Novel harmful recessive haplotypes for reproductive traits in pigs

Journal of Animal Breeding and Genetics

Volumn 134, Issue 2, 2017, Pages 129-135

  Haggman J ^a   Uimari, P ^a  

^a UNIVERSITY OF HELSINKI   (Finland)

Author keywords

Haplotype; lethal effect; stillbirth; swine

Indexed keywords

ANIMAL; CHROMOSOME; GENETICS; GENOME-WIDE ASSOCIATION STUDY; HAPLOTYPE; LETHAL GENE; PIG; RECESSIVE GENE; REPRODUCTION; SINGLE NUCLEOTIDE POLYMORPHISM;

ANIMALS; CHROMOSOMES, MAMMALIAN; GENES, LETHAL; GENES, RECESSIVE; GENOME-WIDE ASSOCIATION STUDY; HAPLOTYPES; POLYMORPHISM, SINGLE NUCLEOTIDE; REPRODUCTION; SUS SCROFA;

EID: 84987619390     PISSN: 09312668     EISSN: 14390388     Source Type: Journal    
DOI: 10.1111/jbg.12240     Document Type: Article

References (26)

1. Bogdanova N., Horst J., Chlystun M., Croucher P.J., Nebel A., Bohring A., Todorova A., Schreiber S., Gerke V., Krawczak M. (2007) A common haplotype of the annexin A5 (ANXA5) gene promoter is associated with recurrent pregnancy loss. Hum. Mol. Genet., 16, 573–578.
2. Browning B.L., Browning S.R. (2009) A unified approach to genotype imputation and haplotype phase inference for large data sets of trios and unrelated individuals. Am. J. Hum. Genet., 84, 210–223.
3. Chrusciel M., Rekawiecki R., Ziecik A.J., Andronowska A. (2010) mRNA and protein expression of FGF-1, FGF- 2 and their receptors in the porcine umbilical cord during pregnancy. Folia Histochem. Cytobiol., 48, 572–580.
4. Duijvesteijn N., Knol E.F., Merks J.W., Crooijmans R.P., Groenen M.A., Bovenhuis H., Harlizius B. (2010) A genome-wide association study on androsterone levels in pigs reveals a cluster of candidate genes on chromosome 6. BMC Genet., 11, 42.
5. Fritz S., Capitan A., Djari A., Rodriguez S.C., Barbat A., Baur A., Grohs C., Weiss B., Boussaha M., Esquerré D., Klopp C., Rocha D., Boichard D. (2013) Detection of haplotypes associated with prenatal death in dairy cattle and identification of deleterious mutations in GART, SHBG and SLC37A2. PLoS One, 8, e65550.
6. Garrick D.J., Taylor J.F., Fernando R.L. (2009) Deregressing estimated breeding values and weighting information for genomic regression analyses. Genet. Sel. Evol., 41, 55.
7. Hassold T., Hunt P. (2001) To err (meiotically) is human: the genesis of human aneuploidy. Nat. Rev. Genet., 2, 280–291.
8. Homer H.A., McDougall A., Levasseur M., Yallop K., Murdoch A.P., Herbert M. (2005) Mad2 prevents aneuploidy and premature proteolysis of cyclin B and securing during meiosis 1 in mouse oocytes. Genes Dev., 19, 202–207.
9. King A.H., Jiang Z., Gibson J.P., Haley C.S., Archibald A.L. (2003) Mapping quantitative trait loci affecting female reproductive traits on porcine chromosome 8. Biol. Reprod., 68, 2172–2179.
10. Li K., Ren J., Xing Y., Zhang Z., Ma J., Guo Y., Huang L. (2009) Quantitative trait loci for litter size and prenatal loss in a White Duroc×Chinese Erhualian resource population. Anim. Genet., 40, 963–966.
11. Madsen P., Sørensen P., Su G., Damgaard L.H., Thomsen H., Labouriau R. (2006) DMU–A package for analyzing multivariate mixed models. In: Proceedings of the 8th World Congress on Genetics Applied to Livestock Production, Belo Horizonte (Brazil), 13–18 August 2006, p. 247.
12. Meuwissen T.H., Hayes B.J., Goddard M.E. (2001) Prediction of total genetic value using genome-wide dense marker maps. Genetics, 157, 1819–1829.
