Alfonso, L, Parada, A, Legarra, A, Ugarte, E, Arana, A 2006. The effects of selective breeding against scrapie susceptibility on the genetic variability of the Latxa Black-Faced sheep breed. Genetics Selection Evolution 38, 495–511.
Ballou, JD, Lacy, RC 1995. Identifying genetically important individuals for management of genetic variation in pedigreed populations. In Population management for survival and recovery. Analytical methods and strategies in small population conservation (ed. JD Ballou, M Gilpin and TJ Foose), pp. 76–111. Columbia University Press, New York.
Bennewitz, J, Meuwissen, THE 2005a. Estimation of extinction probabilities of five German cattle breeds by population viability analysis. Journal of Dairy Science 88, 2949–2961.
Bennewitz, J, Meuwissen, THE 2005b. A novel method for the estimation of the relative importance of breeds in order to conserve the total genetic variance. Genetic Selection Evolution 37, 315–337.
Bennewitz, J, Simianer, H, Meuwissen, THE 2008. Investigations on merging breeds in genetic conservation schemes. Journal of Dairy Science 91, 2512–2519.
Berg, P, Nielsen, J, Sørensen, MK 2006. Computing realized and predicting optimal genetic contributions by EVA, 8th edition. WCGALP, Belo Horizonte, Brazil.
Bijma, P, Van Arendonk, JA, Woolliams, JA 2001. Predicting rates of inbreeding for livestock improvement schemes. Journal of Animal Science 79, 840–853.
Borlase, SC, Loebel, DA, Frankham, R, Nurthen, RK, Briscoe, DADaggard, GE 1993. Modeling problems in conservation genetics using captive Drosophila populations: consequences of equalization of family sizes. Conservation Biology 7, 122–131.
Brisbane, JR, Gibson, JP 1995. Balancing selection response and rate of inbreeding by including relationships in selection decisions. Theoretical and Applied Genetics 91, 421–431.
Caballero, A 1994. Developments in the prediction of effective population size. Heredity 73, 657–679.
Caballero, A, Toro, MA 2000. Interrelations between effective population size and other pedigree tools for the management of conserved populations. Genetical Research 75, 331–343.
Caballero, A, Santiago, E, Toro, MA 1996. System of mating to reduce inbreeding in selected populations. Animal Science 62, 431–442.
Colleau, JJ, Avon, L 2008. Sustainable long-term conservation of rare cattle breeds using rotational AI sires. Genetics Selection Evolution 40, 415–432.
Daetwyler, HD, Villanueva, B, Bijma, P, Woolliams, JA 2007. Inbreeding in genome-wide selection. Journal of Animal Breeding and Genetics 124, 369–376.
De Cara, MAR, Fernández, J, Toro, MA, Villanueva, B 2011. Using genome-wide information for the management of populations in conservation programmes. Journal of Animal Breeding and Genetics (submitted).
Doyle, RW, Herbinger, CM 1994. The use of DNA fingerprinting for high-intensity, within-family selection in fish breeding. Proceedings of the 5th World Congress on Genetics Applied to Livestock Production, vol. 19, Guelph, Ontario, Canada, pp. 364–371.
Falconer, DS, Mackay, TFC 1996. An introduction to quantitative genetics, 4th edition. Longman, Harlow.
Fernández, J, Caballero, A 2001. A comparison of management strategies for conservation with regard to population fitness. Conservation Genetics 2, 121–131.
Fernández, J, Toro, MA 1999. The use of mathematical programming to control inbreeding in selection schemes. Journal of Animal Breeding and Genetics 116, 447–466.
Fernández, J, Toro, MA 2006. A new method to estimate relatedness from molecular markers. Molecular Ecology 15, 1657–1667.
Fernández, J, Toro, MA, Caballero, A 2001. Practical implementation of optimal management strategies in conservation programmes: a mate selection method. Animal Biodiversity and Conservation 24.2, 17–24.
Fernández, J, Toro, MA, Caballero, A 2003. Fixed contributions designs versus minimization of global coancestry to control inbreeding in small populations. Genetics 165, 885–894.
Fernández, J, Toro, MA, Caballero, A 2008. Management of subdivided populations in conservation programs: development of a novel dynamic system. Genetics 179, 683–692.
Fernández, J, Villanueva, B, Pong-Wong, R, Toro, MA 2005. Efficiency of the use of molecular markers in conservation programmes. Genetics 170, 1313–1321.
Gjerde, B, Gjøen, HM, Villanueva, B 1996. Optimum designs for fish breeding programmes with constrained inbreeding mass selection for a normally distributed trait. Livestock Production Science 47, 59–72.
Gowe, RS, Robertson, A, Latter, BDH 1959. Environment and poultry breeding problems. 5. The design of poultry strains. Poultry Science 38, 462–471.
Grundy, B, Villanueva, B, Woolliams, JA 1998. Dynamic selection procedures for constrained inbreeding and their consequences for pedigree development. Genetical Research 72, 159–168.
