animal Science.

Selection of single-nucleotide polymorphisms and quality of genotypes used in genomic evaluation of dairy cattle in the United States and Canada - (Peer Reviewed Journal)

Wiggans, G.R., Sonstegard, T.S., Van Raden, P.M., Matukumalli, L.K., Schnabel, R.D., Taylor, J.F., Schenkel, F.S., Van Tassell, C.P. 2009. Selection of single-nucleotide polymorphisms and quality of genotypes used in genomic evaluation of dairy cattle in the United States and Canada. Journal of Dairy Science. 92(7):3431-3436.

Genome-Wide Survey of SNP Variation Uncovers the Genetic Structure of Cattle Breeds. - (Peer Reviewed Journal)

Gibbs, R., Van Tassell, C.P., Weinstock, G.M., Green, R.D., Hamernik, D.L., Kappes, S.M., Liu, G., Matukumalli, L.K., Matukumalli, A., Sonstegard, T.S., Silva, M.V. 2009. Genome-Wide Survey of SNP Variation Uncovers the Genetic Structure of Cattle Breeds. Science. 24:528-532.

MicroRNA Transcriptome Profiles During Swine Skeletal Muscle Development - (Peer Reviewed Journal)

McDaneld, T.G., Smith, T.P., Doumit, M.E., Miles, J.R., Coutinho, L.L., Sonstegard, T.S., Matukumalli, L.K., Nonneman, D.J., Wiedmann, R.T. 2009. MicroRNA Transcriptome Profiles During Swine Skeletal Muscle Development. Biomed Central (BMC) Genomics. 10:77.

Genome Signature of Artificial Selection for High Milk Yield in Holstein Cattle - (Abstract Only)

Sonstegard, T.S., Ma, L., Cole, J.B., Wiggans, G.R., Crooker, B.A., Van Tassell, C.P., Mariani, B.D., Da, Y. 2009. Genome Signature of Artificial Selection for High Milk Yield in Holstein Cattle. Plant and Animal Genome Conference Proceedings.

GENOME-WIDE ASSOCIATION ANALYSIS IDENTIFIES LOCI FOR PRODUCTIVE TRAITS IN JERSEY BREED - (Abstract Only)

Silva, M.V., Van Raden, P.M., Van Tassell, C.P., Sonstegard, T.S., Matukumalli, L.K., Schroeder, S.G., Wiggans, G.R. 2009. GENOME-WIDE ASSOCIATION ANALYSIS IDENTIFIES LOCI FOR PRODUCTIVE TRAITS IN JERSEY BREED. Plant and Animal Genome Conference.

Profiling miRNA Expression in Bovine Tissues by Deep Sequencing - (Abstract Only)

Matukumalli, L.K., Alexander, L.J., Mcdaneld, T.G., Smith, T.P., Schroeder, S.G., Sonstegard, T.S., Van Tassell, C.P. 2009. Profiling miRNA Expression in Bovine Tissues by Deep Sequencing. Plant and Animal Genome Conference.

Distribution and Location of Genetic Effects for Dairy Traits - (Peer Reviewed Journal)

Cole, J.B., Van Raden, P.M., O'Connell, J.R., Van Tassell, C.P., Sonstegard, T.S., Schnabel, R.D., Taylor, J.F., Wiggans, G.R. 2009. Distribution and Location of Genetic Effects for Dairy Traits. Journal of Dairy Science. 92(6):2931-2946.

Benefits from Cooperation in Genomics - (Proceedings)

Van Raden, P.M., Wiggans, G.R., Van Tassell, C.P., Sonstegard, T.S., Schenkel, F. 2009. Benefits from Cooperation in Genomics. Interbull Annual Meeting Proceedings. Uppsala, Sweden, Jan. 28–29, 6 pp.

On the search for markers of tick resistance in bovines - (Peer Reviewed Journal)

Regitano, L.C., Ibelli, A.M., Gasparin, G., Miyata, M., Azevedo, A.L., Coutinho, L.L., Teodoro, R.L., Machado, M.A., Silva, M.V., Nakata, L.C., Zaros, L.G., Sonstegard, T.S., Silva, A.M., Alencar, M.M., Oliveira, M.C. 2008. On the search for markers of tick resistance in bovines. Developments in Biologicals. 132:225-230.

CURRENT DIRECTIONS IN CATTLE GENOMICS RESEARCH - (Review Article)

Van Tassell, C.P., Sonstegard, T.S., Liu, G., Matukumalli, L.K. 2007. Current directions in cattle genomics research. Advancement of Animal Breeding & Genetics Meeting. pp. 461-470.

Studies on cattle genomic structural variation provide insights into ruminant speciation and adaptation - (Abstract Only)

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.

Quality assessment parameters for EST-derived SNPs from catfish - (Peer Reviewed Journal)

Wang, S., Sha, Z., Sonstegard, T.S., Liu, H., Xu, P., Somridhavej, B., Peatmen, E., Kucuktas, H., Liu, Z. 2008. Quality assessment parameters for EST-derived SNPs from catfish. Biomed Central (BMC) Genomics. 30(9):450.

Invited Review: Reliability of Genomic Predictions for North American Holstein Bulls - (Peer Reviewed Journal)

Van Raden, P.M., Van Tassell, C.P., Wiggans, G.R., Sonstegard, T.S., Schnabel, R.D., Taylor, J.F., Schenkel, F.S. 2009. Invited Review: Reliability of Genomic Predictions for North American Holstein Bulls. Journal of Dairy Science. 92(1):16-24.

Predicion of total genetic value using a 50K SNP chip in Holstein breed - (Abstract Only)

Silva, M.V., Van Tassell, C.P., Sonstegard, T.S., Matukumalli, L., Van Raden, P.M., Wiggans, G.R. 2008. Predicion of total genetic value using a 50K SNP chip in Holstein breed. Brazilian Animal Science Society.

Prevalence of the prion gene E211K variant in U.S. cattle - (Peer Reviewed Journal)

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).

Prediction of total genetic value using genome-wide dense marker in Holstein breed by Bayesian method - (Abstract Only)

Silva, M.V., Van Tassell, C.P., Sonstegard, T.S., Matkumalli, L., Schroeder, S.G., Van Raden, P.M., Wiggans, G.R. 2008. Prediction of total genetic value using genome-wide dense marker in Holstein breed by Bayesian method. Congress of the Brazilian Animal Breeding Society.

Effects of increased milking frequency on gene expression in the bovine mammary gland - (Peer Reviewed Journal)

Connor, E.E., Siferd, S., Elsasser, T.H., Clover, C.M., Van Tassell, C.P., Sonstegard, T.S., Fernandes, V., Capuco, A.V. 2008. Effects of increased milking frequency on gene expression in the bovine mammary gland. Biomed Central (BMC) Genomics. 9:362.

Genomic signatures of artificial selection in U.S. Holstein cows - (Abstract Only) - (20-Jun-08)

A WHOLE-GENOME ASSOCIATION STUDY OF MAJOR DETERMINANTS FOR PARASITIC INFECTION IN ANGUS BREED - (Abstract Only)

Da Silva, M., Sonstegard, T.S., Van Tassell, C.P., Matukumalli, L.K., Schroeder, S.G., Gasbarre, L.C. 2008. A WHOLE-GENOME ASSOCIATION STUDY OF MAJOR DETERMINANTS FOR PARASITIC INFECTION IN ANGUS BREED. Animal Genetics International Conference Proceedings.

Genomic Data and Cooperation Result in Faster Progress - (Proceedings)

Van Raden, P.M., Van Tassell, C.P., Wiggans, G.R., Sonstegard, T.S., Schnabel, R.D., Taylor, J.F., Schenkel, F. 2009. Genomic Data and Cooperation Result in Faster Progress. International Committee on Animal Recording (ICAR). ICAR Tech Ser. 13:341–346. 2009.

Distribution and Location of Genetic Effects for Dairy Traits - (Proceedings)

Cole, J.B., Van Raden, P.M., O'Connell, J.R., Van Tassell, C.P., Sonstegard, T.S., Schnabel, R.D., Wiggans, G.R. 2009. Distribution and Location of Genetic Effects for Dairy Traits. International Committee on Animal Recording (ICAR). ICAR Tech Ser. 13:355–360. 2009.

Genomic Evaluations in the United States and Canada: A Collaboration - (Proceedings)

Wiggans, G.R., Sonstegard, T.S., Van Raden, P.M., Matukumalli, L.K., Schnabel, R.D., Taylor, J.F., Chesnais, J.P., Schenkel, F.S., Van Tassell, C.P. 2009. Genomic Evaluations in the United States and Canada: A Collaboration. International Committee on Animal Recording (ICAR). ICAR Tech Ser. 13:347–353. 2009.

Estimates of (co) variance components using random regression models for gastrointestinal helminthoid data in Angus cattle. - (Peer Reviewed Journal)

Silva, M.V., Van Tassell, C.P., Sonstegard, T.S., Cobuci, J.A., Gasbarre, L.C. 2008. Estimates of (co) variance components using random regression models for gastrointestinal helminthoid data in Angus cattle. Brazilian Animal Science Society. CD-ROM MEL036. p. 105.

Characterization of a novel microdeletion polymorphism on BTA5 in cattle - (Peer Reviewed Journal)

Liu, G., Li, R.W., Sonstegard, T.S., Matukumalli, L.K., Silva, M.V., Van Tassell, C.P. 2008. Characterization of a novel microdeletion polymorphism on BTA5 in cattle. Animal Genetics. 39(6):655-658.

MAPPING QUANTITATIVE TRAIT LOCI ASSOCIATED WITH PARASITIC INFECTION USING 50K SNP CHIP IN ANGUS BREED - (Abstract Only)

Silva, M.V., Van Tassell, C.P., Sonstegard, T.S., Matukumalli, L.K., Schroeder, S.G., Gasbarre, L.C. 2008. MAPPING QUANTITATIVE TRAIT LOCI ASSOCIATED WITH PARASITIC INFECTION USING 50K SNP CHIP IN ANGUS BREED. BARC Poster Day.

ANALYSIS OF CATTLE COPY NUMBER VARIATION REVEALS INSIGHTS INTO THE EVOLUTION OF RUMINANTS - (Abstract Only)

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.

Applied Bovine Genomics: Chipping away at the genetics underlying disease traits. - (Abstract Only)

Sonstegard, T.S., Vanraden, P., Wiggans, G., Schnabel, S., Liu, G., Matukumalli, L.K., Silva, M.V., Mckay, S., Schroeder, S.G., Gasbarre, L.C., Taylor, J.F., Van Tassell, C.P. 2008. Applied Bovine Genomics: Chipping away at the genetics underlying disease traits.. International Symposium of Animal Functional Genomics.

Development and Applications of a Bovine 50,000 SNP Chip - (Abstract Only)

Taylor, J.F., Sonstegard, T.S., Van Tassell, C.P., Matukumalli, L., Smith, T.P., Allen, M.L. 2008. Development and Applications of a Bovine 50,000 SNP Chip. International Symposium of Animal Functional Genomics.

Association analysis of bovine bactericidal/permeability-increasing protein gene polymorphisms with somatic cell score in Holstein cattle - (Peer Reviewed Journal)

Connor, E.E., Matukumalli, L.K., Chockalingham, A., Bannerman, D.D., Sonstegard, T.S., Thomas, E.D., Van Tassell, C.P. 2008. Association analysis of bovine bactericidal/permeability-increasing protein gene polymorphisms with somatic cell score in Holstein cattle. Journal of Dairy Science. 39:456-457.

Reliability of genomic predictions for North American dairy bulls - (Abstract Only)

Van Raden, P.M., Van Tassell, C.P., Wiggans, G.R., Sonstegard, T.S., Schnabel, R.D., Schenkel, F. 2008. Reliability of genomic predictions for North American dairy bulls. Journal of Dairy Science. 91(E-Suppl. 1):305(abstr. 261).

