Advances in pig genomics and functional gene discovery

Rothschild, Max F.

doi:10.1002/cfg.261

Cited by 14 publications

(7 citation statements)

References 22 publications

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“…Large contributions were made by the ''PigMap'' (Archibald et al 1995) and ''USDA Pig Genome'' (Rothschild 2003) programs in Europe and the USA, respectively. Full sequencing of S. scrofa mitochondrial DNA was achieved by Ursing and Arnason (1998).…”

Section: Introductionmentioning

confidence: 99%

Genetic structure of the wild boar population in Portugal: Evidence of a recent bottleneck

et al. 2009

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The present study assesses the degree of genetic structure and the presence of recent genetic bottlenecks in the wild boar population in Portugal. One hundred and ten individuals were sampled after capture during organised legal drive hunts, conducted in 58 municipalities across the continental territory, during the game seasons of 2002/2003 and 2003/2004. Individuals were genetically typed at six microsatellite loci using multiplex PCR amplification. Significant deviations from Hardy-Weinberg equilibrium were found for the total population of wild boar in Portugal. Wild boar population genetic structure was assessed using Bayesian methods, suggesting the existence of three subpopulations (North, Centre and South). Tests were conducted to detect the presence of potential migrants and hybrids between subpopulations. After exclusion of these individuals, three sets of wild boars representative of respective subpopulations were distinguished and tested for the effects of recent bottlenecks. Genetic distances between pairs of subpopulations were quantified using F ST and R ST estimators, revealing a variation of 0.138-0.178 and 0.107-0.198, respectively. On the basis of genetic and distribution data for Portuguese wild boar from the beginning of the 20th century, a model of strong demographic decline and contraction to isolated refuge areas at the national level, followed by a recovery and expansion towards former distribution limits is suggested. Some evidence points to present admixture among subpopulations in contact areas.

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Section: Introductionmentioning

confidence: 99%

Genetic structure of the wild boar population in Portugal: Evidence of a recent bottleneck

et al. 2009

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“…CG effects can be evaluated based on association tests between their molecular polymorphisms and variation in the target trait. CG approaches have been widely used for identifying genes responsible for diseases and quantitative traits of economical importance (Munafò 2006), and supplement map-based cloning and insertional mutagenesis (Pflieger et al 1996;Rothschild 2003).…”

Section: Introductionmentioning

confidence: 99%

Bayesian model averaging for evaluation of candidate gene effects

Gianola

Rosa

et al. 2010

Genetica

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Statistical assessment of candidate gene effects can be viewed as a problem of variable selection and model comparison. Given a certain number of genes to be considered, many possible models may fit to the data well, each including a specific set of gene effects and possibly their interactions. The question arises as to which of these models is most plausible. Inference about candidate gene effects based on a specific model ignores uncertainty about model choice. Here, a Bayesian model averaging approach is proposed for evaluation of candidate gene effects. The method is implemented through simultaneous sampling of multiple models. By averaging over a set of competing models, the Bayesian model averaging approach incorporates model uncertainty into inferences about candidate gene effects. Features of the method are demonstrated using a simulated data set with ten candidate genes under consideration.

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“…However, until recently, only a small number of the major genes controlling economically important traits have been identified. Candidate gene analysis also is supplemented by comparative gene analysis that allows researchers to find positional candidate genes in the regions associated with QTL (Rothschild, 1999).…”

Section: Introductionmentioning

confidence: 99%

Molecular Characterization and Chromosomal Mapping of the Porcine AMP-activated Protein Kinase α2 (PRKAA2) Gene

Lee¹,

Choi²,

Lee³

et al. 2007

Asian Australas. J. Anim. Sci

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AMP-activated protein kinase alpha 2 (PRKAA2) plays a key role in regulation of fatty acid and cholesterol metabolism. This study investigated the porcine PRKAA2 gene as a positional candidate for intramuscular fat and backfat thickness traits in pig chromosome 6. A partial fragment of the porcine PRKAA2 gene, amplified by PCR, contained a putative intron 3 including a part of exon 3 and 4, comparable with that of human PRKAA2 gene. Within the fragment, several single nucleotide polymorphisms were identified using multiple sequence alignments. Of these, TaqI restriction enzyme polymorphism was used for genotyping various pig breeds including Korean reference family. Using linkage and physical mapping, the porcine PRKAA2 gene was mapped in the region between microsatellite markers SW1881 and SW1680 on chromosome 6. Allele frequencies were quite different among pig breeds. The full length cDNA of the porcine PRKAA2 (2,145 bp) obtained by RACE containing 1,656 bp open reading frame of deduced 552 amino acids, had sequence identities with PRKAA2 of human (98.2%), rat (97.8%), and mouse (97.5%). These results suggested that the porcine PRKAA2 is a positional candidate gene for fat deposition trait at near telomeric region of the long arm of SSC 6.

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Advances in pig genomics and functional gene discovery

Cited by 14 publications

References 22 publications

Genetic structure of the wild boar population in Portugal: Evidence of a recent bottleneck

Genetic structure of the wild boar population in Portugal: Evidence of a recent bottleneck

Bayesian model averaging for evaluation of candidate gene effects

Molecular Characterization and Chromosomal Mapping of the Porcine AMP-activated Protein Kinase α2 (PRKAA2) Gene

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