See https://www.purdue.edu/captivebreeding/ for our site devoted specifically to captive breeding. We have used empirical data and theoretical approaches to study the distribution and maintenance of genetic diversity for conservation purposes:
Glaubitz J.C., Rhodes O.E. & DeWoody J.A. (2003) Prospects for inferring pairwise relationships with single nucleotide polymorphisms (SNPs). Molecular Ecology 12:1039-1048.
DeWoody Y.D. & DeWoody J.A. (2005) On the estimation of genome-wide heterozygosity using molecular markers. Journal of Heredity 96:85-88.
Rudnick J.A., Miller A., Lacy R.C. & DeWoody J.A. (2009) Methods and prospects for using molecular data in the genetic management of populations: an empirical example using parma wallabies (Macropus parma). Journal of Heredity 100:441-454.
Willoughby J.R., Fernandez N.B., Lamb M.C., Ivy J., Lacy R. & DeWoody J.A. (2015) The impacts of inbreeding, drift, and selection on genetic diversity in captive breeding populations. Molecular Ecology 24:98-110.
Doyle J.M., Hacking C.C, Willoughby J.R., Sundaram M. & DeWoody J.A. (2015) Mammalian genetic diversity as a function of habitat, body size, trophic class, and conservation status. Journal of Mammalogy 96:564-572.
Willoughby J.R., Sundaram M., Wijayawardena B.K., Lamb M.C., Kimble S.J.A., Ji Y., Fernandez N.B., Antonides J.D., Marra N.J. & DeWoody J.A. (2015) The reduction of genetic diversity in threatened vertebrates and new recommendations regarding effective population size and IUCN conservation rankings. Biological Conservation 191:495-503.
Willoughby J.R., Ivy J.A., Lacy R.C., Doyle J.M. & DeWoody J.A. (2017) Inbreeding and selection shape genomic diversity in captive populations: implications for the conservation of endangered species. PLoS ONE DOI: 10.1371/journal.pone.0175996
Abts K.C., Ivy J.A. & DeWoody J.A. (2018) Behavioral, environmental, and genetic determinants of mating success in captive koalas (Phascolarctos cinereus). Zoo Biology 37:416-433.