Selection of single nucleotide polymorphisms and genotype quality for genomic prediction of genetic merit in dairy cattle - (Abstract Only)

Wiggans, G.R., Sonstegard, T.S., Van Raden, P.M., Matukumalli, L.K., Schnabel, R.D., Taylor, J.F., Schenkel, F.S., Van Tassell, C.P. 2008. Selection of single nucleotide polymorphisms and genotype quality for genomic prediction of genetic merit in dairy cattle. Journal of Dairy Science. 91(E-Suppl. 1):507(abstr. 524).

A high-resolution radiation hybrid map of the bovine genome - (Peer Reviewed Journal)

Grant, J.R., Stothard, P., Wang, Z., Cai, Z., Xu, J., Lin, G., Prasad, A., Moon, D., Sonstegard, T.S., Van Tassell, C.P. 2008. A high-resolution radiation hybrid map of the bovine genome. Plant and Animal Genome Conference Proceedings.

Application of the BovineSNP50 assay for QTL mapping and prediction of genetic merit in Holstein cattle - (Abstract Only)

Schnabel, R.D., Van Tassell, C.P., Matukumalli, L., Sonstegard, T.S., Smith, T.P., Moore, S.S., Lawley, C.T., Taylor, J.F. 2008. Application of the BovineSNP50 assay for QTL mapping and prediction of genetic merit in Holstein cattle. Plant and Animal Genome Conference Proceedings.

SNPs to Chips: Changing the paradigm of mapping and selection in cattle - (Proceedings)

Sonstegard, T.S., Liu, G., Matukumalli, L.K., Van Tassell, C.P. 2007. Snps to chips: changing the paradigm of mapping and selection in cattle. [abstracat].Animal Breeding and Animal Genetic Resources Proceedings.

Analysis of copy number variation in the bovine genome - (Abstract Only)

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.

A high-resolution map of copy number variation in the cattle genome - (Abstract Only)

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.

QUANTITATIVE TRAIT LOCI ASSOCIATED WITH PARASITIC INFECTION IN ANGUS BREED - (Abstract Only)

Silva, M.V., Van Tassell, C.P., Sonstegard, T.S., Gasbarre, L.C. 2008. Quantitative trait loci associated with parasitic infection in angus breed . Plant and Animal Genome Conference Proceedings.

Characterization of the Cattle HapMap Population using the Illumina Bovine-50K SNP Chip - (Abstract Only)

Matukumalli, L.K., Schnabel, R.D., Lawley, C.T., Sonstegard, T.S., Smith, T.P., Moore, S.S., Taylor, J.F., Van Tassell, C.P. 2008. Characterization of the Cattle HapMap Population using the Illumina Bovine-50K SNP Chip. Plant and Animal Genome Conference.

SNP discovery and allele frequency estimation by deep sequencing of reduced representation libraries - (Peer Reviewed Journal)

Van Tassell, C.P., Smith, T.P., Matukumalli, L.K., Taylor, J.F., Schnabel, R.D., Lawley, C.T., Haudenschild, C., Moore, S.S., Warren, W.C., Sonstegard, T.S. 2008. SNP discovery and allele frequency estimation by deep sequencing of reduced representation libraries. Nature Methods. 5:247-252.

Detection of germline and somatic copy number variations in cattle - (Proceedings)

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.

Gene expression in bovine mammary gland in response to increased milking frequency as determined by microarray and SAGE - (Other)

Connor, E.E., Capuco, A.V., Siferd, S., Van Tassell, C.P., Sonstegard, T.S., Fernandes, V. 2008. Gene expression in bovine mammary gland in response to increased milking frequency as determined by microarray and SAGE. NIH Gene Expression Omnibus (GEO) Database. Accession number GSE9344.

Effects of species combination on comparative analyses of conserved regulatory elements - (Abstract Only)

Liu, G., Yang, J., Matukumalli, L.K., Sonstegard, T.S., Van Tassell, C.P., Hanson, R.W. 2008. Effects of species combination on comparative analyses of conserved regulatory elements. [abstract]. Pacific Symposium on Biocomputing. p.100.

Prevalence of the prion gene E211K variant in U.S. cattle - (Abstract Only)

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.

Generation of large numbers of SNP in cattle by coupling reduced genome representation with high throughput sequencing - (Abstract Only)

Smith, T.P., Matukumalli, L., Sonstegard, T.S., Schnabel, R., Taylor, J., Haudenschild, C., Lawley, C., Moore, S., Van Tassell, C.P. 2008. Generation of large numbers of SNP in cattle by coupling reduced genome representation with high throughput sequencing (abstract). Plant and Animal Genome XVI Conference Proceedings. Poster No. P90.

Description and analysis of the Bovine Gene Atlas - An extensive compendium of bovine transcript profiles - (Abstract Only)

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 - (Abstract Only)

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.

COMPARATIVE TRANSCRIPTOME ANALYSIS OF IN VIVO AND IN VITRO PORCINE BLASTOCYSTS BY SMALL AMPLIFIED RNA SERIAL ANALYSIS OF GENE EXPRESSION (SAR-SAGE) - (Peer Reviewed Journal)

Miles, J.R., Blomberg, L.A., Krisher, R.L., Everts, R.E., Sonstegard, T.S., Van Tassell, C.P., Zuelke, K.A. 2008. Comparative transcriptome analysis of in vivo- and in vitro- produced porcine blastocysts by small amplified RNA-serial analysis of gene expression (SAR-SAGE). Molecular Reproduction and Development. 75:976-88.

A physical map of the bovine genome - (Peer Reviewed Journal)

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 - (Abstract Only)

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.

Identification of conserved regulatory elements in upstream promoter regions of mammals at relaxed thresholds by comparative genomics - a case study using PEPCK - (Peer Reviewed Journal)

Liu, G., Weirauch, M., Van Tassell, C.P., Li, R.W., Sonstegard, T.S., Matukumalli, L.K., Connor, E.E., Hanson, R.W., Yang, J. 2008. Identification of conserved regulatory elements in mammalian promoter regions: a case study using the PCK1 promoter. Genomics, Proteomics and Bioinformatics. 6(3-4):129-143.

Mapping of quantitative trait loci controlling tick [Riphicephalus (Boophilus) microplus] resistance on bovine cjrp,psp,es 5, 7 and 14 - (Peer Reviewed Journal)

Gasparin, G., Miyata, L.L., Coutinho, L.L., Martinez, M.L., Teodoro, R.L., Furlong, J., Machado, M.A., Silva, M.V., Campos, A.L., Sonstegard, T.S., Regitano, L.C. 2007. Mapping of quantitative trait loci controlling parasite resistance in a F2 experimental bovine population. Animal Genetics. 38(5):453-459.

Construction and application of a bovine high-density SNP assay - (Abstract Only)

Van Tassell, C.P., Matukumalli, L.K., Taylor, C., Smith, T.P., Sonstegard, T.S., Schnabel, R., Silva, M.V., Wiggans, G.R., Liu, G., Moore, S., Taylor, J.F. 2007. Construction and application of a bovine high-density SNP assay. Joint Abstracts of the American Dairy Science and Society of Animal Science.

The role of microRNAs in muscle development - (Abstract Only)

Smith, T.P.L., McDaneld, T.G., Doumit, M.E., Matukumalli, L.K., Sonstegard, T.S., Coutinho, L.L., Wiedmann, R.T. The role of microRNAs in muscle development. Journal of Animal Science (Suppl. 1):637. 2007

USING DIFFERENT TRANSFORMATIONS IN ANALYSES OF FECAL EGG COUNT DATA - (Abstract Only)

Silva, M.V., Van Tassell, C.P., Sonstegard, T.S., Gasbarre, L.C. 2007. Using different transformations in analyses of fecal egg count data. BARC Poster Day.

RECENT SEGMENTAL DUPLICATIONS IN THE CATTLE GENOME - (Abstract Only)

Liu, G., Matukumalli, L.K., Van Tassell, C.P., Sonstegard, T.S., Gasbarre, L.C., Eichler, E.E. 2007. Recent segmental duplications in the cattle genome. [abstract]. BARC Poster Day.Abstracat #25, p. 32.

Ontogenic expression of microRNA in bovine mammary gland - (Abstract Only)

Capuco, A.V., Coutinho, L.L., Clover, C.M., Minuti, A., Sonstegard, T.S., Boisclair, Y.R., Van Amburgh, M.E., Bertoni, G., Matukumalli, L.K. 2007. Ontogenic expression of microRNA in bovine mammary gland. Joint Abstracts of the American Dairy Science and Society of Animal Science.

Creation of a Gene Atlas in cattle using sequence-based transcriptional profiling - (Abstract Only)

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.

Genetic resistance to nematodes parasites in sheep: use of Box-Cox transformation in QTL mapping - (Abstract Only)

Silva, M.V., Van Tassell, C.P., Sonstegard, T.S., Malek, M., Boettcher, P., Mugambi, J., Nagda, S., Kemp, S., Hanotte, O. 2007. Genetic resistance to nematodes parasites in sheep: use of Box-Cox transformation in QTL mapping. [abstract]. Joint Abstracts of the American Dairy Science and Society of Animal Science.

Identification of Weakly Conserved Regulatory Elements in Upstream Promoter Regions of Mammals - (Book / Chapter)

Liu, G., Weirauch, M., Van Tassell, C.P., Li, R.W., Sonstegard, T.S., Matukumalli, L.K., Connor, E.E., Hanson, R.W., Yang, J. 2007. Identification of Weakly Conserved Regulatory Elements in Upstream Promoter Regions of Mammals. Conference on the Biology og Genomes, pp. 218.

Applied bovine genomics: New opportunities for managing disease and intensifying production - (Proceedings)

Sonstegard, T.S., Matukumalli, L.K., Gasbarre, L.C., Silva, M.V., Van Tassell, C.P. 2007. Applied bovine genomics: New opportunities for managing disease and intensifying production. [abstract]. Meeting Proceedings.

Stimultaneous prediction of multiple traits using dense genome-wide SNP markers - (Proceedings)

Matukumalli, L.K., Sonstegard, T.S., Silva, M.V., Liu, G., Van Tassell, C.P. 2007. Stimultaneous prediction of multiple traits using dense genome-wide SNP markers. Meeting Proceedings.

Local Inflammation as a Possible Mechanism of Resistance to Gastrointestinal Nematodes in Angus Heifers - (Peer Reviewed Journal)

Li, R.W., Sonstegard, T.S., Van Tassell, C.P., Gasbarre, L.C. 2007. Local Inflammation as a Possible Mechanism of Resistance to Gastrointestinal Nematodes in Angus Heifers. Veterinary Parasitology. 145:100-107.

DISCOVERY AND PROFILING OF BOVINE MICRORNAS FROM IMMUNE RELATED AND EMBRYONIC TISSUES - (Peer Reviewed Journal)

Coutinho, L.L., Matukumalli, L.K., Sonstegard, T.S., Van Tassell, C.P., Gasbarre, L.C., Capuco, A.V., Smith, T.P. 2007. Discovery and profiling of bovine micrornas from immune related and embryonic tissues. Physiological Genomics. 29(1):35-43.

A second generation radiation hybrid map to aid the assembly of the bovine genome sequence - (Peer Reviewed Journal)

Jann, O.C., Aerts, J., Jones, M., Hastings, N., Law, A., Mckay, S., Marques, E., Prasad, A., Yu, J., Moore, S.S., Florita, S., Mahe, M., Eggen, A., Silveri, L., Negrini, R., Milanesi, E., Ajmone-Marsan, P., Vakebtubu, A., Marchitelli, C., Janitz, M., Herwig, R., Hennig, S., Savarese, M., Gorni, C., Connor, E.E., Sonstegard, T.S., Smith, T.P., Drogemuller, C., Williams, J. 2006. A second generation radiation hybrid map to aid the assembly of the bovine genome sequence. BMC Genomics. 7:283-298.

QTL MAPPING FOR BIRTH WEIGHT ON BOVINE CHROMOSOME 14 - (Peer Reviewed Journal)

Miyata, M., Gasparin, G., Coutinho, L.L., Martinez, M.L., Machado, M.A., Da Silva, M.V., Campos, A.L., Sonstegard, T.S., Do Rosario, M.F., Regitano, L.C. 2007. Quantitative trait loci (QTL) mapping for birth weight on bovine chromosome 14. Genetics and Molecular Biology, Vol 30, No.2, pp 364-369.

