Identification of quantitative trait loci for carcass composition and pork quality traits in a commercial finishing cross1

Wijk, H.J. van; Dibbits, Bert; Baron, Erica Elias; Brings, A.D.; Harlizius, B.; Groenen, M.A.M.; Knol, E.F.; Bovenhuis, H.

doi:10.2527/2006.844789x

Cited by 51 publications

(43 citation statements)

References 42 publications

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“…It is possible that the QTL detected in the present study correspond to some of these reported loci. This conclusion is in agreement with the results of Evans et al [13], van Wijk et al [37] and Vidal et al [39] who checked the segregation in commercial populations of several QTL detected using experimental crosses.…”

Section: Resultssupporting

confidence: 83%

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Detection of quantitative trait loci for reproduction and production traits in Large White and French Landrace pig populations (Open Access publication)

et al. 2008

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-A genome-wide scan was performed in Large White and French Landrace pig populations in order to identify QTL affecting reproduction and production traits. The experiment was based on a granddaughter design, including five Large White and three French Landrace half-sib families identified in the French porcine national database. A total of 239 animals (166 sons and 73 daughters of the eight male founders) distributed in eight families were genotyped for 144 microsatellite markers. The design included 51 262 animals recorded for production traits, and 53 205 litter size records were considered. Three production and three reproduction traits were analysed: average backfat thickness (US_M) and live weight (LWGT) at the end of the on-farm test, age of candidates adjusted at 100 kg live weight, total number of piglets born per litter, and numbers of stillborn (STILLp) and born alive (LIVp) piglets per litter. Ten QTL with medium to large effects were detected at a chromosome-wide significance level of 5% affecting traits US_M (on SSC2, SSC3 and SSC17), LWGT (on SSC4), STILLp (on SSC6, SSC11 and SSC14) and LIVp (on SSC7, SSC16 and SSC18). The number of heterozygous male founders varied from 1 to 3 depending on the QTL. quantitative trait locus / pig / commercial population / production trait / reproduction trait

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Section: Resultssupporting

confidence: 83%

“…This second approach has been less popular in pigs than the use of crossbred designs. However, some experiments have been successfully implemented in commercial pig populations for QTL mapping [37,39].…”

Section: Introductionmentioning

confidence: 99%

Detection of quantitative trait loci for reproduction and production traits in Large White and French Landrace pig populations (Open Access publication)

et al. 2008

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“…Previous associations of markers on SSC 6 with pH, color, IMF and loin purge (Grindflek, Szyda, Liu, & Lien, 2001;Malek et al, 2001;van Wijk et al, 2006;Yue et al, 2003) were supported by associations with markers located in a narrow region of SSC 6, 77 to 79 cM. This region contains RYR1 and there was a very low incidence of the deleterious allele (frequency 0.006).…”

Section: Validation Of Qtl Regions and Candidate Genesmentioning

confidence: 72%

“…Probabilities for F-ratios testing association of Lee et al, 2003;Rohrer et al, 2005;Stearns et al, 2005;van Wijk et al, 2006;Liu et al, 2007 5:50-65 Pork color, cooking loss and pH Malek et al, 2001;Rohrer et al, 2005 6:50-86 Pork color, intramuscular fat and pH Grindflek et al, 2001;Malek et al, 2001;Yue et al, 2003;van Wijk et al, 2006 15:44-60 Pork color, intramuscular fat, pH and shear force Malek et al, 2001;Nii et al, 2005;Rohrer et al, 2005;van Wijk et al, 2006;Liu et al, 2007;Sanchez et al, 2007 17:30-70 Pork color, intramuscular fat and juiciness Malek et al, 2001;Rohrer et al, 2005 a Position is listed as chromosome:range in cM based on the current USMARC swine linkage map. Table 5 along with estimated genotypic effects for 96 associations significant at the nominal p b 0.01 threshold.…”