Grundy, B, Caballero, A, Santiago, E, Hill, WG 1994. A note on using biased parameter values and non-random mating to reduce rates of inbreeding in selection programmes. Animal Production 59, 465–468.
Henderson, CR 1975. Best linear unbiased estimation and prediction under a selection model. Biometrics 31, 423–439.
Henryon, M, Sørensen, AC, Berg, P 2009. Mating animals by minimising the covariance between ancestral contributions generates less inbreeding without compromising genetic gain in breeding schemes with truncation selection. Animal 3, 1339–1346.
Honda, T, Nomura, T, Mukai, F 2004. Reduction of inbreeding in commercial females by rotational mating with several sire lines. Genetics Selection Evolution 36, 509–526.
Kimura, M, Crow, JF 1963. On the maximum avoidance of inbreeding. Genetical Research 4, 399–415.
Klieve, HM, Kinghorn, BP, Barwick, SA 1994. The joint regulation of genetic gain and inbreeding under mate selection. Journal of Animal Breeding and Genetics 111, 81–88.
Lindgren, D 1991. Optimal utilization of genetic resources. Forest Tree Improvement 23, 49–67.
Loebel, DA, Nurthen, RK, Frankham, R, Briscoe, DA, Craven, D 1992. Modeling problems in conservation genetics using captive Drosophila populations: consequences of equalizing founder representation. Zoo Biology 11, 319–332.
Martínez, P, Fernández, J 2008. Estimating parentage relationships using molecular markers in aquaculture. In Aquaculture research trends (ed. SH Schwartz), pp. 59–112. Nova Science Publishers, Inc., New York.
Martínez, V, Kause, A, Mäntysaari, E, Mäki-Tanila, A 2006. The use of alternative breeding schemes to enhance genetic improvement in rainbow trout (Oncorhynchus mykiss): I. One-stage selection. Aquaculture 254, 182–194.
Meuwissen, THE 1997. Maximizing the response of selection with a predefined rate of inbreeding. Journal of Animal Science 75, 934–940.
Meuwissen, THE 2002. Gencont: an operational tool for controlling inbreeding in selection and conservation schemes. Proceedings of the 7th World Congress on Genetics Applied to Livestock Production, Montpellier, France, August 2002, Session 28.
Meuwissen, THE 2007. Operation of conservation schemes. In Utilisation and conservation of farm animal genetic resources (ed. K Oldenbroek), pp. 167–193. Wageningen Academic Publishers, The Netherlands.
Meuwissen, THE 2009. Towards consensus on how to measure neutral genetic diversity? Journal of Animal Breeding and Genetics 126, 333–334.
Meuwissen, THE, Sonesson, AK 1998. Maximizing the response of selection with a predefined rate of inbreeding: overlapping generations. Journal of Animal Science 76, 2575–2583.
Meuwissen, THE, Hayes, BJ, Goddard, ME 2001. Prediction of total genetic value using genome-wide dense marker maps. Genetics 157, 1819–1829.
Montgomery, M, Ballou, JD, Nurthen, RK, England, P, Briscoe, D, Frankham, R 1997. Minimizing kinship in captive breeding programs. Zoo Biology 16, 377–389.
Nieto, B, Salgado, C, Toro, MA 1986. Optimization of artificial selection response. Journal of Animal Breeding and Genetics 103, 199–204.
Oliehoek, PA, Windig, JJ, van Arendonk, JA, Bijma, P 2006. Estimating relatedness between individuals in general populations with a focus on their use in conservation programs. Genetics 173, 483–496.
Oyama, K, Nojima, M, Shojo, M, Fukushima, M, Anada, K, Mukai, F 2007. Effect of sire mating patterns on future genetic merit and inbreeding in a closed beef cattle population. Journal of Animal Breeding and Genetics 124, 73–80.
Pérez-Enciso, M, Fernando, RL 1992. Genetic evaluation with uncertain parentage: a comparison of methods. Theoretical and Applied Genetics 84, 173–179.
Pérez-Figueroa, A, Saura, M, Fernández, J, Toro, MA, Caballero, A 2009. METAPOP – a software for the management and analysis of subdivided populations in conservation programs. Conservation Genetics 10, 1097–1099.
Rodríguez-Ramilo, ST, Morán, P, Caballero, A 2006. Relaxation of selection with equalization of parental contributions in conservation programs: an experimental test with Drosophila melanogaster. Genetics 172, 1043–1054.
Sánchez, L, Toro, MA, García, C 1999. Improving the efficiency of artificial selection: more selection pressure with less inbreeding. Genetics 151, 1103–1114.
Sánchez, L, García, C, Lomas, J, Moreno, A, Nieto, B, Piqueras, J, Salgado, C, Toro, MA 2002. Lab experiments on optimum contribution selection. Proceedings of the 7th World Congress on Genetics Applied to Livestock Production, Montpellier, France, August 2002, Session 19.
