A two-step approach to map quantitative trait loci for meat quality in connected porcine F2 crosses considering main and epistatic effects

Animal Genetics

Volumn 44, Issue 1, 2013, Pages 14-23

  Stratz, P ^a   Baes, C ^a,b   Ruckert C ^a   Preuss, S ^a   Bennewitz, J ^a  

^a UNIVERSITY OF HOHENHEIM   (Germany)

^b BERN UNIVERSITY OF APPLIED SCIENCES   (Switzerland)

Author keywords

meat quality; pig; QTL; RYR; two step procedure

Indexed keywords

ALLELE; ANIMAL; ARTICLE; BIOLOGICAL MODEL; CHROMOSOME; CHROMOSOME MAP; CROSS BREEDING; EPISTASIS; FEMALE; GENETIC LINKAGE; GENETICS; GENOME IMPRINTING; GENOTYPE; MALE; MEAT; PHENOTYPE; QUANTITATIVE TRAIT; QUANTITATIVE TRAIT LOCUS; REGRESSION ANALYSIS; STANDARD; SWINE;

ALLELES; ANIMALS; CHROMOSOME MAPPING; CHROMOSOMES, MAMMALIAN; CROSSES, GENETIC; EPISTASIS, GENETIC; FEMALE; GENOMIC IMPRINTING; GENOTYPE; LOD SCORE; MALE; MEAT; MODELS, GENETIC; PHENOTYPE; QUANTITATIVE TRAIT LOCI; QUANTITATIVE TRAIT, HERITABLE; REGRESSION ANALYSIS; SUS SCROFA;

ANIMALIA; SUIDAE; SUS; SUS SCROFA;

EID: 84872074284     PISSN: 02689146     EISSN: 13652052     Source Type: Journal    
DOI: 10.1111/j.1365-2052.2012.02360.x     Document Type: Article

References (32)

