Wright S. Coefficients of inbreeding and relationship. Am Nat. 1922;56:330–8.
Article
Google Scholar
Gonzalez-Recio O, de Maturana EL, Gutierrez JP. Inbreeding depression on female fertility and calving ease in Spanish dairy cattle. J Dairy Sci. 2007;90(12):5744–52.
Article
CAS
PubMed
Google Scholar
Margolin S, Bartlett JW. The influence of inbreeding upon the weight and size of dairy cattle. J Anim Sci. 1945;4(1):3–12.
Google Scholar
Miglior F, Szkotnicki B, Burnside EB. Analysis of levels of inbreeding and inbreeding depression in Jersey cattle. J Dairy Sci. 1992;75(4):1112–8.
Article
CAS
PubMed
Google Scholar
Nomura T, Honda T, Mukai F. Inbreeding and effective population size of Japanese black cattle. J Anim Sci. 2001;79(2):366–70.
CAS
PubMed
Google Scholar
Smith LA, Cassell BG, Pearson RE. The effects of inbreeding on the lifetime performance of dairy cattle. J Dairy Sci. 1998;81(10):2729–37.
Article
CAS
PubMed
Google Scholar
Sorensen AC, Sorensen MK, Berg P. Inbreeding in Danish dairy cattle breeds. J Dairy Sci. 2005;88(5):1865–72.
Article
CAS
PubMed
Google Scholar
Szpiech ZA, Xu JS, Pemberton TJ, Peng WP, Zollner S, Rosenberg NA, et al. Long runs of homozygosity are enriched for deleterious variation. Am J Hum Genet. 2013;93(1):90–102.
Article
CAS
PubMed Central
PubMed
Google Scholar
Bjelland DW, Weigel KA, Vukasinovic N, Nkrumah JD. Evaluation of inbreeding depression in Holstein cattle using whole-genome SNP markers and alternative measures of genomic inbreeding. J Dairy Sci. 2013;96(7):4697–706.
Article
CAS
PubMed
Google Scholar
Leroy G. Inbreeding depression in livestock species: review and meta-analysis. Anim Genet. 2014;45(5):618–28.
Article
CAS
PubMed
Google Scholar
Charlesworth D, Charlesworth B. Inbreeding depression and its evolutionary consequences. Annu Rev Ecol Syst. 1987;18:237–68.
Article
Google Scholar
Wright S. Systems of mating. II. The effects of inbreeding on the genetic composition of a population. Genetics. 1921;6(2):124–43.
CAS
PubMed Central
PubMed
Google Scholar
Pusey A, Wolf M. Inbreeding avoidance in animals. Trends Ecol Evol. 1996;11(5):201–6.
Article
CAS
PubMed
Google Scholar
Weigel K. Controlling inbreeding in modern dairy breeding programs. Adv Dairy Technol. 2006;18:263–74.
Google Scholar
Mc Parland S, Kearney JF, Rath M, Berry DP. Inbreeding trends and pedigree analysis of Irish dairy and beef cattle populations. J Anim Sci. 2007;85(2):322–31.
Article
CAS
PubMed
Google Scholar
Blackwell BF, Doerr PD, Reed JM, Walter JR. Inbreeding rate and effective population-size - a comparison of estimates from pedigree analysis and a demographic-model (Vol 71, Pg 299, 1995). Biol Conserv. 1995;72(3):407.
Google Scholar
Meuwissen THE, Luo Z. Computing inbreeding coefficients in large populations. Genet Sel Evol. 1992;24(4):305–13.
Article
PubMed Central
Google Scholar
Cassell BG, Adamec V, Pearson RE. Effect of incomplete pedigrees on estimates of inbreeding and inbreeding depression for days to first service and summit milk yield in Holsteins and Jerseys. J Dairy Sci. 2003;86(9):2967–76.
Article
CAS
PubMed
Google Scholar
Vanraden PM. Accounting for inbreeding and crossbreeding in genetic evaluation of large populations. J Dairy Sci. 1992;75(11):3136–44.
Article
Google Scholar
McQuillan R, Leutenegger AL, Abdel-Rahman R, Franklin CS, Pericic M, Barac-Lauc L, et al. Runs of homozygosity in European populations. Am J Hum Genet. 2008;83(3):359–72.
Article
CAS
PubMed Central
PubMed
Google Scholar
Broman KW, Weber JL. Long homozygous chromosomal segments in reference families from the Centre d’Etude du polymorphisme humain. Am J Hum Genet. 1999;65(6):1493–500.
Article
CAS
PubMed Central
PubMed
Google Scholar
Marras G, Gaspa G, Sorbolini S, Dimauro C, Ajmone-Marsan P, Valentini A, et al: Analysis of runs of homozygosity and their relationship with inbreeding in five cattle breeds farmed in Italy. Anim Genet. 2015;46(2):110-121.
Bosse M, Megens HJ, Madsen O, Paudel Y, Frantz LA, Schook LB, et al. Regions of homozygosity in the porcine genome: consequence of demography and the recombination landscape. PLoS Genet. 2012;8(11):e1003100.