A marker set for parentage-based DNA traceback in beef and dairy cattle - (Abstract Only)

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.

USE OF BOX-COX TRANSFORMATION IN ANALYSIS OF FECAL EGG COUNT DATA - (Peer Reviewed Journal)

Sonstegard, T.S., Marcos, D., Gasbarre, L.C., Van Tassell, C.P. 2006. Use of box-cox transformation in analysis of fecal egg count data. World Congress of Genetics Applied in Livestock Production. 8(15-35):1-4.

ESTIMATES OF GENETIC PARAMETERS USING RANDOM REGRESSION MODELS FOR GASTROINTESTINAL HELMINTHOID DATA IN ANGUS CATTLE - (Peer Reviewed Journal)

Silva, M.V., Van Tassell, C.P., Sonstegard, T.S., Cobuci, J.A., Gasbarre, L.C. 2006. Estimates of genetic parameters using random regression models for gastrointestinal helminthoid data in angus cattle. World Congress of Genetics Applied in Livestock Production. 8:15-34.

ESTIMATES OF GENETIC PARAMETERS USING RANDOM REGRESSION MODELS FOR GASTROINTESTINAL HELMINTHOID DATA IN CATTLE - (Proceedings)

Silva, M.V., Van Tassell, C.P., Sonstegard, T.S., Cobuci, J.A., Gasbarre, L.C. 2006. Estimates of genetic parameters using random regression models for gastrointestinal helminthoid data in cattle. Brazilian Animal Science Society. CD-Rom - MEL036. pp. 105.

Detection of a QTL associated with tick resistance on bovine chromosome 7 (BTA7) using a F2 experimental population - (Proceedings)

Gasparin, G., Miyata, M., Coutinho, L.L., Martinez, M.L., Machado, M.A., Silva, M., Campos, A.L., Sonstegard, T.S., Regitano, L. 2006. Detection of a QTL associated with tick resistance on bovine chromosome 7 (BTA7) using a F2 experimental population. Proceedings of 8th World Congress of Genetics Applied in Livestock Production 8(21-15):1-4.

A QTL for resistance to Boophilus microplus maps to bovine chromosome 14 - (Proceedings)

Regitano, L., Miyata, M., Gasparin, G., Coutinho, L.L., Martinez, M.L., Machado, M.A., Silva, M., Campos, A.L., Sonstegard, T.S. 2006. A QTL for resistance to Boophilus microplus maps to bovine chromosome 14. Proceedings of 8th World Congress of Genetics Applied in Livestock Production 8(15-32):1-4.

SYSTEMATIC IDENTIFICATION OF REGULATORY ELEMENTS IN CATTLE. - (Abstract Only)

Liu, G., Yang, J., Matukumalli, L.K., Sonstegard, T.S., Van Tassell, C.P., Hanson, R.W. 2006. Systematic identification of regulatory elements in cattle [abstract]. International Conference on Animal Genetics. Aug 2006, Porto Seguro, Brazil, pp C448.

IDENTIFICATION OF ESTROGEN-RESPONSIVE GENES IN THE PARENCHYMA AND FAT PAD OF THE BOVINE MAMMARY GLAND BY MICROARRAY ANALYSIS - (Peer Reviewed Journal)

Li, R.W., Meyer, M.J., Van Tassell, C.P., Sonstegard, T.S., Connor, E.E., Van Amburgh, M.E., Boisclair, Y.R., Capuco, A.V. 2006. Identification of estrogen responsive genes in the parenchyma and fat pad of the bovine mammary gland by microarray analysis. Physiological Genomics 27(1):42-53.

GENOMIC DIVERGENCES AMONG CATTLE, DOG, AND HUMAN ESTIMATED FROM LARGE-SCALE ALIGNMENTS OF GENOMIC SEQUENCES - (Peer Reviewed Journal)

Liu, G., Van Tassell, C.P., Sonstegard, T.S., Matukumalli, L.K., Shade, L.L. 2006. Genomic divergences among cattle, dog, and human estimated from large-scale alignments of genomic sequences. Biomed Central (BMC) Genomics. 7(1):140.

Resistance to Gastrointestinal nematodse of cattle: Identification of genomic regions affecting resistance and potential mechanisms - (Abstract Only)

Gasbarre, L.C., Sonstegard, T.S., Li, R.W., Araujo, R., Van Tassell, C.P. 2006. Resistance to Gastrointestinal nematodse of cattle: Identification of genomic regions affecting resistance and potential mechanisms [abstract]. American Association of Veterinary Parasitologists Proceedings.

DIFFERENTIAL TURN-OVER PATTERNS OF TRANSPOSABLE ELEMENTS ACCOUNT FOR THE GENOME SIZE DIFFERENCES AMONG CATTLE, DOG AND HUMAN. - (Abstract Only)

Liu, G., Matukumalli, L.K., Sonstegard, T.S., Van Tassell, C.P. 2006. Differential turn-over patterns of transposable elements account for the genome size differences among cattle, dog and human. (abstract) Conference on the Biology off Genomes, pp 187.

A MAMMARY GLAND BIOLOGIST'S PERSEPECTIVE ON FUNCTIONAL GENOMICS - (Proceedings)

Capuco, A.V., Meyer, M.J., Li, R.W., Connor, E.E., Van Tassell, C.P., Boisclair, Y.R., Van Amburgh, M.E., Sonstegard, T.S., Urban Jr, J.F. 2006. A mammary gland biologist's persepective on functional genomics. World Congress on Genetics Applied to Livestock Production. Belo Horizonte, Brazil, August 13-18, pp 01-6.

EXPRESSION PROFILES OF MICRO-RNAS IN SWINE MUSCLE DEVELOPMENT - (Abstract Only)

Wiedmann, R.T., Doumit, M.E., Matukumalli, L.K., Sonstegard, T.S., Coutinho, L.L., Nonneman, D.J., Smith, T.P. 2006. Expression profiles of micro-RNAs in swine muscle development. (Abstract) International Conference on Animal Genetics. p. 70. Abstract #C278.

BOS TAURUS 60MER OLIGONUCLEOTIDE MICROARRAY - (Other)

Li, R.W., Capuco, A.V., Van Tassell, C.P., Sonstegard, T.S., Connor, E.E., Gasbarre, L.C. 2006. Bos taurus 60mer oligonucleotide microarray. NIH Gene Expression Omnibus (GEO) Database.

IN SILICO PREDICTION OF REGULATORY ELEMENTS BY PHYLOGENETIC FOOTPRINTING. - (Abstract Only)

Liu, G., Yang, J., Matukumalli, L.K., Sonstegard, T.S., Van Tassell, C.P., Hanson, R.W. 2006. In silico prediction of regulatory elements by phylogenetic footprinting. [abstract] BARC Poster Day. Beltsville, MD. pp. 32.

COMPREHENSIVE SEARCH OF BOVINE MICRORNAS EXPRESSED IN IMMUNE AND GUT TISSUES BY DEEP SEQUENCING - (Abstract Only)

Sonstegard, T.S., Matukumalli, L.K., Coutinho, L.L., Liu, G., Gasbarre, L.C., Smith, T.P. 2006. Comprehensive search of bovine micrornas expressed in immune and gut tissues by deep sequencing [abstract]. International Conference on Animal Genetics. pp. C354.

PROFILING OF BOVINE MICRORNAS FROM IMMUNE RELATED AND EMBRYONIC TISSUES. - (Abstract Only)

Matukumalli, L.K., Coutinho, L.L., Sonstegard, T.S., Van Tassell, C.P., Gasbarre, L.C., Capuco, A.V., Smith, T.P. 2006. Profiling of bovine micrornas from immune related and embryonic tissues [abstract]. International Conference on Animal Genetics. pp. C329.

SMALL AMPLIFED RNA- SERIAL ANALYSIS OF GENE EXPRESSION (SAR-SAGE) FROM PORCINE BLASTOCYSTS PRODUCED IN VIVO OR IN VITRO - (Abstract Only)

This is a poster presentation for BARC Poster Day 4/26/2006.

IDENTIFICATION OF BOVINE MICRORNAS - (Abstract Only)

Matukumalli, L.K., Coutinho, L.L., Sonstegard, T.S., Van Tassell, C.P., Gasbarre, L.C., Capuco, A.V., Smith, T.P. 2006. Identification of bovine micrornas [abstract]. Cold Springs Harbor Laboratories 71 Symposium of Regulatoary RNAs. Cold Spring Harbor, NY. Number 214.

IDENTIFICATION AND PROFILING OF BOVINE MICRORNAS FROM IMMUNE RELATED AND EMBRYONIC TISSUES. - (Abstract Only)

Coutinho, L.L., Matukumalli, L.K., Sonstegard, T.S., Van Tassell, C.P., Gasbarre, L.C., Capuco, A.V., Smith, T.P. 2006. Identification and profiling of bovine micrornas from immune related and embryonic tissues [abstract]. 17th Annual BARC Poster Day, Beltsville, MD. No 6.

CHARACTERIZATION OF BOIVNE MICRORNAS EXPRESSED IN IMMUNE AND GUT TISSUES BY DEEP SEQUENCING - (Abstract Only)

Matukumalli, L.K., Coutinho, L.L., Sonstegard, T.S., Liu, G., Gasbarre, L.C., Smith, T.P. 2006. Characterization of boivne micrornas expressed in immune and gut tissues by deep sequencing [abstract] 17th Annual BARC Poster Day. Beltsville, MD. No 27.

DETECTION OF QUANTITATIAVE TRAIT LOCI AFFECTING GROWTH AND REPRODUCTIVE TRAITS IN BOS INDICUS BEEF CATTLE (NELLORE) - (Abstract Only)

Avelar, G.A., Neto, L.R., Teixeira, L.A., Sonstegard, T.S., Van Tassell, C.P., Garcia, J.F. 2006. Detection of quantitatiave trait loci affecting growth and reproductive traits in bos indicus beef cattle (nellore) [abstract]. Animal Genetics International Conference Proceedings. pp 180.

ADVANCEMENTS AND FUTURE CHALLENGES IN UNDERSTANDING MAMMARY GLAND FUNCTION - (Abstract Only)

Capuco, A.V., Connor, E.E., Meyer, M.J., Li, R.W., Van Tassell, C.P., Sonstegard, T.S., Van Amburgh, M.E., Boisclair, Y.R. 2006. Advancements and future challenges in understanding mammary gland function [abstract]. J. Dairy Sci. 89(Suppl. 1):409.

TRANSCRIPTOME PROFILING OF THE TUBULAR PORCINE CONCEPTUS IDENTIFIES THE DIFFERENTIAL REGULATION OF GROWTH AN DDEVELOPMENTALLY ASSOCIATED GENES - (Peer Reviewed Journal)

Blomberg, L., Garrett, W.M., Guillomot, M., Miles, J.R., Sonstegard, T.S., Van Tassell, C.P., Zuelke, K.A. 2006. Transcriptome profiling of the tubular porcine conceptus identifies the differential regulation of growth and developmentally associated genes. Molecular Reproduction and Development. 73(12):1491-1502.

QUANTITATIVE ANALYSIS OF ESTROGEN-RELATED RECEPTOR ALPHA-1 (ERRA), ESTROGEN RECEPTORS ALPHA (ERA), AND BETA (ERB) AND PROGESTERONE (PR) DURING BOVINE MAMMARY GLAND DEVELOPMENT, & MAPPING OF THE RECEPTORS TO THE BOVINE GENOME. - (Peer Reviewed Journal)

Connor, E.E., Sonstegard, T.S., Mota, A.F., Wood, D.L., Bennett, G.L., Williams, J.L., Capuco, A.V. 2005. Chromosomal mapping and quantitative analysis of estrogen-related receptor alpha-1 (ERRa), estrogen receptors alpha (ERa), and beta (ERb) and progesterone (PR) in the bovine mammary gland. Journal of Endocrinology. 185:593-609.

CHARACTERIZATION OF 954 BOVINE FULL-CDS CDNA SEQUENCES - (Peer Reviewed Journal)

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).