1. Bennewitz J., &, Meuwissen T.H.E., (2010) The distribution of QTL additive and dominance effects in porcine F2 crosses. Journal of Animal Breeding and Genetics 127, 171-9.
2. Borchers N., Otto G., &, Kalm E., (2007) Genetic relationship of drip loss to further meat quality traits in purebred Piétrains. Archiv für Tierzucht, Dummerstorf, 50, 84-91.
3. Boysen T.J., Tetens J., &, Thaller G., (2010) Detection of a quantitative trait locus for ham weight with polar overdominance near the ortholog of the callipyge locus in an experimental pig F2 population. Journal of Animal Science 88, 3167-72.
4. Carlborg O., &, Haley C.S., (2004) Epistasis: too often neglected in complex trait studies? Nature Reviews Genetics. 5, 618-25.
5. Cherel P., Pires J., Glénisson J., Milan D., Iannuccelli N., Hérault F., Damon M., &, Le Roy P., (2011) Joint analysis of quantitative trait loci and major-effect causative mutations affecting meat quality and carcass composition traits in pigs. BMC Genetics 12, 76.
6. De Koning D.J., Harlizius B., Rattink A.P., Groenen M.A., Brascamp E.W., &, Van Arendonk J.A., (2001) Detection and characterization of quantitative trait loci for meat quality traits in pigs. Journal of Animal Science 79, 2812-9.
7. De Vries A.G., van der Wal P.G., Long T., Eikelenboom G., &, Merks J.W.M., (1994) Genetic parameters of pork quality and production traits in Yorkshire populations. Livestock Production Science 40, 277-89.
8. Duthie C.A., Simm G., Doeschl-Wilson A., Kalm E., Knap P.W., &, Roehe R., (2011) Quantitative trait loci for meat quality traits in pigs considering imprinting and epistatic effects. Meat Science 87, 394-402.
9. Estelle J., Gil F., Vazquez J.M., Latorre R., Ramirez G., Barragan M.C., Folch J.M., Noguera J.L., Toro M.A., &, Perez-Enciso M., (2008) A quantitative trait locus genome scan for porcine muscle fiber traits reveals overdominance and epistasis. Journal of Animal Science 86, 3290-9.
10. Fischer K., (2007) Drip loss in pork: influencing factors and relation to further meat quality traits. Journal of Animal Breeding and Genetics 124 (Suppl 1), 12-8.
11. Fujii, J., Otsu K., Zorzato F., DeLeon S., Khanna V.K., Weiler J.E., O'Brien P.J., &, McLennan D.H., (1991) Identification of a mutation in porcine ryanodine receptor associated with malignant hyperthermia. Science 253, 448-51.
12. Geldermann H., Müller E., Moser G., et al,. (2003) Genome-wide linkage and QTL mapping in porcine F2 families generated from Pietrain, Meishan and Wild Boar crosses. Journal of Animal Breeding and Genetics 120, 363-93.
13. Große-Brinkhaus C., Jonas E., Buschbell H., Phatsara C., Tesfaye D., Jüngst H., Looft C., Schellander K., &, Tholen E., (2010) Epistatic QTL pairs associated with meat quality and carcass composition traits in a porcine Duroc × Pietrain population. Genetics Selection Evolution 42, 39.
14. Hu Z.L., Dracheva S., Jang W., Maglott D., Bastiaansen J., Rothschild M.F., &, Reecy J.M., (2005) A QTL resource and comparison tool for pigs: PigQTLDB. Mammalian Genome 16, 792-800.
15. Huff-Lonergan E., &, Lonergan S.M., (2007) New frontiers in understanding drip loss in pork: recent insights on the role of postmortem muscle biochemistry. Journal of Animal Breeding and Genetics 124 (Suppl 1), 19-26.
16. Karlsson A.H., Klont R.E., &, Fernandez X., (1999) Skeletal muscle fibres as factors for pork quality. Livestock Production Science 60, 255-69.
17. Li H.D., Christensen O.F., Gregersen V.R., Henckel P., &, Bendixen C., (2010) Quantitative trait loci analysis of swine meat quality traits. Journal of Animal Science 88, 2904-12.
18. Malek M., Dekkers J.C.M., Lee H.K., Baas T.J., Prusa K., Huff-Lonergan E., &, Rothschild M.F., (2001) A molecular genome scan analysis to identify chromosomal regions influencing economic traits in the pig. II. Meat and muscle composition. Mammalian Genome 12, 637-45.
19. Mao Y., &, Da Y., (2005) Statistical power for detecting epistasis QTL effects under the F-2 design. Genetics Selection Evolution 37, 129-50.
20. Markljung E., Braunschweig M., Karlskov-Mortensen P., Bruun C., Sawera M., Cho I., Hedebro-Velander I., Josell A., Lundström K., &, Seth G., (2008) Genome-wide identification of quantitative trait loci in a cross between Hampshire and Landrace II: meat quality traits. BMC Genetics 9, 22.
21. Mohrmann M., Roehe R., Knap P.W., Looft H., Plastow G.S., &, Kalm E., (2006) Quantitative trait loci associated with AutoFOM grading characteristics, carcass cuts and chemical body composition during growth of Sus scrofa. Animal Genetics 37, 435-43.
22. Piepho H.P., (2001) A quick method for computing approximate threshold for quantitative trait loci detection. Genetics 157, 425-32.
23. Qiu H., Xu X., Fan B., Rothschild M.F., Martin Y., &, Liu B., (2010) Investigation of LDHA and COPB1 as candidate genes for muscle development in the MYOD1 region of pig chromosome 2. Molecular Biology Reports 37, 629-36.
24. Reinsch N., (1999) A multiple-species, multiple-project database for genotypes at codominant loci. Journal of Animal Breeding and Genetics 116, 425-35.
25. Rückert C., &, Bennewitz J., (2010) Joint QTL analysis of three connected F2-crosses in pigs. Genetics Selection Evolution 42, 40.
26. Rückert C., Stratz P., Preuss S., &, Bennewitz J., (2011) Mapping QTL for metabolic and cytological fatness traits of connected F2 crosses in pigs. Journal of Animal Science 90, 399-409.
27. Srikanchai T., Murani E., Wimmers K., &, Ponsuksili S.,. (2009) Four loci differentially expressed in muscle tissue depending on water-holding capacity are associated with meat quality in commercial pig herds. Molecular Biology Reports 37, 595-601.
28. Storey J.D., (2002) A direct approach to false discovery rates. Journal of the Royal Statistical Society. Series B, Statistical Methodology 64, 479-98.
29. Thomsen H., Lee H.K., Rothschild M.F., Malek M., &, Dekkers J.C.M., (2004) Characterization of quantitative trait loci for growth and meat quality in a cross between commercial breeds of swine. Journal of Animal Science 82, 2213-28.
30. van Wijk H.J., Dibbits B., Baron E.E., Brings A.D., Harlizius B., Groenen M.A.M., Knol E.F., &, Bovenhuis H., (2006) Identification of quantitative trait loci for carcass composition and pork quality traits in a commercial finishing cross. Journal of Animal Science 84, 789-99.
31. Wimmers K., Murani E., Te Pas M.F., et al,. (2007) Associations of functional candidate genes derived from gene-expression profiles of prenatal porcine muscle tissue with meat quality and muscle deposition. Animal Genetics 38, 474-84.
32. Wolf J.B., &, Cheverud J.M., (2009) A framework for detecting and characterizing genetic background-dependent imprinting effects. Mammalian Genome 20, 681-98.