Redesigning Animal Agriculture

62 R. Tellam
missense mutation in the bovine ABCG2 gene with a major effect on the QTL on chromosome 6 affecting
milk yield and composition in Holstein cattle. Genome Research 15, 936–944.
Collins, F.S., Green, E.D., Guttmacher, A.R. and Guyer, M.S. (2003) A vision for the future of genomics
research. Nature 422, 835.
Dean, W., Santos, F., Stojkovic, M., Zakhartchenko, V., Walter, J., Wolf, E. and Reik, W. (2001) Conservation of
methylation reprogramming in mammalian development: aberrant reprogramming in cloned embryos.
Proceedings of the National Academy of Sciences of the United States of America 98, 13734–13738.
Dekkers, J.C.M. (2004) Commercial application of marker- and gene assisted selection in livestock: strategies
and lessons. Journal of Animal Science 82, E313–E328.
Farh, K.K., Grimson, A., Jan, C., Lewis, B.P., Johnston, W.K., Lim, L.P., Burge, C.B. and Bartel, D.P. (2005)
The widespread impact of mammalian MicroRNAs on mRNA repression and evolution. Science 310,
1817–1821.
Fazzari, M.J. and Greally, J.M. (2004) Epigenomics beyond CpG islands. Nature Reviews Genetics 5,
446–455.
Flaherty, L., Herron, B. and Symula, D. (2005) Genomics of the future: identification of quantitative trait loci
in the mouse. Genome Research 15, 1741–1745.
Freking, B.A., Murphy, S.K., Wylie, A.A., Rhodes, S.J., Keele, J.W., Leymaster, K.A., Jirtle, R.L. and Smith, T.P.L.
(2002) Identification of the single base change causing the callipyge muscle hypertrophy phenotype, the
only known example of polar overdominance in mammals. Genome Research 12, 1496–1506.
Galdzicka, M., Patnala, S., Hirshman, M.G., Cai, J.F., Nitowsky, H., Egeland, J.A. and Ginns, E.I. (2002) A
new gene, EVC2, is mutated in Ellis-van Creveld syndrome. Molecular Genetics and Metabolism 77,
291–295.
Grisart, B., Coppieters, W., Farnir, F., Karim, L., Ford, C., Berzi, P., Cambisano, N., Mni, M., Reid, S., Simon, P.,
Spelman, R., Georges, M. and Snell, R. (2002) Positional candidate cloning of a QTL in dairy cattle: identification
of a missense mutation in the bovine DGAT1 gene with major effect on milk yield and composition.
Genome Research 12, 222–231.
Grisart, B., Farnir, F., Karim, L., Cambisano, N., Kim, J.J., Kvasz, A., Mni, M., Simon, P., Frere, J.M., Coppieters,
W. and Georges, M. (2004) Genetic and functional confirmation of the causality of the DGAT1 K232A
quantitative trait nucleotide in affecting milk yield and composition. Proceedings of the National
Academy of Sciences of the United States of America 101, 2398–2403.
Guttmacher, A.E. and Collins, F.S. (2005) Realizing the promise of genomics in biomedical research. Journal
of the American Medical Association 294, 1399–1402.
Hanotte, O., Ronin, Y., Agaba, M., Nilsson, P., Gelhaus, A., Horstmann, R., Sugimoto, Y., Kemp, S., Gibson, J.,
Korol, A., Soller, M. and Teale, A. (2003) Mapping of quantitative trait loci controlling trypanotolerance
in a cross of tolerant West African N’Dama and susceptible East African Boran cattle. Proceedings of the
National Academy of Sciences of the United States of America 100, 7443–7448.
Heaton, M.P., Harhay, G.P., Bennett, G.L., Stone, R.T., Grosse, W.M., Casas, E., Keele, J.W., Smith, T.P., Chitko-
McKown, C.G. and Laegreid, W.W. (2002) Selection and use of SNP markers for animal identification
and paternity analysis in U.S. beef cattle. Mammalian Genome 13, 272–281.
Human Genome Sequencing Consortium (2001) Initial sequencing and analysis of the human genome.
Nature 409, 860–921.
International HapMap Project (2005) HapMap homepage, www.hapmap.org (accessed June 2006).
Ioannidis, J.P. (2005) Why most published research findings are false. PLoS Medicine 2, e124. 0696–0701.
Kapranov, P., Cawley, S.E., Drenkow, J., Bekiranov, S., Strausberg, R.L., Fodor, S.P. and Gingeras, T.R. (2002)
Large-scale transcriptional activity in chromosomes 21 and 22. Science 296, 916–919.
Khatkar, M.S., Thomson, P.C., Tammen, I. and Raadsma, H.W. (2004) Quantitative trait loci mapping in dairy
cattle: review and meta-analysis. Genetics Selection Evolution 36, 163–190.
Kruglyak, L. (1999) Prospects for whole-genome linkage disequilibrium mapping of common disease genes.
Nature Genetics 22, 139–144.
Kutzer, T., Leeb, T. and Brenig, B. (2003) Current state of development of genome analysis in livestock. Current
Genomics 4, 487–525.
Lee, M.P. (2005) Genome-wide analysis of allele-specific gene expression using oligo microarrays. Methods
in Molecular Biology 311, 39–47.
Lewis, B.P., Burge, C.B. and Bartel, D.P. (2005) Conserved seed pairing, often flanked by adenosines, indicates
that thousands of human genes are microRNA targets. Cell 120, 15–20.
Lo, H.S., Wang, Z., Hu, Y., Yang, H.H., Gere, S., Buetow, K.H. and Lee, M.P. (2003) Allelic variation in gene
expression is common in the human genome. Genome Research 13, 1855–1862.