Results of a whole genome scan targeting QTL for growth and carcass traits in a Piétrain × Large White intercross

Nezer, Carine; Moreau, Laurence; Wagenaar, Danny; Georges, Michel

doi:10.1186/1297-9686-34-3-371

Cited by 71 publications

(51 citation statements)

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“…Nessa região, Gonçalves et al (2005) detectaram dois QTL significativos para espessura de toucinho, em suínos resultantes do cruzamento entre Meishan, Large White e Landrace. Nas características comprimento de carcaça e espessura de toucinho, os SNP de maior efeito foram encontrados no terço final do cromossomo 7, como observado por Nezer et al (2002) e Sousa et al (2011). Também no cromossomo 4, Silva et al (2011) detectaram QTL significativo na mesma população F 2 , para a característica EBACON, o que está de acordo com o obtido no presente trabalho, no qual observaramse marcadores SNP relevantes nesta região.…”

Section: Resultsunclassified

Regressão via componentes independentes aplicada à seleção genômica para características de carcaça em suínos

Azevedo

Resende

Silva

et al. 2013

Pesq. agropec. bras.

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Resumo -O objetivo deste trabalho foi avaliar a eficiência do método de regressão via componentes independentes (ICR) na estimação de valores genéticos genômicos e dos efeitos de marcadores SNP para características de carcaça de uma população F 2 de suínos (Piau x linhagem comercial). Os métodos foram avaliados por meio da concordância entre os valores genéticos preditos e os fenótipos corrigidos, observados por validação cruzada, e também foram comparados com outros métodos geralmente utilizados para os mesmos propósitos, tais como RR-BLUP, PCR e PLS. Os métodos ICR e PCR apresentam resultados similares, mas o método ICR apresenta maiores valores de acurácia.Termos para indexação: Sus scrofa, BLUP, marcadores SNP, regressão aleatória, redução dimensional. Independent component regression applied to genomic selection for carcass traits in pigsAbstract -The objective of this work was to evaluate the efficiency of the independent component regression (ICR) method for the estimation of genomic values and of SNP marker effects for carcass traits in a F 2 pig population (Piau x commercial line). The methods were evaluated by the agreement between the genetic predicted values and the corrected phenotypes observed by cross-validation, and they were also compared with other methods generally used for the same purposes, such as RR-BLUP, PCR, and PLS. The ICR and PCR methods show similar results, but ICR has the highest accuracy prediction values.

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Section: Resultsunclassified

Regressão via componentes independentes aplicada à seleção genômica para características de carcaça em suínos

Azevedo

Resende

Silva

et al. 2013

Pesq. agropec. bras.

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“…On the other hand, a highly significant QTL for ADG was mapped to SSC7 (position , 100 cM), close to the region where Houston et al (2005) mapped QTL for average feeding rate, and close to previously reported QTL affecting growth rate (Bidanel and Rothschild, 2002). Some QTL were identified in crosses involving the PI breed in chromosomal regions close to the maximum LRT position in our analysis (Nezer et al, 2002;Edwards et al, 2008).…”

Section: Discussionmentioning

confidence: 99%

Detecting QTL for feed intake traits and other performance traits in growing pigs in a Piétrain–Large White backcross

Gilbert

Riquet

Gruand

et al. 2010

Animal

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Knowing the large difference in daily feed intake (DFI) between Large White (LW) and Pié train (PI) growing pigs, a backcross (BC) population has been set up to map QTL that could be used in marker assisted selection strategies. LW 3 PI boars were mated with sows from two LW lines to produce 16 sire families. A total of 717 BC progeny were fed ad libitum from 30 to 108 kg BW using single-place electronic feeders. A genome scan was conducted using genotypes for the halothane gene and 118 microsatellite markers spread on the 18 porcine autosomes. Interval mapping analyses were carried out, assuming different QTL alleles between sire families to account for within breed variability using the QTLMap software. The effects of the halothane genotype and of the dam line on the QTL effect estimates were tested. One QTL for DFI (P , 0.05 at the chromosome-wide (CW) level) and one QTL for feed conversion ratio (P , 0.01 at the CW level) were mapped to chromosomes SSC6 -probably due to the halothane allelesand SSC7, respectively. Three putative QTL for feed intake traits were detected (P , 0.06 at the CW level) on SSC2, SSC7 and SSC9. QTL on feeding traits had effects in the range of 0.20 phenotypic s.d. The relatively low number of QTL detected for these traits suggests a large QTL allele variability within breeds and/or low effects of individual loci. Significant QTL were detected for traits related to carcass composition on chromosomes SSC6, SSC15 and SSC17, and to meat quality on chromosome SSC6 (P , 0.01 at the genome-wide level). QTL effects for body composition on SSC13 and SSC17 differed according to the LW dam line, which confirmed that QTL alleles were segregating in the LW breed. An epistatic effect involving the halothane locus and a QTL for loin weight on SSC7 was identified, the estimated substitution effects for the QTL differing by 200 g between Nn and NN individuals. The interactions between QTL alleles and genetic background or particular genes suggest further work to validate QTL segregations in the populations where marker assisted selection for the QTL would be applied.Keywords: QTL, pig, feed intake, feed efficiency, Pié train 3 Large White ImplicationsFeed efficiency of the growing pig has long been selected, and improved, through indirect selection for faster growth and leaner carcass. Further reduction of body fatness could, however, affect meat quality and reproductive performance. Today, single-place electronic feeders provide accurate measures of individual feed intakes of pigs reared in collective pens. Information is still rather scarce on quantitative trait loci affecting daily feed intake, feed conversion ratio or residual feed intake of growing pigs. This study reports the results of a QTL detection experiment pertaining to feed intake traits and other production traits.

