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Original Articles

Segment-based coancestry, additive relationship and genetic variance within and between the Norwegian and the Swedish Fjord horse populations

ORCID Icon, , , &
Pages 118-126 | Received 16 Oct 2019, Accepted 17 Dec 2019, Published online: 04 Feb 2020

References

  • Berg, P., Nielsen, J. & Sørensen, M. K. (2006). EVA: Realized and predicted optimal genetic contributions. Proceedings of the 8th World Congress on Genetics Applied to Livestock Production, August 13–18, Belo Horizonte, Minas Gerais, Brazil.
  • Bhatnagar, A. S., East, C. M. & Splan, R. K. (2011). Genetic variability of the Norwegian Fjord horse in North-America. Anim. Genet. Resour./Resources génétiques animals/Recursos genéticos animals 49, 43–49. doi: 10.1017/S2078633611000105
  • Boichard, D., Maignel, L., & Verrier, É. (1997). The value of using probabilities of gene origin to measure genetic variability in a population. Genet. Sel. Evol. 29, 5–23. doi: 10.1186/1297-9686-29-1-5
  • Bosse, M., Megens, H. J., Madsen, O., Crooijmans, R. P., Ryder, O. A., Austerlitz, F., Groenen, M. A. M. & Cara, M. Á. R. (2015). Using genome-wide measures of coancestry to maintain diversity and fitness in endangered and domestic pig populations. Genome Res. 25 (7), 970–981. doi: 10.1101/gr.187039.114
  • Broman, K. W. & Weber, J. L. (1999). Long homozygous chromosomal segments in reference families from the Centre d’Etude du Polymorphisme Humain. Am. J. Hum. Genet. 65 (6), 1496–1500. doi: 10.1086/302661
  • Browning, B. L. & Browning, S. R. (2013). Improving the accuracy and efficiency of identity-by-descent detection in population data. Genetics 194 (2), 459–471. doi: 10.1534/genetics.113.150029
  • Cara, M. Á. R., Fernández, J., Toro, M. A. & Villanueva, B. (2011). Using genome-wide information to minimize the loss of genetic diversity in conservation programmes. J. Anim. Breed. Genet. 128 (6), 456–464. doi: 10.1111/j.1439-0388.2011.00971.x
  • Cara, M. Á. R., Fernández, J., Toro, M. A. & Villanueva, B. (2013). Using genomic tools to maintain diversity and fitness in conservation programmes. Mol. Ecol. 22 (24), 6091–6099. doi: 10.1111/mec.12560
  • Clark, S. A., Kinghorn, B. P., Hickey, J. M., & van der Werf, J. H. (2013). The effect of genomic information on optimal contribution selection in livestock breeding programs. Genet. Sel. Evol. 45 (1), 44. doi: 10.1186/1297-9686-45-44
  • Dahle, H. K. (2006). Fjordhesten i Noreg (The Fjord Horse in Norway) (Oslo: Landbruksforlaget/Tun Forlag AS), p. 170.
  • Druml, T., Neuditschko, M., Grilz-Seger, G., Horna, M., Ricard, A., Mesarič, M., Cotman, M., Pausch, H. & Brem, G. (2017). Population networks associated with runs of homozygosity reveal new insights into the breeding history of the Haflinger horse. J. Hered. 109 (4), 384–392. doi: 10.1093/jhered/esx114
  • Falconer, D. S. & Mackay, T. F. C. (1996). Introduction to Quantitative Genetics (4th ed) (Essex: Longman Group), p. 464.
  • FHI 2017. Accessed 10 April 2017, available at: http://www.fjordhorseinternational.org/FjHI/index.php/homepage/goal
  • Furre, S. (2016). Status for the Norwegian horse breeds. Internal Report, Norwegian Equine Centre, Starum, Lena. 6 pp. (In Norwegian).
  • Gómez-Romano, F., Villanueva, B., Cara, M. Á. R. & Fernández, J. (2013). Maintaining genetic diversity using molecular coancestry: the effect of marker density and effective population size. Genet. Sel. Evol. 45 (1), 38. doi: 10.1186/1297-9686-45-38
  • Gómez-Romano, F., Villanueva, B., Sölkner, J., Cara, M. Á. R., Mészáros, G., Pérez O’Brien, A. M. & Fernández, J. (2016). The use of coancestry based on shared segments for maintaining genetic diversity. J. Anim. Breed. Genet. 133 (5), 357–365. doi: 10.1111/jbg.12213
  • Gusev, A., Lowe, J. K., Stoffel, M., Daly, M. J., Altshuler, D., Breslow, J. L. & Péer, I. (2009). Whole population, genome-wide mapping of hidden relatedness. Genome Res. 19 (2), 318–326. doi: 10.1101/gr.081398.108
  • Hugason, K. (1994). Breeding of Icelandic toelter horses: an overview. Livest. Prod. Sci. 40, 21–29. doi: 10.1016/0301-6226(94)90262-3
  • Kamiński, S., Hering, D. M., Jaworski, Z., Zabolewicz, T. & Ruść, A. (2017). Assessment of genomic inbreeding in Polish Konik horses. Pol. J. Vet. Sci. 20 (3), 603–605. doi: 10.1515/pjvs-2017-0074