HIGH DENSITY ESTS BASED BOVINE PHYSICAL MAPS AND THEIR USE TO CONSTRUCT COMPARATIVE MAPS AND INFORM THE BOVINE GENOME SEQUENCE ASSEMBLY - (Abstract Only)

Williams, J.L., Aerts, J., Law, A., Jann, O., Janitz, M., Hennig, S., Eggen, A., Floriot, S., Ajmone-Marsan, P., Milanse, E., Valentini, A., Marchitelli, C., Mckay, S., Prasad, A., Yu, J., Moore, S.S., Drogemuller, C., Connor, E.E., Sonstegard, T.S., Stone, R.T., Smith, T.P. 2006. High density ESTs based bovine physical maps and their use to construct comparative maps and inform the bovine genome sequence assembly[abstracat]. Plant and Animal Genome XIV:55. Number W214.

GENETIC VARIABILITY OF A BOX TAURUS X BOS INDICUS CROSS POPULATION AND VALIDATION OF GENOMIC REGIONS INFLUENCING NEMATODE - (Abstract Only)

Benavides, M.V., Echevarria, F.A., Sonstegard, T.S., Van Tassell, C.P., Gasbarre, L.C. 2005. Genetic variability of a box taurus x bos indicus cross population and validation of genomic regions influencing nematode [absract]. Symposium of Genetic Research in Latin America in the Caribbean. p. 18.

DETECTION OF QUANTITATIVE TRAIT LOCI INFLUENCING CONFORMATION TRAITS AND CALVING EASE IN HOLSTEIN-FRIESIAN CATTLE - (Peer Reviewed Journal)

Ashwell, M.S., Heyen, D.W., Sonstegard, T.S., Van Tassell, C.P., Ron, M., Weller, J.I., Lewin, H.A. 2005. Detection of quantitative trait loci influencing conformation traits and calving ease in holstein-friesian cattle. Journal of Dairy Science. 88(11):4111-4119.

TOWARDS IDENTIFICATION OF THE GENETIC CONTROL OF RESISTANCE TO GASTROINTESTINAL HELMINTH INFECTIONS IN SHEEP AND MICE. - (Abstract Only)

Iraqi, F.A., Mugambi, J.M., Sonstegard, T.S., Garcia, F.J., Van Tassell, C.P., Hanotte, O., Nagda, S., Wakelin, D., Gibson, J.P., Behnke, J.M., Baker, L.R. 2005. Towards identification of the genetic control of resistance to gastrointestinal helminth infections in sheep and mice. Fourth All African Conference on Animal Agriculture. Tanzania, Abstract 45.

IDENTIFICATION OF QUANTITATIVE TRAIT LOCI AFFECTING PARASITE INDICATOR TRAITS IN A DOUBLE BACKCROSS POPULATION OF SHEEP. - (Abstract Only)

Sonstegard, T.S., Iraqi, F., Mugambi, J., Van Tassell, C.P., Garcia, F., Hanotte, O., Nagda, S., Gibson, J., Baker, L. 2005. Identification of quantitative trait loci affecting parasite indicator traits in a double backcross population of sheep. [abstract]. ADSA/ASAS Joint Meeting, Minneapolis, MN, number 252.

FETAL LOSSES AND PATHOLOGIC FINDINGS OF CLONES DERIVED FROM SERUM-STARVED VERSUS SERUM-FED BOVINE OVARIAN GRANULOSA CELLS. - (Peer Reviewed Journal)

Lawrence, J.L., Schrick, F., Hopkins, F.M., Welborn, M.G., Mccracken, M.D., Sonstegard, T.S., Wilson, T.J., Edwards, J. 2005. Fetal losses and pathologic findings of clones derived from serum-starved versus serum-fed bovine ovarian granulosa cells. Reproductive Biology. 5(2):171-184.

VALIDATION OF GENOMIC REGIONS INFLUENCING NEMATODE RESISTANCE IN A BOS TAURUS X BOS INDICUS CROSS POPULATION. - (Proceedings)

Benavides, M.V., Echevarria, F.A., Sonstegard, T.S., Van Tassell, C.P., Gasbarre, L.C. 2005. Validation of genomic regions influencing nematode resistance in a bos taurus x bos indicus cross population [abstract]. American Association of Veterinary Parasitologists Proceedings. p. 56.

CHARACTERIZATION OF FEZL EFFECTS ON SCS IN A SAMPLE OF NORTH AMERICAN HOLSTEINS - (Abstract Only)

Sonstegard, T.S., Van Tassell, C.P. 2005. Characterization of fezl effects on scs in a sample of north american Holsteins [abstract]. ADSA/ASAS Joint Meeting. p. 248.

DISCOVERY AND MAPPING OF FUNCTIONALLY IMPORTANT SNP IN COW GENOME - (Abstract Only)

Matukumalli, L.K., Grefenstette, J.J., Sonstegard, T.S., Van Tassell, C.P. 2005. Discovery and mapping of functionally important snp in cow genome. BARC Poster Day. [Abstract].

COMPARATIVE GENOMICS:GENOMIC VARIATION BETWEEN BOVINE AND HUMAN GENOMES. - (Abstract Only)

Liu, G., Van Tassell, C.P., Sonstegard, T.S., Matukumalli, L.K., Shade, L.L. 2005. Comparative genomics:genomic variation between bovine and human genomes [abstract]. BARC Poster Day. p. 32.

WHOLE GENOME SCAN TO DETECT QTL FOR MILK PRODUCTION, CONFORMATION AND FUNCTIONAL TRAITS IN TWO U.S. HOLSTEIN FAMILIES - (Peer Reviewed Journal)

Schnabel, R.D., Sonstegard, T.S., Taylor, J.F., Ashwell, M.S. 2005. Whole genome scan to detect QTL for milk production, conformation and functional traits in two U.S. Holstein families. Animal Genetics. 36(5):408-416.

CHARACTERIZATION OF THE INFECTION-RESPONSIVE BOVINE LACTOFERRIN PROMOTER - (Peer Reviewed Journal)

Zheng, J., Ather, J.L., Sonstegard, T.S., Kerr, D.E. 2005. Characterization of the infection-responsive bovine lactoferrin promoter. Gene. 353:107-17.

FINE-MAPPING MILK PRODUCTION QUANTITATIVE TRAIT LOCI ON BTA6: ANALYSIS OF THE BOVINE OSTEOPONTIN GENE. - (Peer Reviewed Journal)

Schnabel, R.D., Jong-Joo, K., Ashwell, M.S., Sonstegard, T.S., Van Tassell, C.P., Connor, E.E., Taylor, J.F. 2005. Fine-mapping milk production quantitative trait loci on bta6: analysis of the bovine osteopontin gene. Proceedings of the National Academy of Sciences. 102:6896-6901.

OPTIMIZING BOVINE SNP DISCOVERY EFFORTS - (Abstract Only)

Matukumalli, L.K., Grefenstette, J.J., Sonstegard, T.S., Van Tassell, C.P. 2005. Optimizing bovine SNP discovery efforts [abstract]. Recomb2005. p. 227.

IMMUNOGENOMICS AND THE TRANSITION DAIRY COW: PHYSIOLOGICAL INSIGHTS AND FUTURE POSSIBILITIES FOR IMPROVING ANIMAL HEALTH. - (Abstract Only)

Burton, J.L., Madsen, S.A., Chang, L.C., Weber, P.S., Coussens, P.M., Rosa, G., Matukumalli, L.K., Sonstegard, T.S., Smith, T.P. 2005. Immunogenomics and the transition dairy cow: physiological insights and future possibilities for improving animal health. ADSA/ASAS Joint Meeting, Cincinnati, OH, Abstract 17

EXPRESSION PROFILES AND SNP ANALYSIS OF GENES THAT REGULATE NEUTROPHIL APOPTOSIS, ENDOTHELIAL ADHESION, AND EXTRACELLULAR MATRIX REMODELING AT PARTURITION IN DAIRY COWS - (Abstract Only)

Burton, J.L., Madsen, S.A., Chang, L., Weber, P.S., Rosa, G.J., Matukumalli, L.K., Sonstegard, T.S. 2005. Expression profiles and snp analysis of genes that regulate neutrophil apoptosis, endothelial adhesion, and extracellular matrix remodeling at parturition in dairy cows. Plant and Animal Genome XIII,204, pp. 694. San Diego, CA [Abstract].

FINE-MAPPING MILK PRODUCTION QTL ON BTA6: ANALYSIS OF THE BOVINE OSTEOPONTIN GENE - (Abstract Only)

Schnabel, R.D., Ashwell, M.S., Sonstegard, T.S., Connor, E.E., Van Tassell, C.P., Kim, J., Taylor, J.F. 2005. Fine-mapping milk production qtl on bta6: analysis of the bovine osteopont [abstract]. Plant and Animal Genome XIII. p. 532.

ALIGNMENT GENOMES ACROSS SPECIES - (Abstract Only)

Williams, J.L., Hastings, N., Jann, O., Law, A., Stone, R.T., Snelling, W.M., Connor, E.E., Sonstegard, T.S., Smith, T.P. 2005. Alignment genomes across species [abstract]. Plant and Animal Genome XVII. p. 241.

CHARACTERIZATION OF A NORMALIZED CDNA LIBRARY FROM BOVINE INTESTINAL MUSCLE AND EPITHELIAL TISSUES - (Peer Reviewed Journal)

Baumann, R.G., Baldwin, R.L., Van Tassell, C.P., Matukumalli, L.K., Sonstegard, T.S. 2005. Characterization of a normalized cDNA library from bovine intestinal muscle and epithelial tissues. Animal Biotechnology. 16(1):17-30.

SERIAL ANALYSIS OF GENE EXPRESSION (SAGE) DURING ELONGATION OF PERI-IMPLANTATION PORCINE TROPHECTODERM (CONCEPTUS) - (Peer Reviewed Journal)

Blomberg, L., Long, E.L., Sonstegard, T.S., Van Tassell, C.P., Dobrinsky, J.R., Zuelke, K.A. 2004. Serial analysis of gene expression (sage) during elongation of peri-implantation porcine trophectoderm (conceptus). Physiological Genomics. 20:188-194.

USING GENOMICS TO IDENTIFY GENES AFFECTING RESISTANCE TO NEMATODE INFECTIONS IN RUMINANTS - (Proceedings)

Gasbarre, L.C., Sonstegard, T.S., Van Tassell, C.P., Araujo, R. 2004. Using genomics to identify genes affecting resistance to nematode infections in ruminants. In: Mendoza, P. ed. Preceedings of the Mexican Association of Veterinary Parasitologists. October 20-22, 2004, Colima, Mexico. p. 20-26.

SAGE ANALYSIS OF TRANSITIONS IN THE PORCINE CONCEPTUS TRANSCRIPTOME DURING TROPHECTODERM ELONGATION - (Abstract Only)

Blomberg, L., Sonstegard, T.S., Van Tassell, C.P., Zuelke, K.A. 2005. Sage analysis of transitions in the porcine conceptus transcriptome during trophectoderm elongation [abstract]. Journal Of Reproduction, Fertility And Development. 17:257.

CHARACTERIZATION OF A NORMALIZED CDNA LIBRARY FROM BOVINE INTESTINAL MUSCLE AND EPITHELIAL TISSUES - (Abstract Only)

Baumann, R.G., Baldwin, R.L., Sonstegard, T.S., Van Tassell, C.P., Matukumalli, L. 2004. Characterization of a normalized cDNA library from bovine intestinal muscle and epithelial tissues [abstract]. 7th International Meeting of the Microarray Gene Expression Data Society. p. 24.

SEQUENCING AND MAPPING OF THE BOVINE THYROID HORMONE RESPONSE ELEMENT (SPOT14) GENE - (Germplasm Release)

Sonstegard, T.S., Connor, E.E. 2004. Sequencing and mapping of the bovine thyroid hormone response element (spot14) gene. Germplasm Release. Accession number AY656814.

DATABASE DIRECTED FULL-LENGTH CDNA GENERATION USING EST DATA FROM NORMALIZED BOVINE CDNA LIBRARIES - (Abstract Only)

Harhay, G.P., Smith, T.P., Sonstegard, T.S., Clawson, M.L. 2004. Database directed full-length cDNA generation using EST data from normalized bovine cDNA libraries. Proc., 29th International Conference on Animal Genetics (ISAG), Tokyo, Japan. September 11-16, 2004. Abstract A022, p. 37.

