A genome-wide association analysis for porcine serum lipid traits reveals the existence of age-specific genetic determinants

BMC Genomics

Marcel Amills⁵  Jules Hernández-Sánchez⁴  Nitdia Aznárez⁴  Anna Castelló⁵  Anna Mercadé⁵  Joan Tibau³  Ramona N Pena¹  Rayner González-Prendes²  Raquel Quintanilla⁴  Joaquim Casellas⁵  Arianna Manunza² 

[1] Departament de Producció Animal, Agrotecnio Center, Universitat de Lleida, Lleida 25198, Spain;Department of Animal Genetics, Center for Research in Agricultural Genomics (CSIC-IRTA-UAB-UB), Universitat Autònoma de Barcelona, Bellaterra 08193, Spain;IRTA, Finca Camps i Armet, 17121 Monells, Spain;IRTA, Genètica i Millora Animal, Lleida 25198, Spain;Departament de Ciència Animal i dels Aliments, Universitat Autònoma de Barcelona, Bellaterra 08193, Spain

关键词: Gene expression;    Genome-wide analysis;    Lipids and lipoproteins;    Animal model;   

Others  :  1140921
DOI  :  10.1186/1471-2164-15-758

 received in 2013-09-12, accepted in 2014-07-25,  发布年份 2014

【 摘 要 】

Background

The genetic determinism of blood lipid concentrations, the main risk factor for atherosclerosis, is practically unknown in species other than human and mouse. Even in model organisms, little is known about how the genetic determinants of lipid traits are modulated by age-specific factors. To gain new insights into this issue, we have carried out a genome-wide association study (GWAS) for cholesterol (CHOL), triglyceride (TRIG) and low (LDL) and high (HDL) density lipoprotein concentrations measured in Duroc pigs at two time points (45 and 190 days).

Results

Analysis of data with mixed-model methods (EMMAX, GEMMA, GenABEL) and PLINK showed a low positional concordance between trait-associated regions (TARs) for serum lipids at 45 and 190 days. Besides, the proportion of phenotypic variance explained by SNPs at these two time points was also substantially different. The four analyses consistently detected two regions on SSC3 (124 Mb, CHOL and LDL at 190 days) and SSC6 (135 Mb, CHOL and TRIG at 190 days) with highly significant effects on the porcine blood lipid profile. Moreover, we have found that SNP variation within SSC3, SSC6, SSC10, SSC13 and SSC16 TARs is associated with the expression of several genes mapping to other chromosomes and related to lipid metabolism.

Conclusions

Our data demonstrate that the effects of genomic determinants influencing lipid concentrations in pigs, as well as the amount of phenotypic variance they explain, are influenced by age-related factors.

【 授权许可】

   
2014 Manunza et al.; licensee BioMed Central Ltd.

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