Association between Polymorphisms of Lipoprotein Lipase Gene and Chicken Fat Deposition

Li, Rui; Wang, Yachun; Sun, Dan; Yu, Ying; Zhang, Yuan

doi:10.5713/ajas.2006.1409

Cited by 9 publications

(7 citation statements)

References 14 publications

(11 reference statements)

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“…PR domain containing 16 gene ( PRDM16 ) was found to have positive effects on chicken growth, fatness, and meat quality traits at different stages (Han et al 2012). Lipoprotein lipase gene ( LPL ) is significantly associated with intermuscular fat width, abdominal fat weight, and thickness of subcutaneous fat in chickens (Liu et al 2006). …”

Section: Resultsmentioning

confidence: 99%

Genome-Wide Patterns of Genetic Variation in Two Domestic Chickens

Fan

Chen

et al. 2013

Genome Biology and Evolution

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Domestic chickens are excellent models for investigating the genetic basis of phenotypic diversity, as numerous phenotypic changes in physiology, morphology, and behavior in chickens have been artificially selected. Genomic study is required to study genome-wide patterns of DNA variation for dissecting the genetic basis of phenotypic traits. We sequenced the genomes of the Silkie and the Taiwanese native chicken L2 at ∼23- and 25-fold average coverage depth, respectively, using Illumina sequencing. The reads were mapped onto the chicken reference genome (including 5.1% Ns) to 92.32% genome coverage for the two breeds. Using a stringent filter, we identified ∼7.6 million single-nucleotide polymorphisms (SNPs) and 8,839 copy number variations (CNVs) in the mapped regions; 42% of the SNPs have not found in other chickens before. Among the 68,906 SNPs annotated in the chicken sequence assembly, 27,852 were nonsynonymous SNPs located in 13,537 genes. We also identified hundreds of shared and divergent structural and copy number variants in intronic and intergenic regions and in coding regions in the two breeds. Functional enrichments of identified genetic variants were discussed. Radical nsSNP-containing immunity genes were enriched in the QTL regions associated with some economic traits for both breeds. Moreover, genetic changes involved in selective sweeps were detected. From the selective sweeps identified in our two breeds, several genes associated with growth, appetite, and metabolic regulation were identified. Our study provides a framework for genetic and genomic research of domestic chickens and facilitates the domestic chicken as an avian model for genomic, biomedical, and evolutionary studies.

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Section: Resultsmentioning

confidence: 99%

Genome-Wide Patterns of Genetic Variation in Two Domestic Chickens

Fan

Chen

et al. 2013

Genome Biology and Evolution

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“…As the main component of gene expression regulation, the 5′ upstream region plays an important role in affecting the phenotypes of traits (Liu et al, 2006). In this study, 5 SNP selected from 9 SNP of the 5′upstream region of the 3 genes were associated with growth or reproductive traits, or both, in chickens.…”

Section: Discussionmentioning

confidence: 99%

Polymorphisms of three neuroendocrine-correlated genes associated with growth and reproductive traits in the chicken

Tang

Sun

et al. 2009

Poultry Science

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The identification and utilization of potential candidate genes for QTL with significant effects on economically important traits are becoming increasingly important in poultry breeding programs. Chicken insulin-like growth factor binding protein 1 and 3 and signal transducers and activators of transcription 5B (STAT5B) genes are 3 essential nodes for signaling pathways and gene networks of growth and reproduction. The pooled DNA sequencing approach was used for identification of 9 SNP of the 5' upstream region of the 3 genes. A total of 826 individuals from Beijing You chicken were genotyped for 5 SNP using a modified PCR-RFLP method and the association with chicken growth and reproductive traits was studied using the GLM procedure. The T56039403C (T-808C) SNP of the insulin-like growth factor binding protein 1 gene was associated with BW at 10 wk of age (P = 0.0061), and the C56072547T (C-968T) SNP of the insulin-like growth factor binding protein 3 gene was associated with BW at 8 and 10 wk of age (P = 0.0056 and P = 0.0016, respectively). The C4535156T (C-1591T), G4533815A (G-250A), and G4533675C (G-110C) SNP of the STAT5B gene were associated with age at first egg (P = 0.0143, P = 0.0088, and P = 0.0114, respectively). Moreover, Lewontin's D' (|D'|) and r(2) of C4535156T and G4533815A SNP, C4535156T and G4533675C SNP, and G4533815A and G4533675C SNP of the STAT5B gene were 0.939 and 0.852, 0.967 and 0.858, and 0.971 and 0.896, respectively. The 3 SNP were strong-linked with each other and lay within a haplotype block. Our results suggest that these SNP were significantly associated with early growth or with sexual maturation in chickens, or both, and may be potential molecular markers for MAS.

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“…The detected SNPs of the L-BABP were located in 5' upstream region. The 5' upstream region was the primary component of gene expression regulation and played an important role in affecting the phenotypes of the traits (Liu et al, 2006). We presumed that these SNPs could change expression of the L-BABP, which affected its function.…”

Section: Discussionmentioning

confidence: 99%

Identification of SNPs of the <i>L-BABP </i>and <i>L-FABP </i>and their Association with Growth and Body Composition Traits in Chicken

et al. 2013

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Fatty acid-binding proteins (FABPs) are members of lipid-binding proteins that participate in lipid uptake and intracellular transport. This study was designed to investigate the effects of the liver bile acid-binding protein (L-BABP) and the liver fatty acid binding protein (L-FABP) genes on chicken growth and body composition traits. Three SNPs (SNP1, SNP2 and SNP3) of the L-BABP and six SNPs (SNP7-SNP9, SNP11-SNP13) of the L-FABP were detected firstly by DNA sequencing. Seven SNPs (SNP6 and SNP15-SNP20) of the L-FABP were detected by DNA sequencing and were found in the chicken genomic databases at the same time. Sequenom MassARRAY was developed to genotype 966 birds from the Northeast Agricultural University F 2 (NEAUF 2 ) resource population and the Northeast Agricultural University broiler lines divergently selected for abdominal fat content (NEAUHLF) population. Linkage disequilibrium analysis showed that the L-BABP SNPs appeared to be strongly linked with each other and were located within a haplotype block in both populations. SNP7 and SNP8, SNP12 and SNP13, SNP19 and SNP20 of the L-FABP were in strong linkage disequilibrium, respectively. The L-BABP polymorphisms were significantly associated with body weight (BW) (P＜0.05) in the NEAUF 2 and the NEAUHLF populations and abdominal fat weight (AFW) and abdominal fat percentage (AFP) (P＜0.05) in the NEAUHLF population. The L-BABP diplotypes were significantly associated with BW (P＜0.05) in the NEAUF 2 and the NEAUHLF populations. There was no consistent association between the thirteen SNPs of the L-FABP and the growth and body composition traits in either the NEAUF 2 or the NEAUHLF populations. The research suggests that the L-BABP could be a candidate locus to affect growth traits in chickens.

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Association between Polymorphisms of Lipoprotein Lipase Gene and Chicken Fat Deposition

Cited by 9 publications

References 14 publications

Genome-Wide Patterns of Genetic Variation in Two Domestic Chickens

Genome-Wide Patterns of Genetic Variation in Two Domestic Chickens

Polymorphisms of three neuroendocrine-correlated genes associated with growth and reproductive traits in the chicken

Identification of SNPs of the <i>L-BABP </i>and <i>L-FABP </i>and their Association with Growth and Body Composition Traits in Chicken

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