DATABASE DIRECTED FULL-LENGTH CDNA GENERATION FROM NORMALIZED BOVINE CDNA LIBRARIES - (Abstract Only)

Harhay, G.P., Sonstegard, T.S., Clawson, M.L., Smith, T.P. 2004. Database directed full-length cDNA generation from normalized bovine cDNA libraries. International Genome Sequencing and Analysis Conference XVI, Washington, DC. September 27-30, 2004. Poster Abstract #49.

CONSTRUCTION AND ANALYSIS OF A CDNA LIBRARY GENERATED FROM INTESTINAL MUSCLE AND EPITHELIAL TISSUES OF HOLSTEIN CATTLE: OVER 20,000 5'-EST SEQUENCES - (Germplasm Release)

Baumann, R.G., Baldwin, R.L., Sonstegard, T.S., Van Tassell, C.P., Matukumalli, L. 2004. Construction and analysis of a cDNA library generated from intestinal muscle and epithelial tissues of holstein cattle: over 20,000 5'-est sequences. Germplasm Release.

GENETIC MAPPING AND EVALUATION OF ESTROGEN-RELATED RECEPTOR ALPHA (ESRRA), ESTROGEN RECEPTORS ALPHA (ESR1) AND BETA (ESR2) AND PROGESTERONE RECEPTOR (PGR) EXPRESSION DURING BOVINE MAMMARY GLAND DEVELOPMENT - (Germplasm Release)

Connor, E.E., Sonstegard, T.S., Da Mota, A.F., Wood, D.L., Bennett, G.L., Williams, J.L., Laiakis, E.C., Philpot, J.C., Baumann, R.G., Capuco, A.V. 2004. Genetic mapping and evaluation of estrogen-related receptor alpha (esrra), estrogen receptors alpha (esr1) and beta (esr2) and progesterone receptor (pgr) expression during bovine mammary gland development. Germplasm Release. Accession numbers BV166870-BV166875, AY656812-AY656813.

BOVINE BAC END SEQUENCES FROM RPCI-42 LIBRARY - (Germplasm Release)

Aycock, M.M., Najar, F.Z., Gasbarre, L.C., Van Tassell, C.P., Sonstegard, T.S., Connor, E.E., Capuco, A.V., Roe, B.A. 2004. Bovine bac end sequences from rpci-42 library. Germplasm Release.

SEQUENCE ANALYSIS OF ESTS UNIQUE TO THE BOS TAURUS GENE INDEX - (Germplasm Release)

Connor, E.E., Sonstegard, T.S., Van Tassell, C.P., Matukumalli, L.K. 2004. Sequence analysis of ests unique to the bos taurus gene index. Germplasm Release. Accession numbers CN779616-CN779642.

PRODUCTION OF EST FROM CDNA LIBRARIES DERIVED FROM IMMUNOLOGICALLY ACTIVATED BOVINE ABOMASUM - (Germplasm Release)

Sonstegard, T.S., Van Tassell, C.P., Matukumalli, L.K., Harhay, G.P., Bosak, S., Rubenfield, M., Gasbarre, L.C. 2004. Production of est from cdna libraries derived from immunologically activated bovine abomasum. Germplasm Release.

PRODUCTION OF EST FROM CDNA LIBRARIES DERIVED FROM IMMUNOLOGICALLY ACTIVATED BOVINE SMALL INTESTINE - (Germplasm Release)

Sonstegard, T.S., Van Tassell, C.P., Matukumalli, L.K., Harhay, G.P., Bosak, S., Rubenfield, M., Gasbarre, L.C. 2004. Production of est from cdna libraries derived from immunologically activated bovine small intestine. Germplasm Release.

BOVINE GENOMICS UPDATE: MAKING A COW JUMP OVER THE MOON - (Review Article)

Sonstegard, T.S., Van Tassell, C.P. 2004. Bovine genomics update: making a cow jump over the moon. Genetical Research 84, pp. 3-9.

AN EXPANDED COMPARATIVE MAP OF BOVINE CHROMOSOME 27 TARGETING DAIRY FORM QTL REGIONS - (Peer Reviewed Journal)

Connor, E.E., Sonstegard, T.S., Ashwell, M.S., Bennett, G.L., Williams, J.L. 2004. An expanded comparative map of bovine chromosome 27 targeting dairy form QTL regions. Animal Genetics. 35:265-269.

DETECTION OF QUANTITATIVE TRAIT LOCI AFFECTING CONFORMATION TRAITS IN HOLSTEIN CATTLE - (Abstract Only)

Ashwell, M.S., Heyen, D.W., Sonstegard, T.S., Van Tassell, C.P., Lewin, H.A. 2005. Detection of quantitative trait loci affecting conformation traits in holstein cattle [abstract]. American Dairy Science Association.

CONSTRUCTION OF A NORMALIZED CDNA LIBRARY OF THE BOVINE INTESTINE: 8BOV-GENE IDENTIFICATION AND METABOLIC PATHWAY DISCOVERY - (Abstract Only)

Baumann, R.G., Baldwin, R.L., Sonstegard, T.S., Van Tassell, C.P., Matukumalli, L. 2004. Construction of a normalized cDNA library of the bovine intestine: 8BOV - Gene identification and metabolic pathway discovery [abstract]. BARC Poster Day. p. 32.

USE OF SERIAL ANALYSIS OF GENE EXPRESSION (SAGE) FOR GENE TRANSCRIPT PROFILING IN LACTATING BOVINE MAMMARY GLAND - (Abstract Only)

Connor, E.E., Capuco, A.V., Sonstegard, T.S. 2004. Use of serial analysis of gene expression (sage) for gene transcript profiling in lactating bovine mammary gland [abstract]. Journal of Animal Science Supplement. 82(Suppl. 1):131.

CHARACTERIZATION OF OPEN READING FRAME EXPRESSED SEQUENCE TAGS GENERATED FROM BOS INDICUS AND BOS TAURUS MAMMARY GLAND CDNA LIBRARIES - (Peer Reviewed Journal)

Da Mota, A.F., Sonstegard, T.S., Van Tassell, C.P., Shade, L.L., Matukamalli, L.K., Wood, D.L., Capuco, A.V., Brito, M.P., Connor, E.E., Martinez, M.L. 2004. Characterization of open reading frame expressed sequence tags generated from bos indicus and bos taurus mammary gland cDNA libraries. Animal Genetics 35:213-219.

USING HOST GENOMICS TO CONTROL NEMATODE INFECTIONS - (Peer Reviewed Journal)

Gasbarre, L.C., Sonstegard, T.S., Van Tassell, C.P., Araujo, R. 2004. Using host genomics to control nematode infections. Veterinary Parasitology 125, pp. 155-161.

CHROMOSOMAL MAPPING OF 12 GENE-ASSOCIATED MARKERS IN CATTLE IDENTIFIES NOVEL REGIONS OF CONSERVED SYNTENY BETWEEN THE HUMAN AND BOVINE GEN0MES - (Proceedings)

Connor, E.E., Sonstegard, T.S., Ashwell, M.S., Bennett, G.L., Williams, J.L. 2004. Chromosomal mapping of 12 gene-associated markers in cattle identifies novel regions of conserved synteny between the human and bovine genomes. Plant and Animal Genome XII:228. Abstract P630.

COMPARATIVE MAPPING OF A CHROMOSOMAL REGION ASSOCIATED WITH A CONFORMATIONAL TRAIT LOCUS IN DAIRY CATTLE - (Germplasm Release)

Connor, E.E., Sonstegard, T.S., Ashwell, M.S., Matukamalli, L.K., Philpot, J.C., Shade, L.L., Bennett, G.L., Williams, J.L. 2003. Comparative mapping of a chromosomal region associated with a conformational trait locus in dairy cattle. Germplasm Release. Accession numbers. CG695835-CG699931, CG706319-CG706518, BV096721-BV096734.

EST-PAGE - A SIMPLE WEB INTERFACE FOR MANAGING AND ANALYZING EST DATA - (Peer Reviewed Journal)

Matukumalli, L.K., Grefenstette, J.J., Sonstegard, T.S., Van Tassell, C.P. 2004. Est-page - a simple web interface for managing and analyzing est data. Bioinformatics, 20:286-288.

EST-PAGE: A TOOL FOR MANAGING AND ANALYZING EST DATA - (Abstract Only)

Matukumalli, L.K., Grefenstette, J.J., Sonstegard, T.S., Van Tassell, C.P. 2003. Est-page: a tool for managing and analyzing EST data [abstract]. TIGR XV GSAC Conference, September 2003.

MAPPING QUANTITATIVE TRAIT LOCI FOR DAIRY FORM IN REGIONS OF CHROMOSOME 27 IN TWO FAMILIES OF HOLSTEIN - (Peer Reviewed Journal)

Van Tassell, C.P., Sonstegard, T.S., Ashwell, M.S. 2004. Mapping quantitative trait loci for dairy form in regions of chromosome 27 in two families of holstein. Journal of Dairy Science. 87(2):450-457.

USING HOST GENOMICS TO CONTROL NEMATODE INFECTIONS - (Abstract Only)

GASBARRE, L.C., SONSTEGARD, T.S., VAN TASSELL, C.P., PADILHA, T. USING HOST GENOMICS TO CONTROL NEMATODE INFECTIONS. World Association for the Advancement of Veterinary Parasitology. pp. 119, 2003.

MOLECULAR CLONING, SEQUENCING, AND SEQUENCE ANALYSIS OF BOVINE LACTOFERRIN 5' FLANKING REGION - (Germplasm Release)

Zheng, J., Ather, J.L., Sonstegard, T.S., Kerr, D.E. 2003. Molecular cloning, sequencing, and sequence analysis of bovine lactoferrin 5' flanking region. Genbank.

DEVELOPMENT AND TESTING OF A HIGH-DENSITY CDNA MICROARRAY RESOURCE FOR CATTLE - (Peer Reviewed Journal)

Suchyta, S.P., Sipkovsky, S., Kruska, R., Jeffers, A., Mcnulty, A., Tempelman, R.J., Halgren, R.G., Saama, P.M., Bauman, D.E., Boisclair, Y.R., Burton, J.L., Collier, R.J., Depeters, E.J., Ferris, T.A., Lucy, M.C., Mcguire, M.A., Medrano, J.F., Overton, T.R., Smith, T.P., Smith, G.W., Sonstegard, T.S., Spain, J.N., Spiers, D.E., Yao, J., Coussens, P.M. 2003.Development and testing of a high-density cdna microarray resource for cattle. Physiological Genomics. 15:158-164.

CHARACTERIZATION OF ORESTES CDNA LIBRARIES GENERATED FROM MAMMARY GLAND TISSUES OF HOLSTEIN (BOS TAURUS) AND GIR (BOS INDICUS) CATTLE. - (Abstract Only)

Mota, A.F., Sonstegard, T.S., Van Tassell, C.P., Shade, L.L., Matukumalli, L., Wood, D.L., Capuco, A.V., Brito, M.A., Martinez, M.L., Connor, E.E. 2003. Characterization of ORESTES cDNA libraries generated from mammary gland tissues of Holstein (Bos taurus) and Gir (Bos indicus) cattle [abstract]. Animal Production World Conference Proceedings.

PHYSICAL AND LINKAGE MAPPING OF MAMMARY-DERIVED EXPRESSED SEQUENCE TAGS IN CATTLE. - (Peer Reviewed Journal)

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.

ONTOGENETIC REGULATION OF PROGESTERONE RECEPTOR (PR) EXPRESSION IN BOVINE MAMMARY GLAND - (Abstract Only)

Connor, E.E., Capuco, A.V., Wood, D.L., Sonstegard, T.S., Mota, A.F. 2003. Ontogenetic regulation of progesterone receptor (pr) expression in bovine mammary gland [abstract]. Journal of Animal Science Supplement. 81 (Suppl. 1): 302.