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“…When QTL are detected in such populations, they cannot be directly used in selection programmes and additional studies are required to confirm the existence of these QTL in commercial populations. Nevertheless, genome scans are carried out on an increasing -E-mail: marie-pierre.sanchez@jouy.inra.fr number of crosses of commercial populations: Yorkshire 3 Berkshire (Malek et al, 2001a and2001b), Piétrain 3 Large White (Nezer et al, 2002), Iberian 3 Landrace (Varona et al, 2002), Hampshire 3 Landrace (Karlskov-Mortensen et al, 2005) or Duroc 3 Piétrain populations (Liu et al, 2007;Edwards et al, 2008a and2008b) and even on purebred commercial populations (Evans et al, 2003;Vidal et al, 2005;Tribout et al, 2008). All these studies revealed a large number of QTL, suggesting that different alleles are fixed in distinct commercial populations or that QTL are still segregating in purebred populations after many generations of selection.…”

Section: Introductionmentioning

confidence: 99%

Microsatellite mapping of quantitative trait loci affecting meat quality, stress hormones and production traits in Duroc × Large White F2 pigs

Sanchez

Iannuccelli

Basso

et al. 2011

Animal

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An F2 cross between Duroc and Large White pigs was carried out in order to detect quantitative trait loci (QTL) for 11 meat quality traits (L*, a* and b* Minolta coordinates and water-holding capacity (WHC) of two ham muscles, ultimate pH of two ham and one loin muscles), 13 production traits (birth weight, average daily gain during post-weaning and fattening periods, carcass fat depths at three locations, estimated lean meat content, carcass length and weights of five carcass cuts) and three stress hormone-level traits (cortisol, adrenaline and noradrenaline). Animals from the three generations of the experimental design (including 456 F2 pigs) were genotyped for 91 microsatellite markers covering all the autosomes. A total of 56 QTL were detected: 49 reached the chromosome-wide level (suggestive QTL with a maximal probability of 0.05) and seven were significant at the genome-wide level (with a probability varying from 6 3 10 24 to 3 3 10 23 ). Twenty suggestive QTL were identified for ultimate pH, colour measurements and WHC on chromosome (SSC) 5, 6, 7, 8, 9, 11, 13, 14, 15 and 17. For production traits, 33 QTL were detected on all autosomes except SSC6, 8 and 9. Seven of these QTL, located on SSC2, 3, 10, 13, 16 and 17, exceeded the genome-wide significance threshold. Finally, three QTL were identified for levels of stress hormones: a QTL for cortisol level on SSC7 in the cortisol-binding globulin gene region, a QTL for adrenaline level on SSC10 and a QTL for noradrenaline level on SSC13. Among all the detected QTL, seven are described for the first time: a QTL for ultimate pH measurement on SSC5, two QTL affecting birth weight on SSC2 and 10, two QTL for growth rate on SSC15 (during fattening) and 17 (during post-weaning) and two QTL affecting the adrenaline and noradrenaline levels. For each QTL, only one to five of the six F1 sires were found to be heterozygous. It means that all QTL are segregating in at least one of the founder populations used in this study. These results suggest that both meat quality and production traits can be improved in purebred Duroc and Large White pigs through markerassisted selection. It is of particular interest for meat quality traits, which are difficult to include in classical selection programmes.

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Results of a whole genome scan targeting QTL for growth and carcass traits in a Piétrain × Large White intercross

Cited by 71 publications

References 20 publications

Regressão via componentes independentes aplicada à seleção genômica para características de carcaça em suínos

Regressão via componentes independentes aplicada à seleção genômica para características de carcaça em suínos

Detecting QTL for feed intake traits and other performance traits in growing pigs in a Piétrain–Large White backcross

Microsatellite mapping of quantitative trait loci affecting meat quality, stress hormones and production traits in Duroc × Large White F2 pigs

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