Sánchez-Rodríguez, L, Bijma, P, Woolliams, JA 2003. Reducing inbreeding rates by managing genetic contributions across generations. Genetics 164, 1589–1595.
Santiago, E, Caballero, A 2000. Application of reproductive technologies to the maintenance of genetic resources. Conservation Biology 14, 1831–1836.
Simianer, H, Marti, S, Gibson, J, Hanotte, O, Rege, J 2003. An approach to the optimal allocation of conservation funds to minimise losses of genetic diversity between livestock breeds. Ecological Economics 45, 377–392.
Sonesson, AK 2005. A combination of walk-back and optimum contribution selection in fish: a simulation study. Genetics Selection Evolution 37, 587–599.
Sonesson, AK, Meuwissen, THE 2000. Mating schemes for optimum contribution selection with constrained rates of inbreeding. Genetics Selection Evolution 32, 231–248.
Sonesson, AK, Meuwissen, THE 2002. Non-random mating for selection with restricted rates of inbreeding and overlapping generations. Genetics Selection Evolution 34, 1–17.
Sonesson, AK, Goddard, ME, Meuwissen, THE 2002. The use of frozen semen to minimise inbreeding in small populations. Genetical Research 80, 27–30.
Toro, MA, Nieto, B 1984. A simple method for increasing the response to artificial selection. Genetical Research 44, 347–349.
Toro, MA, Pérez-Enciso, M 1990. Optimization of selection response under restricted inbreeding. Genetics Selection Evolution 22, 93–107.
Toro, MA, Nieto, BM, Salgado, C 1988. A note on minimisation of inbreeding in small scale breeding programmes. Livestock Production Science 20, 317–323.
Toro, MA, Silió, L, Pérez-Enciso, M 1991. A note on the use of mate selection in closed MOET breeding schemes. Animal Production 53, 403–406.
Toro, MA, Fernández, J, Caballero, A 2009. Molecular characterization of breeds and its use in conservation. Livestock Science 120, 174–195.
Toro, MA, Silió, L, Rodríguez, MC, Rodrigáñez, J, Fernández, J 1999. Optimal use of genetic markers in conservation programmes. Genetics Selection Evolution 31, 255–261.
Toro, MA, Meuwissen, THE, Fernández, J, Shaat, I, Mäki-Tanila, A 2011. Assessing the genetic diversity in small farm animal populations. Animal, doi:10.1017/S1751731111000498.
Toro, MA, Barragán, C, Óvilo, C, Rodrigáñez, J, Rodriguez, C, Silió, L 2002. Estimation of coancestry in Iberian pigs using molecular markers. Conservation Genetics 3, 309–320.
Townsend, SJ 2004. UK rare breeds: population genetics analyses and implications for applied conservation. In Farm animal genetic resources (ed. G Simm, B Villanueva, KD Sinclair and S Townsend), pp. 113–132. Nottingham University Press, Nottingham, UK.
Villanueva, B, Woolliams, JA, Simm, G 1994. Strategies for controlling rates of inbreeding in MOET nucleus schemes for beef cattle. Genetics Selection Evolution 26, 517–535.
Villanueva, B, Pong-Wong, R, Woolliams, JA, Avendaño, S 2004. Managing genetic resources in selected and conserved populations. In Farm animal genetic resources (ed. G Simm, B Villanueva, KD Sinclair and S Townsend), pp. 113–132. Nottingham University Press, Townsend.
Wang, J 1997. More efficient breeding systems for controlling inbreeding and effective size in animal populations. Heredity 79, 591–599.
Wang, J 2001. Optimal marker-assisted selection to increase the effective size of small populations. Genetics 157, 867–874.
Wang, J, Caballero, A 1999. Developments in predicting the effective size of subdivided populations. Heredity 82, 212–226.
Wei, RP, Lindgren, D 1995. Optimal family contributions and a linear approximation. Theoretical Population Biology 48, 318–332.
Weigel, KA, Lin, SW 2002. Controlling inbreeding by constraining the average relationship between parents of young bulls entering AI progeny test programs. Journal of Dairy Science 85, 2376–2383.
Windig, JJ, Kaal, L 2008. An effective rotational mating scheme for inbreeding reduction in captive populations illustrated by the rare sheep breed Kempisch Heideschaap. Animal 2, 1733–1741.
Woolliams, JA 1989. Modifications to MOET nucleus breeding schemes to improve rates of genetic progress and decrease rates of inbreeding in dairy-cattle. Animal Production 49, 1–14.
Woolliams, JA, Bijma, P 2000. Predicting rates of inbreeding in populations undergoing selection. Genetics 154, 1851–1864.
Wray, NR, Goddard, ME 1994. Increasing long-term response to selection. Genetics Selection Evolution 26, 431–451.
Wright, S 1921. Systems of mating. Genetics 6, 111–178.