MAPPING QUANTITATIVE TRAIT LOCUS ASSOCIATED WITH RESISTANCE TO AVIAN COCCIDIOSIS AND GROWTH - (Peer Reviewed Journal)

Zhu, J.J., Lillehoj, H.S., Allen, P.C., Van Tassell, C.P., Sonstegard, T.S., Cheng, H.H., Pollock, D., Sadjadi, M., Min, W., Emara, M.G. 2003. Mapping quantitative trait locus associated with resistance to avian coccidiosis and growth. Poultry Science 82:9-16.

QUANTITATIVE ANALYSIS OF ESTROGEN-RELATED RECEPTOR A, ESTROGEN RECEPTOR A AND ESTROGEN RECEPTOR B THROUGHOUT BOVINE MAMMARY GLAND DEVELOPMENT - (Abstract Only)

Connor, E.E., Capuco, A.V., Sonstegard, T.S., Mota, A.F., Wood, D.L., Garrett, W.M., Bennett, G.L., Williams, J.L. 2003. Quantitative analysis of estrogen-related receptor a, estrogen receptor a and estrogen receptor b throughout bovine mammary gland development [abstract]. Journal of Animal Science Supplement. 81 (Suppl. 1):118.

DETECTION OF QUANTITATIVE TRAIT LOCI AFFECTING MILK PRODUCTION, HEALTH, AND REPRODUCTIVE TRAITS IN HOLSTEIN CATTLE - (Peer Reviewed Journal)

Ashwell, M.S., Heyen, D.W., Sonstegard, T.S., Van Tassell, C.P., Da, Y., Van Raden, P.M., Ron, M., Weller, J.I., Lewin, H.A. 2004. Detection of quantitative trait loci affecting milk production,health, and reproductive traits in Holstein cattle. Journal of Dairy Science. vol. 87(2): pp. 468-75.

FUNCTIONAL GENOMICS OF MAMMARY GLAND GROWTH AND DEVELOPMENT - (Proceedings) - (10-May-03)

CHARACTERIZATION OF IMMUNE RESPONSE GENE EXPRESSION PATTERNS IN CATTLE SELECTED FOR RESISTANCE OR SUSCPTIBILITY TO GASTROINTESTINAL PARASITES. - (Abstract Only)

Sonstegard, T.S., Araujo, R.N., Zarlenga, D.S., Padilha, T., Lima, W.S., Nascimento, E., Gasbarre, L.C. 2003. Characterization of immune response gene expression patterns in cattle selected for resistance or suscptibility to gastrointestinal parasites. Meeting Abstract.

DEVELOPMENT OF A SIMPLE WEB INTERFACE FOR MANAGING AND ANALYZING EST DATA - (Abstract Only)

Matukumalli, L.K., Grefenstette, J.J., Sonstegard, T.S., Van Tassell, C.P. 2003. Development of a simple web interface for managing and analyzing est data [abstract]. BARC Poster Day.

SERIAL ANALYSIS OF GENE EXPRESSION (SAGE) DURING ELONGATION OF PERIIMPLANTATION PORCINE EMBRYOS - (Abstract Only) - (01-Apr-03)

USE OF MULTILOCUS ITERATIVE ALLELIC PEELING OF MARKER GENOTYPES FOR QUALITY CONTROL IN AN EXPERIMENTAL POPULATION DIVERGENTLY SEECTED FOR RESISTANCE TO GASTROINTESTINAL NEMATODES. - (Abstract Only) - (26-Mar-03)

SERIAL ANALYSIS OF GENE EXPRESSION (SAGE) DURING ELONGATION OF PERIIMPLANTATION PORCINE EMBRYOS - (Abstract Only)

Blomberg, L., Long, E.L., Sonstegard, T.S., Van Tassell, C.P., Dobrinsky, J.R., Zuelke, K.A. 2003. Serial analysis of gene expression (sage) during elongation of periimplantation porcine embryos. Experimental Biology.

FIELD TESTING THE INFLUENCE OF SPERM COMPETITION BASED ON SPERM MOBILITY INBREEDER TURKEY TOMS - (Peer Reviewed Journal)

Donoghue, A.M., Kirby, J.D., Froman, D.P., Lerner, S.P., Crouch, A.N., King, L.M., Donoghue, D.J., Sonstegard, T.S. 2003. Field testing the influence of sperm competition based on sperm mobility inbreeder turkey toms. British Poultry Science.

SERIAL ANALYSIS OF GENE EXPRESSION (SAGE) IN TURKEY SPERM STORAGE TUBULES IN THE PRESENCE AND ABSENCE OF RESIDENT SPERM. - (Peer Reviewed Journal)

Long, E.L., Sonstegard, T.S., Long, J.A., Van Tassel, C.P., and Zuelke, K.A. (2003). Serial analysis of gene expression (SAGE) in turkey sperm storage tubules in the presence and absence of sperm. Biol. Reprod. 69:469-474.

THE BOVINE TYPE I 5'-DEIODINASE (DIO1) GENE MAPS TO CHROMOSOME 3 - (Research Notes)

CONNOR, E.E., SONSTEGARD, T.S., KAHL, S., BENNETT, G.L., SNELLING, W.M. THE BOVINE TYPE I 5'-DEIODINASE (DIO1) GENE MAPS TO CHROMOSOME 3. ANIMAL GENETICS. vol. 34, pp. 232-240, 2003.

CONSTRUCTION AND CHARACTERIZATION OF CDNA LIBRARIES GENERATED FROM MAMMARY GLAND TISSUES OF HOLSTEIN (BOS TAURUS) AND GIR (BOS INDICUS) CATTLE - (Germplasm Release)

D.A. Mota, A.F., Sonstegard, T.S., Van Tassell, C.P., Matukumalli, L.K., Wood, D.L., Capuco, A.V., Brito, M.A., Martinez, M.L., Connor, E.E., Machado, M.A. 2003. Construction and characterization of cDNA Libraries generated from mammary gland tissues of Holstein (Bos taurus) AND GIR (Bos indicus) cattle. Germplasm Release. Accession Numbers CA998517-CA995586, CB040527-CB042862, CB059218-CB063292.

SEQUENCING OF EXPRESSED SEQUENCE TAGS (ESTS) UNIQUE TO THE BOS TAURUS GENE INDEX - (Germplasm Release)

Connor, E.E., Sonstegard, T.S., Van Tassell, C.P. 2002. Sequencing of expressed sequence tags (ests) unique to the bos taurus gene index. Germplasm Release. Accession Numbers CA923315-CA923384.

MAPPING OF GENE-ASSOCIATED SEQUENCE TAGGED SITES (STSS) TO THE BOVINE LINKAGE AND RADIATION HYBRID MAPS - (Germplasm Release)

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.

LINKAGE MAPPING OF BOVINE TYPE I 5' DEIODINASE GENE (DIO1) - (Germplasm Release)

Connor, E.E., Sonstegard, T.S., Kahl, S., Bennett, G.L., Snelling, W.M. 2003. Linkage mapping of bovine type i 5' deiodinase gene (dio1). Germplasm Release. Accession Numbers BV005735-36.

IDENTIFICATION OF QTL AFFECTING RESISTANCE TO GASTROINTESTINAL PARASITES OF CATTLE - (Abstract Only)

GASBARRE, L.C., SONSTEGARD, T.S., VANTASSELL, C.P., PADILHA, T. IDENTIFICATION OF QTL AFFECTING RESISTANCE TO GASTROINTESTINAL PARASITES OF CATTLE. PLANT AND ANIMAL GENOME ABSTRACTS. pp. 218, 2002.

SERIAL ANALYSIS OF GENE EXPRESSION (SAGE) COMPARISONS BETWEEN DAY 11 AND DAY 12 PORCINE EMBRYOS - (Abstract Only)

Zuelke, K.A., Blomberg, L., Long, E.L., Sonstegard, T.S. Serial analysis of gene expression (sage) comparisons between day 11 and day 12 porcine embryos. THERIOGENOLOGY 59:435.

SERIAL ANALYSIS OF GENE EXPRESSION (SAGE) IN PREIMPLANTATION STAGE SWINE EMBRYOS - (Proceedings)

Serial analysis of gene expression (sage) in preimplantation stage swine embryos. (2004). IN: Biological Resource Management in Agriculture: Mammalian Embryo Genomics, Watson, A., Editor, OECD Publications, Paris, France, pp. 47-85.

A GENOME SCAN FOR GASTROINTESTINAL NEMATODE RESISTANCE IN CATTLE. - (Abstract Only)

Sonstegard, T.S., Gasbarre, L.C., Van Tassell, C.P., Thallman, R.M., Padilha, T. 2002. A genome scan for gastrointestinal nematode resistance in cattle [abstract]. Animal Genetics International Conference Proceedings.

SAMPLING GENE EXPRESSION FROM MAMMARY TISSUES BY EST SEQUENCING OR ORESTES CDNA LIBRARIES FROM HOLSTEIN AND GIR CATTLE. - (Abstract Only)

Damota, A.F., Sonstegard, T.S., Van Tassell, C.P., Connor, E.E., Capuco, A.V., Brito, M.P., Machado, M.A., Martinez, M.L., Coutinho, L.L. 2002. Sampling gene expression from mammary tissues by est sequencing or orestes cdna libraries from holstein and gir cattle.. Animal Genetics International Conference Proceedings.

MAPPING OF MAMMARY GLAND-DERIVED EXPRESSED SEQUENCE TAGS (ESTS) IN CATTLE. - (Abstract Only)

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.

SERIAL ANALYSIS OF GENE EXPRESSION (SAGE) IN TURKEY SPERM STORAGE TUBULES - (Abstract Only)

Long, E.L., Sonstegard, T.S., Long, J.A., Zuelke, K.A. Serial analysis of gene expression (sage) in turkey sperm storage tubules. Biol. Reprod. 66(Suppl.1):253, Abstract 384.

MULTILOCUS ITERTAIVE ALLETIC PEELING OF MARKER GENOTYPES GENERATED FROM A LINEBRED ANGUS POPULATION DIVERGENTLY SELECTED FOR RESISTANCE TO GATROINTESTINAL NEMATODES. - (Abstract Only)

Van Tassell, C.P., Thallman, R.M., Sonstegard, T.S., Gasbarre, L.C., Padilha, T. 2002. Multilocus itertaive alletic peeling of marker genotypes generated from a linebred angus population divergently selected for resistance to gatrointestinal nematodes. International Conference on Animal Genetics.

IDENTIFICATION OF GENOMIC REGIONS AFFECTING RESISTANCE TO GASTROINTESTINAL PARASITES OF CATTLE - (Abstract Only)

GASBARRE, L.C., SONSTEGARD, T.S., VAN TASSELL, C.P., PADILHA, T. IDENTIFICATION OF GENOMIC REGIONS AFFECTING RESISTANCE TO GASTROINTESTINAL PARASITES OF CATTLE. AMERICAN ASSOCIATION OF VETERINARY PARASITOLOGISTS PROCEEDINGS. pp. 47, 2002.

USE OF A CANDIDATE GENE ARRAY TO DELINEATE GENE EXPRESSION IN CATTLE SELECTED FOR RESISTANCE OR SUSCEPTIBILITY TO GASROINTESTINAL NEMATODES. - (Abstract Only)

ARAUJO, R., SONSTEGARD, T.S., ZARLENGA, D.S., PADILHA, T., GASBARRE, L.C. USE OF A CANDIDATE GENE ARRAY TO DELINEATE GENE EXPRESSION IN CATTLE SELECTED FOR RESISTANCE OR SUSCEPTIBILITY TO GASROINTESTINAL NEMATODES. AMERICAN ASSOCIATION OF VETERINARY PARASITOLOGISTS PROCEEDINGS. p. 47, 2002.

FINE-MAPPING OF QTL AFFECTING PROTEIN PERCENT AND FAT PERCENT ON BTA6 IN A POPULAR U.S. HOLSTEIN FAMILY - (Proceedings)

Ashwell, M.S., Schnabel, R.D., Sonstegard, T.S., Van Tassell, C.P. 2002. Fine-mapping of qtl affecting protein percent and fat percent on bta6 in a popular u.s. holstein family. World Congress of Genetics Applied in Livestock Production. 31:123-126.

