Combined line-cross and half-sib QTL analysis in Duroc-Pietrain population.
A Duroc-Pietrain resource population was built to detect quantitative trait loci (QTL) that affect growth, carcass composition, and pork quality. The data were analyzed by applying three least-squares Mendelian models: a line-cross (LC) model, a half-sib (HS) model, and a combined LC and HS model (CB), which enabled the detection of QTL that had fixed, equal, and different allele frequencies for alternate breed alleles, respectively. Permutation tests were performed to determine 5% chromosome-wide and 5% genome-wide threshold values. A total of 40 (137) QTL were detected at the 5% genome-wide (chromosome-wide) level for the 35 traits analyzed. Of the 137 QTL detected, 62 were classified as the LC type (LC-QTL), 47 as the HS type (HS-QTL), and 28 as the CB type (CB-QTL). The results indicate that implementation of a series of model-based framework is not only beneficial to detect QTL, but also provides us with a new and more robust interpretation from which further methodology could be developed.
Liu
Guisheng
G
Animal Breeding and Husbandry Group, Institute of Animal Science, University of Bonn, Endenicher Allee 15, 53115 Bonn, Germany.
Kim
Jong Joo
JJ
Jonas
Elisebeth
E
Wimmers
Klaus
K
Ponsuksili
Siriluck
S
Murani
Eduard
E
Phatsara
Chirawath
C
Tholen
Ernst
E
Juengst
Heinz
H
Tesfaye
Dawit
D
Chen
Ji Lan
JL
Schellander
Karl
K
D000818:Animals; D033481:Chromosomes, Mammalian / Q000235:genetics; D003433:Crosses, Genetic; D005260:Female; D016678:Genome / Q000235:genetics; D006863:Hydrogen-Ion Concentration; D008297:Male; D008460:Meat / Q000592:standards; D008957:Models, Genetic; D040641:Quantitative Trait Loci / Q000235:genetics*; D019655:Quantitative Trait, Heritable; D013552:Swine / Q000145:classification* / Q000235:genetics* / Q000254:growth & development