Article
CAS
PubMed Central
PubMed
Google Scholar
Ferencakovic M, Solkner J, Curik I. Estimating autozygosity from high-throughput information: effects of SNP density and genotyping errors. Genet Sel Evol. 2013;45:42.
Article
PubMed Central
PubMed
Google Scholar
Keller MC, Visscher PM, Goddard ME. Quantification of inbreeding due to distant ancestors and its detection using dense single nucleotide polymorphism data (vol 189, pg 237, 2011). Genetics. 2012;190(1):283.
Google Scholar
Kirin M, McQuillan R, Franklin CS, Campbell H, McKeigue PM, Wilson JF. Genomic runs of homozygosity record population history and consanguinity. Plos One. 2010;5(11):e13996.
Article
PubMed Central
PubMed
Google Scholar
Ku CS, Naidoo N, Teo SM, Pawitan Y. Regions of homozygosity and their impact on complex diseases and traits. Hum Genet. 2011;129(1):1–15.
Article
PubMed
Google Scholar
Li JZ, Absher DM, Tang H, Southwick AM, Casto AM, Ramachandran S, et al. Worldwide human relationships inferred from genome-wide patterns of variation. Science. 2008;319(5866):1100–4.
Article
CAS
PubMed
Google Scholar
Charlesworth B, Morgan MT, Charlesworth D. The effect of deleterious mutations on neutral molecular variation. Genetics. 1993;134(4):1289–303.
CAS
PubMed Central
PubMed
Google Scholar
Ferencakovic M, Hamzic E, Gredler B, Solberg TR, Klemetsdal G, Curik I, et al. Estimates of autozygosity derived from runs of homozygosity: empirical evidence from selected cattle populations. J Anim Breed Genet. 2013;130(4):286–93.
Article
CAS
PubMed
Google Scholar
Purfield DC, Berry DP, McParland S, Bradley DG. Runs of homozygosity and population history in cattle. BMC Genet. 2012;13:70.
Article
CAS
PubMed Central
PubMed
Google Scholar
MacLeod IM, Larkin DM, Lewin HA, Hayes BJ, Goddard ME. Inferring demography from runs of homozygosity in whole-genome sequence, with correction for sequence errors. Mol Biol Evol. 2013;30(9):2209–23.
Article
CAS
PubMed Central
PubMed
Google Scholar
Wright S. Genetics of populations. Encyclopaedia Britannica. 1948;10:111-A-D-112.
Google Scholar
Andersen B, Jensen B, Nielsen A, Christensen LG, Liboriussen T. Rød Dansk Malkerace-avlsmæssigt of kulturhistorisk belyst. Denmark: Danmarks HordbrugsForskning; 2003.
Ewing B, Hillier L, Wendl MC, Green P. Base-calling of automated sequencer traces using phred. I. Accuracy assessment. Genome Res. 1998;8(3):175–85.
Article
CAS
PubMed
Google Scholar
McKenna A, Hanna M, Banks E, Sivachenko A, Cibulskis K, Kernytsky A, et al. The genome analysis toolkit: a mapreduce framework for analyzing next-generation DNA sequencing data. Genome Res. 2010;20:1297–303.
Article
CAS
PubMed Central
PubMed
Google Scholar
Hoglund JK, Sahana G, Guldbrandtsen B, Lund MS. Validation of associations for female fertility traits in Nordic Holstein, Nordic Red and Jersey dairy cattle. BMC Genet. 2014;15:8.
Article
PubMed Central
PubMed
Google Scholar
Quaas RL. Computing the diagonal elements and inverse of a large numerator relationship matrix. Biometrics. 1976;32:949–953.
Strandén I, Vuori K: Relax2: pedigree analyses program. Proceedings of the 8th WCGALP. Belo Horizonte, MG, Brazil: Instituto Prociência; 2006.
VanRaden PM. Efficient methods to compute genomic predictions. J Dairy Sci. 2008;91(11):4414–23.
Article
CAS
PubMed
Google Scholar
Yang JA, Lee SH, Goddard ME, Visscher PM. GCTA: a tool for genome-wide complex trait analysis. Am J Hum Genet. 2011;88(1):76–82.
Article
CAS
PubMed Central
PubMed
Google Scholar
Purcell S, Neale B, Todd-Brown K, Thomas L, Ferreira MAR, Bender D, et al. PLINK: a tool set for whole-genome association and population-based linkage analyses. Am J Hum Genet. 2007;81(3):559–75.
Article
CAS
PubMed Central
PubMed
Google Scholar
Pryce JE, Haile-Mariam M, Goddard ME, Hayes BJ. Identification of genomic regions associated with inbreeding depression in Holstein and Jersey dairy cattle. Genet Sel Evol. 2014;46(1):71.
Article
PubMed Central
PubMed
Google Scholar
Arias JA, Keehan M, Fisher P, Coppieters W, Spelman R. A high density linkage map of the bovine genome. BMC Genet. 2009;10:18.
Article
PubMed Central
PubMed
Google Scholar
Ramey HR, Decker JE, McKay SD, Rolf MM, Schnabel RD, Taylor JF. Detection of selective sweeps in cattle using genome-wide SNP data. BMC Genomics. 2013;14:382.
Article
CAS
PubMed Central
PubMed
Google Scholar