DEVELOPMENT OF 47 NEW MICROSATELLITE MARKERS FROM A BTA6 LIBRARY - (Peer Reviewed Journal)

REED, K.M., IHARA, N., PONCE DE LEON, F.A., SONSTEGARD, T.S., SMITH, T.P., BENNETT, G.L., SUGIMOTO, Y., BEATTIE, C.W. DEVELOPMENT OF 47 NEW MICROSATELLITE MARKERS FROM A BTA6 LIBRARY. ANIMAL BIOTECHNOLOGY JOURNAL. 2002, Vol. 13(2), pp. 195-202.

DETECTION OF QTL AFFECTING PARASITE RESISTANCE IN A SELECTED HERD OF ANGUS CATTLE - (Proceedings)

GASBARRE, L.C., SONSTEGARD, T.S., VAN TASSELL, C.P., PADILHA, T. DETECTION OF QTL AFFECTING PARASITE RESISTANCE IN A SELECTED HERD OF ANGUS CATTLE. WORLD CONGRESS OF GENETICS APPLIED IN LIVESTOCK PRODUCTION. 2002.

DEVELOPMENT OF A RESOURCE POPULATION TO DETECT QTL AFFECTING RESISTANCE TO GASTROINTESTINAL PARASITES OF CATTLE - (Abstract Only)

GASBARRE, L.C., SONSTEGARD, T.S., VAN TASSELL, C.P., PADILHA, T. DEVELOPMENT OF A RESOURCE POPULATION TO DETECT QTL AFFECTING RESISTANCE TO GASTROINTESTINAL PARASITES OF CATTLE. ANIMAL GENETICS INTERNATIONAL CONFERENCE PROCEEDINGS. pp. 79, 2002.

DEVELOPMENT OF A CATTLE POPULATION FOR MAPPING ECONOMIC TRAIT LOCI (ETL) AFFECTING PARASITE RESISTANCE. - (Abstract Only)

Sonstegard, T.S., Gasbarre, L.C., Van Tassell, C.P., Padilha, T. 2002. Development of a cattle population for mapping economic trait loci (ETL) affecting parasite resistance [abstract]. American Society Of Animal Science.

CONSTRUCTION AND CHARACTERIZATION OF ORESTES CDNA LIBRARIES GENERATED FROM BOVINE MAMMARY GLAND TISSUES. - (Abstract Only)

Mota, A.F., Sonstegard, T.S., Van Tassell, C.P., Connor, E.E., Capuco, A.V., Brito, A.P., Machado, M.A., Martinez, M.L., Coutinho, L.L. 2002. Construction and characterization of orestes cdna libraries generated from bovine mammary gland tissues [abstract]. American Society of Animal Science.

SERIAL ANALYSIS OF GENE EXPRESSION (SAGE) IN PREIMPLANTATION STAGE SWINE EMBRYOS - (Abstract Only)

Zuelke, K.A., Blomberg, L., Long, E.L., Sonstegard, T.S. 2002. Serial analysis of gene expression (sage) in preimplantation stage swine embryos. American Society of Animal Science Proceedings.

EXPRESSION PROFILE ANALYSIS OF IMMUNE-RELATED GENES IN CATTLE INFECTED WITH OSTERTAGIA OSTERTAGI - (Abstract Only)

Araujo, R.N., Sonstegard, T.S., Zarlenga, D.S., Padilha, T., Gasbarre, L.C. 2002. Expression profile analysis of immune-related genes in cattle infected with ostertagia ostertagi. BARC Poster Day.

TRANSCRIPT PROFILING IN TURKEY SPERM STORAGE TUBULES USING SAGE - (Abstract Only)

Long, E.L., Sonstegard, T.S., Long, J.A., Zuelke, K.A. 2002. Transcript profiling in turkey sperm storage tubules using sage. BARC Poster Day.

CHARACTERIZATION OF ORESTES CDNA LIBRARIES GENERATED FROM MAMMARY GLAND TISSUES OF GIR CATTLE. - (Abstract Only)

Mota, A.F., Sonstegard, T.S., Van Tassell, C.P., Connor, E.E., Capuco, A.V., Brito, M., Martinez, M.L., Coutinho, L.L. 2002. Characterization of orestes cdna libraries generated from mammary gland tissues of gir cattle.. BARC Poster Day.

ANALYSIS OF BOVINE MAMMARY GLAND EST AND FUNCTIONAL ANNOTATION OF THE BOS TAURUS GENE INDEX - (Peer Reviewed Journal)

Sonstegard, T.S., Capuco, A.V., White, J., Van Tassell, C.P., Connor, E.E., Cho, J., Sultan, R., Shade, L.L., Wray Jr, J.E., Wells, K.D. 2002. Analysis of bovine mannary gland EST and functional annotation of the BOS taurus gene index. Mammalian Genome. vol.13, pp. 373-379.

MAPPING GENES RELATED TO DISEASE RESISTANCE AND MILK PRODUCTION IN U.S. HOLSTEINS - (Proceedings)

ASHWELL, M.S., SONSTEGARD, T.S., VAN TASSELL, C.P. MAPPING GENES RELATED TO DISEASE RESISTANCE AND MILK PRODUCTION IN U.S. HOLSTEINS. AMERICAN COLLEGE OF VETERINARY INTERNAL MEDICINE. vol. 20, pp. 264-66, 2002.

APPLYING GENOMICS TO DAIRY CATTLE HEALTH - (Review Article) - (28-Dec-01)

GENETICS, CATTLE GENOMICS. - (Review Article)

VAN TASSELL, C.P., SONSTEGARD, T.S., KAPPES, S.M., ASHWELL, M.S., CONNOR, E.E. GENETICS, CATTLE GENOMICS. ENCYCLOPEDIA OF DAIRY SCIENCE. vol. 2, pp. 1219-1224, 2002.

A RADIATION HYBRID MAP OF BOVINE CHROMOSOME 27 - (Peer Reviewed Journal)

Ashwell, M.S., Sonstegard, T.S., Kata, S., Womack, J.E. 2002. A radiation hybrid map of bovine chromosome 27. Animal Genetics. 33(1):75-76.

GENOMIC TOOLS TO IMPROVE PARASITE RESISTANCE. - (Abstract Only)

SONSTEGARD, T.S., GASBARRE, L.C., VAN TASSELL, C.P., PADILHA, T. GENOMIC TOOLS TO IMPROVE PARASITE RESISTANCE. AMERICAN ASSOCIATION OF VETERINARY PARASITOLOGISTS PROCEEDINGS. pp. 46, 2001.

A GENOME SCAN TO IDENTIFY QUANTITATIVE TRAIT LOCI AFFECTING ECONOMICALLY IMPORTANT TRAITS IN A US HOLSTEIN POPULATION - (Peer Reviewed Journal)

Ashwell, M.S., Van Tassell, C.P., Sonstegard, T.S. 2001. A genome scan to identify quantitative trait loci affecting economically important traits in a us holstein population. Journal of Dairy Science. 84(11):2535-2542.

A LOCUS SIGNIFICANTLY AFFECTING DISEASE RESISTANCE TO AVIAN COCCIDIOSIS IDENTIFIED WITH GENOME SCAN USING MICROSATELLITE MARKERS - (Abstract Only)

Zhu, J.J., Lillehoj, H.S., Allen, P.C., Van Tassell, C.P., Sonstegard, T.S., Chang, H.H., Emara, M.G. 2001. A locus significantly affecting disease resistance to avian coccidiosis identified with genome scan using microsatellite markers. BARC Poster Day.

DAIRY CATTLE GENOMICS:TOOLS TO ACCELERATE GENETIC IMPROVEMENT - (Review Article)

Sonstegard, T.S., Van Tassell, C.P., Ashwell, M.S. 2001. Dairy cattle genomics:tools to accelerate genetic improvement. Journal of Animal Science. 79:E307-E315.

USE OF MICROSATELLITE DNA LOCI TO INFER GENETIC STRUCTURE IN THE HONEY BEE PARASITIC MITE VARROA DESTRUCTOR - (Peer Reviewed Journal) - (07-Apr-01)

HIGH-THROUGHPUT GENE EXPRESSION PROFILING TO STUDY HOST-PARASITE INTERACTIONS IN AVIAN COCCIDIOSIS - (Abstract Only) - (01-Apr-01)

ESCHERICHIA COLI INDUCES APOPTOSIS OF MAMMARY CELLS - (Peer Reviewed Journal)

Long, E., Capuco, A.V., Wood, D.L., Sonstegard, T.S., Tomita, G., Paape, M.J., Zhao, X. 2001. Apoptosis and cell proliferation are induced in escherichia coli infected bovine lactating mammary glands. Cell Death And Differentiation. 8(8):808-816.

COMPREHENSIVE LINKAGE MAP OF BOVINE CHROMOSOME 27 - (Peer Reviewed Journal)

Casas, E., Sonstegard, T.S., Barendse, W., Bennett, G.L., Bottema, C.K., Crawford, A., Grosz, M.D., Kalm, E., Kappes, S.M., Kister, A. 2001. Comprehensive linkage map of bovine chromosome 27. Animal Genetics. 32:95-97.

CONSENSUS AND COMPREHENSIVE LINKAGE MAPS OF THE BOVINE CHROMOSOME 17. - (Peer Reviewed Journal)

Sonstegard, T.S., Bendixen, C., Bennett, G.L., Kalm, E., Kappes, S.M., Lewin, H.A., Lien, S., Nielsen, V.H., Olsaker, I., Van Tassell, C.P. 2001. Consensus and comprehensive linkage maps of the bovine chromosome 17. Animal Genetics. 32(2):112-113.

CONSENSUS AND COMPREHENSIVE LINKAGE MAPS OF BOVINE CHROMOSOME 25 - (Peer Reviewed Journal)

Sonstegard, T.S., Bennett, G.L., Kalm, E., Kappes, S.M., Lewin, H.A., Olsaker, I., Schumutz, S., Thomsen, H., Vage, D.I., Van Tassell, C.P. 2001. Consensus and comprehensive linkage maps of bovine chromosome 25. Animal Genetics. 32(2):114-115.

CONSENSUS AND COMPREHENSIVE LINKAGE MAPS OF THE BOVINE SEX CHROMOSOMES - (Peer Reviewed Journal)

Sonstegard, T.S., Barendse, W., Bennett, G.L., Brockmann, G.A., Davis, S., Droegemuller, C., Kalm, E., Kuehn, C., Kappes, S.M., Van Tassell, C.P. 2001. Consensus and comprehensive linkage maps of the bovine sex chromosomes. Animal Genetics. 32(2):115-117.

CHARACTERIZATION OF GENE EXPRESSION PATTERNS IN THE BOVINE MAMMARY GLAND - (Abstract Only)

Sonstegard, T.S., Capuco, A.V., Wells, K.D., Ashwell, M.S., Van Tassell, C.P. 2001. Characterization of gene expression patterns in the bovine mammary gland [abstract]. Genome biology and technology conference, Marco Island, FL.

CHARACTERIZATION OF SEQUENCE DATA FROM A NORMALIZED BOVINE MAMMARY GLAND CDNA LIBRARY - (Abstract Only)

Van Tassell, C.P., Sonstegard, T.S., Capuco, A.V., Ashwell, M.S., Wells, K.D. 2000. Characterization of sequence data from a normalized bovine mammary gland cdna library [abstract]. Beltsville Symposium XXIV - Healthy Animals 2000. p. 19.

MAPPING OF SEVEN BOVINE CYTOKINE GENES INVOLVED IN T-LYMPHOCYTE GROWTH,DIFFERENTIATION, AND IMMUNE RESPONSE. - (Peer Reviewed Journal)

Sonstegard, T.S., Garrett, W.M., Bennett, G.L., Kappes, S.M., Zarlenga, D.S., Gasbarre, L.C. 2000. Mapping of seven bovine cytokine genes involved in t-lymphocyte growth, differentiation, and immune response. Animal Genetics. 31(6):406-408.

