Linkage disequilibrium and haplotype block structure in Limousin, Simmental and native Polish Red cattle

Bohmanova, 2010, Characteristics of linkage disequilibrium in North American Holsteins, BMC Genom., 11, 421, 10.1186/1471-2164-11-421 Espigolan, 2013, Study of whole genome linkage disequilibrium in Nellore cattle, BMC Genom., 14, 305, 10.1186/1471-2164-14-305 Farnir, 2000, Extensive genome-wide linkage disequilibrium in cattle, Genome Res., 10, 220, 10.1101/gr.10.2.220 Gabriel S.B., Schaffner S.F., Nguyen H. et al. (2002) The structure ofhaplotype blocks in the human genome. Science 296, 2225-2229. Gautier, 2007, Genetic and haplotypic structure in 14 European and African cattle breeds, Genetics, 177, 1059, 10.1534/genetics.107.075804 Gurgul, 2014, The application of genome-wide SNP genotyping methods in studies on livestock genomes, J. Appl. Genet., 55, 197, 10.1007/s13353-014-0202-4 Hayes, B., 2007. QTL Mapping, MAS and genomic selection. Materials of course. Animal Breeding and Genetics, Department of Animal Science, June 4–8, Iowa State University, USA. Hedrick, 1987, Gametic disequilibrium measures: proceed with caution, Genetics, 117, 331, 10.1093/genetics/117.2.331 Hill, 1974, Estimation of linkage disequilibrium in randomly mating populations, Heredity, 33, 229, 10.1038/hdy.1974.89 Hill, 1981, Estimation of effective population size from data on linkage disequilibrium, Genet. Res., 38, 209, 10.1017/S0016672300020553 Hill, 1968, Linkage disequilibrium in finite populations, Theor. Appl. Genet., 38, 226, 10.1007/BF01245622 Karimi, 2015, Comparison of linkage disequilibrium levels in Iranian indigenous cattle using whole genome SNPs data, J. Anim. Sci. Technol., 57, 47, 10.1186/s40781-015-0080-2 Khatkar, 2007, A primary assembly of a bovine haplotype block map based on a 15,036-single-nucleotide polymorphism panel genotyped in Holstein-Friesian cattle, Genetics, 176, 763, 10.1534/genetics.106.069369 Khatkar M.S., Collins A., Cavanagh J.A.L. et al. (2006) A firstgeneration metric linkage disequilibrium map of bovine chromosome6. Genetics 174, 79-85. Khatkar, 2008, Extent of genome-wide linkage disequilibrium in Australian Holstein-Friesian cattle based on a high-density SNP panel, BMC Genom., 9, 187, 10.1186/1471-2164-9-187 Kim, 2009, Linkage disequilibrium in the North American Holstein population, Anim. Genet., 40, 279, 10.1111/j.1365-2052.2008.01831.x Kruglyak, 1999, Prospects for whole-genome linkage disequilibrium mapping of common disease genes, Nat. Genet., 22, 139, 10.1038/9642 Lander, 1994, Genetic dissection of complex traits, Science, 265, 2037, 10.1126/science.8091226 Lewontin, 1964, The interaction of selection and linkage. I. General considerations; heterotic models, Genetics, 49, 49, 10.1093/genetics/49.1.49 Lu, 2012, Linkage disequilibrium in Angus, Charolais and Crossbred beef cattle, Front. Genet., 3, 152, 10.3389/fgene.2012.00152 Marques, 2008, High density linkage disequilibrium maps of chromosome 14 in Holstein and Angus cattle, BMC Genet., 9, 45, 10.1186/1471-2156-9-45 McKay, 2007, Whole genome linkage disequilibrium maps in cattle, BMC Genet., 8, 74, 10.1186/1471-2156-8-74 Meadows, 2008, Linkage disequilibrium compared between five populations of domestic sheep, BMC Genet., 9, 61, 10.1186/1471-2156-9-61 Meuwissen, 2001, Prediction of total genetic value using genome-wide dense marker maps, Genetics, 157, 1819, 10.1093/genetics/157.4.1819 Mokry, 2014, Linkage disequilibrium and haplotype block structure in composite beef cattle breed, BMC Genom., 15, S6, 10.1186/1471-2164-15-S7-S6 O’Brien, 2014, Linkage disequilibrium levels in Bos indicus and Bos taurus cattle using medium and high density SNP chip data and different minor allele frequency distributions, Livest. Sci., 166, 121, 10.1016/j.livsci.2014.05.007 Porto-Neto, 2014, The extent of linkage disequilibrium in beef cattle breeds using high-density SNP genotypes, Genet. Sel. Evol., 46, 22, 10.1186/1297-9686-46-22 Pritchard, 2001, Linkage disequilibrium in humans: models and data, Am. J. Hum. Genet., 69, 1, 10.1086/321275 Purcell, 2007, PLINK: a tool set for whole-genome association and population based linkage analyses, Am. J. Hum. Genet., 81, 559, 10.1086/519795 Qanbari, 2010, The pattern of linkage disequilibrium in German Holstein cattle, Anim. Genet., 41, 346 Sargolzaei M., Schenkel F. S., Jansen G. B., Schaeffer L. R. (2008). Extent of linkage disequilibrium in Holstein cattle in North America. J. Dairy Sci. 91, 2106-2117 10.3168/jds.2007-0553 Slatkin, 2008, Linkage disequilibrium – understanding the evolutionary past and mapping the medical future, Nat. Rev. Genet., 9, 477, 10.1038/nrg2361 Spelman, R. J., and W. Coppieters, 2006. Linkage disequilibrium in the New Zealand Jersey population. Proceedings of the 8th World Congress on Genetics Applied to Livestock Production, Belo Horizonte, Brazil, August 13-18, 2006. CD-ROM communication no. 22-21. Villa-Angulo, 2009, High-resolution haplotype block structure in the cattle genome, BMC Genet., 10, 19, 10.1186/1471-2156-10-19 Watanabe, 2008, Linkage disequilibrium in cattle and their application to breed identification testing, Anim. Genet., 39, 374, 10.1111/j.1365-2052.2008.01742.x Zhu, 2013, Linkage disequilibrium estimation of chinese beef simmental cattle using high-density SNP panels, Asian Australas. J. Anim. Sci., 26, 772, 10.5713/ajas.2012.12721