13. Onteru S.K., Fan B., Du Z.Q., Garrick D.J., Stalder K.J., Rothschild M.F. (2012) A whole-genome association study for pig reproductive traits. Anim. Genet., 43, 18–26.
14. Pausch H., Schwarzenbacher H., Burgstaller J., Flisikowski K., Wurmser C., Jansen S., Jung S., Schnieke A., Wittek T., Fries R. (2015) Homozygous haplotype deficiency reveals deleterious mutations compromising reproductive and rearing success in cattle. BMC Genom., 16, 312.
15. Ramos A.M., Crooijmans R.P., Affara N.A., Amaral A.J., Archibald A.L., Beever J.E., Bendixen C., Churcher C., Clark R., Dehais P., Hansen M.S., Hedegaard J., Hu Z.L., Kerstens H.H., Law A.S., Megens H.J., Milan D., Nonneman D.J., Rohrer G.A., Rothschild M.F., Smith T.P., Schnabel R.D., Van Tassell C.P., Taylor J.F., Wiedmann R.T., Schook L.B., Groenen M.A. (2009) Design of a high density SNP genotyping assay in the pig using SNPs identified and characterized by next generation sequencing technology. PLoS One, 4, e6524.
16. Sahana G., Nielsen U.S., Aamand G.P., Lund M.S., Guldbrandtsen B. (2013) Novel harmful recessive haplotypes identified for fertility traits in nordic holstein cattle. PLoS One, 8, e82909.
17. Schneider J.F., Rempel L.A., Rohrer G.A. (2012) Genome-wide association study of swine farrowing traits. Part I: genetic and genomic parameter estimates. J. Anim. Sci., 90, 3353–3359.
18. Segelke D., Täubert H., Reinhardt F., Thaller G. (2016) Considering genetic characteristics in German Holstein breeding programs. J. Dairy Sci., 99, 458–467.
19. Uimari P., Sevón-Aimonen M.L., Strandén I. (2010) Pedigree analysis of Finnish Landrace and Yorkshire pig populations. Proc. 9th World Congr. Genet. Appl. Livest. Prod., Leipzig, Germany. CD-ROM.
20. Uimari P., Sironen A., Sevón-Aimonen M.L. (2011) Whole-genome SNP association analysis of reproduction traits in the Finnish Landrace pig breed. Genet. Sel. Evol., 43, 42.
21. Van der Lende T., Van Rens B.T.T.M. (2003) Critical periods for foetal mortality in gilts identified by analysing the length distribution of mummified foetuses and frequency of non-fresh stillborn piglets. Anim. Reprod. Sci., 75, 141–150.
22. Van Eenennaam A.L., Kinghorn B.P. (2014) Use of mate selection software to manage lethal recessive conditions in livestock populations. Proc. 10th World Congr. Genet. Appl. Livest. Prod., Vancouver, Canada. (available at: https://asas.org/docs/default-source/wcgalp-posters/408_paper_9819_manuscript_1027_0.pdf; last accessed 22 June 2016).
23. VanRaden P.M., Miller R.H. (2006) Effects of nonadditive genetic interactions, inbreeding, and recessive defects on embryo and fetal loss by seventy days. J. Dairy Sci., 89, 2716–2721.
24. VanRaden P.M., Olson K.M., Null D.J., Hutchison J.L. (2011) Harmful recessive effects on fertility detected by absence of homozygous haplotypes. J. Dairy Sci., 94, 6153–6161.
25. Verardo L.L., Silva F.F., Lopes M.S., Madsen O., Bastiaansen J.W., Knol E.F., Mathew K., Varona L., Lopes P.S., Guimarães S.E. (2016) Revealing new candidate genes for reproductive traits in pigs: combining Bayesian GWAS and functional pathways. Genet. Sel. Evol., 48, 1.
26. Wang W.-H., Sun Q.-Y. (2006) Meiotic spindle, spindle checkpoint and embryonic aneuploidy. Front Biosci., 11, 620–636.