EFFICACY OF SPERM MOBILITY ASSESSMENT IN COMMERCIAL FLOCKS AND THE RELATIONSHIP OF SPERM MOBILITY AND INSEMINATION DOSE ON FERTILITY IN TURKEYS - (Peer Reviewed Journal)

King, L.M., Kirby, J.D., Froman, D.P., Sonstegard, T.S., Harry, D.E., Darden, J.R., Marini, P.J., Rhoads, M.L., Donoghue, A.M. 2000. Efficacy of sperm mobility assessment in commercial flocks and the relationship of sperm mobility and insemination dose on fertility in turkeys. Poultry Science.

CHARACTERIZATION OF A NORMALIZED CDNA LIBRARY CONSTRUCTED FROM BOVINE MAMMARY GLAND TISSUES - (Abstract Only)

Sonstegard, T.S., Capuco, A.V., Van Tassell, C.P., Wells, K.D., Ashwell, M.S. 2000. Characterization of a normalized cdna library constructed from bovine mammary gland tissues [abstract]. Animal Genetics International Conference Proceedings.

DETECTION OF QTL AFFECTING MILK PRODUCTION IN 6 DAIRY BULL DNA REPOSITORY GRANDSIRE FAMILIES. - (Abstract Only)

Ashwell, M.S., Heyen, D.W., Da, Y., Sonstegard, T.S., Van Tassell, C.P., Lewin, H.A. 2000. Detection of qtl affecting milk production in 6 dairy bull dna repository grandsire families.. Animal Genetics International Conference Proceedings.

STRUCTURE OF THE GENES FOR PORCINE ENDOMETRIAL SECRETED AND MEMBRANE FOLATE BINDING PROTEINS - (Peer Reviewed Journal)

Vallet, J.L., Smith, T.P., Sonstegard, T.S., Heaton, M.P., Fahrenkrug, S.C. 2001. Structure of the genes for porcine endometrial secreted and membrane folate binding proteins. Domestic Animal Endocrinology. 21(1):55-72.

DAIRY CATTLE GENOMICS:TOOLS TO ACCELERATE GENETIC IMPROVEMENT - (Abstract Only)

Sonstegard, T.S., Van Tassell, C.P., Ashwell, M.S. 2000. Dairy cattle genomics:tools to accelerate genetic improvement [abstract]. Joint Abstracts of the American Dairy Science and Society of Animal Science.

ALTERATION OF APOPTOSIS-RELATED GENE EXPRESSION AND 92 KDA-GELATINASE ACTIVITY IN ESCHERICHIA COLI INFECTED BOVINE MAMMARY GLANDS - (Abstract Only)

Long, E., Capuco, A.V., Wood, D.L., Sonstegard, T.S., Tomita, G., Paape, M.J., Zhao, Z. 2000. Alteration of apoptosis-related gene expression and 92 kda-gelatinase activity in escherichia coli infected bovine mammary glands [abstract]. Joint Abstracts of the American Dairy Science and Society of Animal Science.

COMPARATIVE MAP ALIGNMENT OF BTA27 AND HSA4 AND 8 TO IDENTIFY CONSERVED SEGMENTS OF GENOME CONTAINING FAT DEPOSITION QTL. - (Peer Reviewed Journal)

Sonstegard, T.S., Garrett, W.M., Ashwell, M.S., Bennett, G.L., Kappes, S.M., Van Tassell, C.P. 2000. Comparative map alignment of bta27 and hsa4 and 8 to identify conserved segments of genome containing fat deposition qtl. Mammalian Genome. 11(8):682-688.

DETECTION OF PUTATIVE LOCI AFFECTING MILK, HEALTH, AND CONFORMATION TRAITS IN A U.S. HOLSTEIN POPULATION USING 105 MICROSATELLITE MARKERS. - (Abstract Only)

Van Tassell, C.P., Ashwell, M.S., Sonstegard, T.S. 2000. Detection of putative loci affecting milk, health, and conformation traits in a u.s. holstein population using 105 microsatellite markers [abstract]. Plant and Animal Genome VIII. Paper No. 364.

DETECTION OF PUTATIVE LOCI AFFECTING MILK, HEALTH, AND CONFORMATION TRAITS IN A U.S. HOLSTEIN POPULATION USING 105 MICROSATELLITE MARKERS - (Peer Reviewed Journal)

Van Tassell, C.P., Ashwell, M.S., Sonstegard, T.S. 2000. Detection of putative loci affecting milk, health, and conformation traits in a u.s. holstein population using 105 microsatellite markers. Journal of Dairy Science. 83(8):1865-1872.

DIFFERENTIAL GENE EXPRESSION DURING ELONGATION IN THE PIG EMBRYO - (Peer Reviewed Journal)

Wilson, M.E., Sonstegard, T.S., Smith, T.P., Fahrenkrug, S.C., Ford, S.P. 2000. Differential gene expression during elongation in the pig embryo. Developmental Genetics. 11(8):682-688.

TOWARDS MARKER ASSISTED SELECTION IN DAIRY CATTLE: HIGH-THROUGHPUT GENOTYPING ON THE ABI-3700 - (Abstract Only)

Sonstegard, T.S., Ashwell, M.S., Van Tassell, C.P. 1999. Towards marker assisted selection in dairy cattle: high-throughput genotyping on the abi-3700 [abstract].

VERIFICATION OF A QUANTITATIVE TRAIT LOCUS FOR DAIRY FORM IN TWO FAMILIES OF HOLSTEINS. - (Abstract Only) - (21-Aug-99)

MAPPING OF THE SDHA LOCUS TO BOVINE CHROMOSOME 20. - (Peer Reviewed Journal) - (21-Jul-99)

MAPPING OF THE UCPI LOCUS TO BOVINE CHROMOSOME 17 - (Peer Reviewed Journal)

Sonstegard, T.S., Kappes, S.M. 1999. Mapping of the ucpi locus to bovine chromosome 17. Animal Genetics. 30(6):472.

INTERVAL ANALYSES TO IDENTIFY QTL FOR DAIRY FORM IN TWO FAMILIES OF HOLSTEINS - (Abstract Only) - (16-May-99)

MAPPING OF SEVEN BOVINE CYTOKINE GENES INVOLVED IN T-LYMPHOCYTE GROWTH,DIFFERENTIATION, AND IMMUNE RESPONSE - (Abstract Only)

Sonstegard, T.S., Garrett, W.M., Kappes, S.M., Zarlenga, D.S., Gasbarre, L.C. 1999. Mapping of seven bovine cytokine genes involved in t-lymphocyte growth,differentiation, and immune response [abstract].

INVESTIGATION OF A QUANTITATIVE TRAIT LOCUS AFFECTING MILK COMPOSITION ON BTA6 IN ONE FAMILY OF HOLSTEINS. - (Abstract Only) - (08-Apr-99)

ISOLATION OF COMPLEMENTARY DEOXYRIBONUCLEIC ACIDS ENCODING PUTATIVE SECRETED AND MEMBRANE-BOUND FOLATE BINDING PROTEINS FROM ENDOMETRIUM OF SWINE - (Peer Reviewed Journal) - (02-Mar-99)

INVESTIGATION OF A QUANTITATIVE TRAIT LOCUS AFFECTING MILK COMPOSITION ON BTA6 IN ONE FAMILY OF HOLSTEINS - (Proceedings) - (14-Feb-99)

PHYSICAL MAPPING OF THE BOVINE, CAPRINE AND OVINE HOMOLOGUES OF THE PAIRED BOX GENE PAX8 - (Peer Reviewed Journal) - (05-Feb-99)

INVESTIGATION OF A QUANTITATIVE TRAIT LOCUS AFFECTING MILK COMPOSITION ON BTA6 IN ONE FAMILY OF HOLSTEINS. - (Abstract Only) - (17-Jan-99)

COMPARATIVE MAPPING: CYTOGENETIC LOCATION OF PROC, EN1, ALPI, TNP1, AND IL1B GENES IN CATTLE AND SHEEP REVEALS A CONSERVED REARRANGEMENT RELATIVE TO HUMAN GENOME. - (Peer Reviewed Journal) - (18-Aug-98)

INVESTIGATION OF A QUANTITATIVE TRAIT LOCUS FOR DAIRY FORM IN ONE FAMILY OF HOLSTEINS. - (Abstract Only) - (15-Aug-98)

INVESTIGATION OF A QUANTITATIVE TRAIT LOCUS FOR DAIRY FORM IN ONE FAMILY OFHOLSTEINS - (Abstract Only) - (28-Jul-98)

STRUCTURE OF THE GENE FOR PORCINE ENDOMETRIAL FOLATE BINDING PROTEIN - (Abstract Only) - (29-Jun-98)

REFINEMENT OF BOVINE CHROMOSOME 2 LINKAGE MAP NEAR THE MH LOCUS REVEALS COMPLEX REARRANGEMENTS BETWEEN THE BOVINE AND HUMAN GENOMES. - (Peer Reviewed Journal) - (05-May-98)

EVALUATION OF THE OVINE CALLIPYGE LOCUS: I. RELATIVE CHROMOSOMAL POSITION AND GENE ACTION - (Peer Reviewed Journal) - (08-Apr-98)

INVESTIGATION OF A QUANTITATIVE TRAIT LOCUS FOR DAIRY FORM IN ONE FAMILY OFHOLSTEINS - (Abstract Only) - (19-Mar-98)

MYOSTATIN MUTATIONS CAUSE DOUBLE MUSCLING IN CATTLE - (Proceedings) - (01-Jan-98)

MYOSTATIN MUTATIONS CAUSE DOUBLE MUSCLING IN CATTLE - (Proceedings) - (27-Oct-97)

MYOSTATIN MAPS TO PORCINE CHROMOSOME 15 BY LINKAGE AND PHYSICAL ASSIGNMENT TO SSC15Q2.3 (SHORT COMMUNICATION) - (Abstract Only) - (11-Sep-97)

ASSOCIATION OF THE MUSCLE HYPERTROPHY LOCUS WITH CARCASS TRAITS IN BEEF CATTLE - (Peer Reviewed Journal) - (09-Sep-97)

MYOSTATIN MAPS TO THE INTERVAL CONTAINING THE BOVINE MH LOCUS - (Peer Reviewed Journal) - (02-Jul-97)

COMPARATIVE MAPPING OF BOVINE AND HUMAN CHROMOSOME 2 IDENTIFIES SEGMENTS OF CONSERVED SYNTENY CONTAINING THE BOVINE MH LOCUS - (Peer Reviewed Journal) - (12-May-97)

ASSOCIATION OF THE DOUBLE-MUSCLING LOCUS ON BOVINE CHROMOSOME TWO (BTA2) WITH CARCASS TRAITS - (Abstract Only) - (24-Apr-97)

PORCINE UTERINE FOLATE BINDING PROTEING: FOLATE BINDING, CLONING OF A PARTIAL CDNA, AND MRNA EXPRESSION DURING THE ESTROUS CYCLE AND EARLY PREGNANCY - (Abstract Only) - (23-Apr-97)

HUMAN:BOVINE COMPARATIVE MAPPING TO IDENTIFY THE MH GENE IN CATTLE - (Proceedings) - (02-Mar-97)

SHORT COMMUNICATION: PHYSICAL ASSIGNMENT OF GLUCAGON AND NEBULIN IN CATTLE, SHEEP AND GOAT - (Abstract Only) - (20-Jan-97)

A SECOND GENERATION LINKAGE MAP OF THE BOVINE GENOME - (Peer Reviewed Journal) - (06-Dec-96)

A CHROMOSOME SPECIFIC LAMBDA LIBRARY INCREASES MARKER DENSITY ON BOVINE CHROMOSOME 1 - (Peer Reviewed Journal) - (25-Nov-96)

AN INTEGRATED GENETIC AND PHYSICAL MAP OF THE BOVINE X CHROMOSOME - (Peer Reviewed Journal) - (19-Sep-96)

USE OF A CHROMOSOME SPECIFIC LAMBDA LIBRARY TO INCREASE MARKER DENSITY FOR BOVINE CHROMOSOME 1 - (Abstract Only) - (10-Jun-96)

SHORT COMMUNICATION: CONSTRUCTION AND CHARACTERIZATION OF A LARGE INSERT BOVINE YAC LIBRARY WITH 5-FOLD GENOMIC COVERAGE - (Abstract Only) - (19-Dec-95)