  • Kättström, H. (2019). The Fjord horse – before and now. The Swedish Fjord Horse Association. Accessed 30 June 2019, available at: http://fjordhastforeningen.se/fjordhasten/historik.html (In Swedish).
  • Khansour, A.M. (2013). Genetic diversity and population structure of the Arabian horse population from Syria and other countries. Doctoral dissertation. Accessed 7 August 2019, available at: http://hdl.handle.net/1969.1/151156
  • Klemetsdal, G. (1999). Stochastic simulation of sire selection strategies in North-Swedish and Norwegian coldblooded trotters. Livest. Prod. Sci. 57, 219–229. doi: 10.1016/S0301-6226(98)00177-8
  • Li, M-H., Strandén, I., Tiirikka, T., Sevón-Aimonen, M-J., Kantanen, J. (2011). A comparison of approaches to estimate the inbreeding coefficient and pairwise relatedness using genomic and pedigree data in a sheep population. PLoS One 6 (11), 1–9, e26256.
  • Mastrangelo, S., Saura, M., Tolone, M., Salces-Ortiz, J., Di Gerlando, R., Bertolini, F., Fontanesi, L., Sardina, M. T., Serrano, M. & Portolano, B. (2014). The genome-wide structure of two economically important indigenous Sicilian cattle breeds. J. Anim. Sci. 92 (11), 4833–4842. doi: 10.2527/jas.2014-7898
  • Metzger, J., Karwath, M., Tonda, R., Beltran, S., Águeda, L., Gut, M., Gut, I. G., & Distl, O. (2015). Runs of homozygosity reveal signatures of positive selection for reproduction traits in breed and non-breed horses. BMC Genomics 16 (1), 764. doi: 10.1186/s12864-015-1977-3
  • Meuwissen, T. H. E. (1997). Maximising the response of selection with a predefined rate of inbreeding. J. Anim. Sci. 75, 934–940. doi: 10.2527/1997.754934x
  • Meuwissen, T. H. E. & Woolliams, J. (1994). Effective sizes of livestock populations to prevent a decline in fitness. Theor. Appl. Genet. 89, 1019–1026. doi: 10.1007/BF00224533
  • Nestaas, T. (2010). Fjordhesten gjennom tidene (2nd ed). Norges Fjordhestlag, Nordfjordeid, p. 72. (In Norwegian).
  • Olsen, H. F., Klemetsdal, G. (2010). Management to ensure effective population size in a breeding programme for the small, Norwegian horse breeds – a simulation study. Acta Agric. Scand. Sect. A 60, 60–63.
  • Olsen, H. F., Klemetsdal, G., Ruane J. R. & Helfjord, T. (2010). Pedigree structure and genetic variation in the two endangered Norwegian horse breeds: Døle and Nordland/Lyngen. Acta Agric. Scand. Sect. A 60, 13–22.
  • Pérez-Enciso, M. (1995). Use of the uncertain relationship matrix to compute effective population size. J. Anim. Breed. Genet. 112, 327–332. doi: 10.1111/j.1439-0388.1995.tb00574.x
  • Peripolli, E., Munari, D. P., Silva, M. V. G. B., Lima, A. L. F., Irgang, R., Baldi, F. (2017). Runs of homozygosity: current knowledge and applications in livestock. Anim. Genet. 48 (3), 255–271. doi: 10.1111/age.12526
  • Petersen, J. L., Mickelson, J. R., Cothran, E. G., Andersson, L. S., Axelsson, J., Bailey, E., … McCue, M. E. (2013). Genetic diversity in the modern horse illustrated from genome-wide SNP data. PLOS One, 8 (1), 1–15, e54997. doi: 10.1371/journal.pone.0054997
  • Purcell, S., Neale, B., Todd-Brown, K., Thomas, L., Ferreira, A. R., Bender, D., … Sham, P. C. (2007). PLINK: a tool set for whole-genome association and population-based linkage analysis. Am. J. Hum. Genet. 81, 559–575. doi: 10.1086/519795
  • Rodríguez-Ramilo, S. T., Fernández, J., Toro, M. A., Hernández, D. & Villanueva, B. (2015). Genome-wide estimates of coancestry, inbreeding and effective population size in the Spanish Holstein population. PLOS One. doi:10.1371/journal.pone.0124157.
  • Saura, M., Fernández, A., Rodriguez, M. C., Toro, M. A., Barragán, C., Fernández, A. I. (2013). Genome-wide estimates of coancestry and inbreeding in a closed herd of ancient Iberian pigs. PLoS One, 8 (10), 1–7, e78314. doi: 10.1371/journal.pone.0078314
  • Seterlund, W., Rolstad, A., Kristiansen, O. & Flatla, L. (1989). Nye regler og rutiner for registrering og stambokføring av hest. Statens fagtjenester for landbruket, Oslo, 33 pp. (In Norwegian)
  • Sinnwell, J. P., Thernau, T. M. & Schaid, D. J. (2014). The kinship2 R package for pedigree data. Human Hered. 78 (2), 91–93. doi: 10.1159/000363105
  • Sonesson, A. K. & Meuwissen, T. H. E. (2001). Minimization of rate of inbreeding for small populations with overlapping generations. Genet. Res. (Cambridge) 77, 285–292. doi: 10.1017/S0016672301005079
  • Toro, M. A., Villanueva, B. & Fernández, J. (2014). Genomics applied to management strategies in conservation programmes. Livest. Sci. 166, 48–53. doi: 10.1016/j.livsci.2014.04.020