Section: Resultsmentioning

confidence: 99%

Association of single nucleotide polymorphism (SNP) markers in candidate genes and QTL regions with pork quality traits in commercial pigs

et al. 2012

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“…Several whole-genome scans have been conducted to identify pig chromosomal regions containing quantitative trait loci (QTL) for IMF content or marbling (de Koning et al, 1999;Harlizius et al, 2000;Grindflek et al, 2001;Malek et al, 2001;Ovilo et al, 2002;Kim et al, 2005;Nii et al, 2005;Rohrer et al, 2005;van Wijk et al, 2006;Edwards et al, 2008). We previously identified three IMF QTL, one located on each of porcine chromosomes 7, 9, and 13, by using a porcine F 2 resource population produced from a cross between a Meishan sow and a Duroc boar (Sato et al, 2003).…”

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confidence: 99%

Haplotype analysis within quantitative trait locus affecting intramuscular fat content on porcine chromosome

et al. 2011

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Previous results of fine mapping for quantitative trait loci affecting intramuscular fat content identified a 3.0-Mb chromosome interval on porcine chromosome 7, which contains at least 9 genes, based on the pig genome assembly. Therefore, we proposed these nine genes (LOC100154481, LOC100155711, LOC100155276, SPATA7, PTPN21, ZCH14, EML5, TTC8, and FOXN3) as positional candidate genes. The coding exons of the nine genes were characterized, and 45 polymorphisms were detected in F 2 Duroc × Meishan population. Within the nine genes, 10 non-synonymous substitutions and 1 insertion were genotyped among three European breeds (Landrace, Large White, and Duroc) and 1 Chinese breed (Meishan). Genotyping data was used to perform the haplotype analysis. Polymorphisms were found in all the studied genes, except ZCH14. We surveyed the frequency of 33 haplotypes that formed non-synonymous substitutions in four breeds. One of them was distributed widely in the Landrace, Large White, and Meishan breeds, but not in Duroc. Each breed had different major haplotypes.Keywords: pig; chromosome 7; intramuscular fat; positional candidate genes; polymorphism Abbreviations: EML5 = echinoderm microtubule associated protein like 5; FOXN3 = forkhead box N3; PTPN21 = protein tyrosine phosphatase, non-receptor type 21; SPATA7 = spermatogenesis associated 7; TTC8 = tetratricopeptide repeat domain 8; ZCH14 = zinc finger CCCH-type containing 14; IMF = intramuscular fat; PCR-RFLP = polymerase chain reaction-restriction fragment length polymorphism; QTL = quantitative trait locus 522Original Paper Czech J. Anim. Sci., 56, 2011 (12): 521-528 QTL, one located on each of porcine chromosomes 7, 9, and 13, by using a porcine F 2 resource population produced from a cross between a Meishan sow and a Duroc boar (Sato et al., 2003). We reported that one QTL on porcine chromosome 7 was fine-mapped to the interval between DNA markers SJ169 to MM70, which spans approximately 3.0 Mb and contains at least 9 genes, based on the pig genome assembly (Sato et al., 2005). However, the gene or single nucleotide polymorphism associated with porcine IMF has not been identified. In livestock, despite the large number of QTL that have been found for economically important traits, very few causative polymorphisms have been convincingly identified (Womack, 2005). Hundreds of QTL have been identified in pigs (Rothschild, 2003;Rothschild et al., 2007), but, in this species, only a few causative mutations have been reported so far, including those affecting muscle mass and fat deposition (Jeon et al., 1999;Nezer et al., 1999), glycogen content (Milan et al., 2000), tenderness (Ciobanu et al., 2004), and vertebral number (Mikawa et al., 2011).The aim of the present study was to search for polymorphisms in the exons of the 9 genes located in a QTL for intramuscular fat on porcine chromosome 7 as well as PCR-restriction fragment length polymorphism (PCR-RFLP) assays for non-synonymous polymorphisms, allele frequencies, and haplotypes occurring in the Landrace, La...

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Identification of quantitative trait loci for carcass composition and pork quality traits in a commercial finishing cross1

Cited by 51 publications

References 42 publications

Detection of quantitative trait loci for reproduction and production traits in Large White and French Landrace pig populations (Open Access publication)

Detection of quantitative trait loci for reproduction and production traits in Large White and French Landrace pig populations (Open Access publication)

Association of single nucleotide polymorphism (SNP) markers in candidate genes and QTL regions with pork quality traits in commercial pigs

Haplotype analysis within quantitative trait locus affecting intramuscular fat content on porcine chromosome

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