Molecular Biology Reports

, Volume 39, Issue 3, pp 3153–3160

Novel SNPs in the PRDM16 gene and their associations with performance traits in chickens

  • Ruili Han
  • Yang Wei
  • Xiangtao Kang
  • Hong Chen
  • Guirong Sun
  • Guoxi Li
  • Yichun Bai
  • Yadong Tian
  • Yanqun Huang
Article

DOI: 10.1007/s11033-011-1081-y

Cite this article as:
Han, R., Wei, Y., Kang, X. et al. Mol Biol Rep (2012) 39: 3153. doi:10.1007/s11033-011-1081-y

Abstract

The PR domain containing 16 (PRDM16) is a member of the Prdm family, and is known to regulate cell differentiation. In the present study, DNA pool sequencing methods were employed to screen genetic variations in the chicken PRDM16 gene. The results revealed four novel single nucleotide polymorphisms (SNPs): NC_006108.2: g.92188G>A, XM_417551: c.1161C>T (Ala/Ala, 387aa), c.1233C>T (Ser/Ser, 411aa) and c.1433G>A (Ser/Asn, 478aa). The BglI polymerase chain reaction–restriction fragment length polymorphism (PCR-RFLP) was used to detect c.1161C>T, while HhaI Forced PCR-RFLP methods were used to detect 1233C>T and c.1433G>A in 964 chickens. The chickens comprised 38 grandparents, 66 F1 parents and 860 F2 birds derived from an F2 resource population of Gushi chickens crossed with Anka broilers. The associations of the polymorphisms in the chicken PRDM16 gene with performance traits were analyzed in the 860 F2 chickens. The results indicated that the three SNPs were significantly associated with growth, fatness and meat quality traits in the chickens. In particular, the polymorphisms of the missense SNP (c.1433G>A) had positive effects on chicken body weight and body size at different stages. It affected also fatness traits significantly. Comparison of the different genotypes of c.1433G>A showed that the GG genotype favored chicken growth and fatness traits.

Keywords

Chicken PRDM16 gene Single nucleotide polymorphisms (SNP) Association Performance traits 

Supplementary material

11033_2011_1081_MOESM1_ESM.doc (1010 kb)
Supplementary material 1 (DOC 1010 kb)
11033_2011_1081_MOESM2_ESM.doc (134 kb)
Supplementary material 2 (DOC 133 kb)
11033_2011_1081_MOESM3_ESM.doc (34 kb)
Supplementary material 3 (DOC 34 kb)
11033_2011_1081_MOESM4_ESM.doc (32 kb)
Supplementary material 4 (DOC 32 kb)

Copyright information

© Springer Science+Business Media B.V. 2011

Authors and Affiliations

  • Ruili Han
    • 1
    • 2
  • Yang Wei
    • 1
  • Xiangtao Kang
    • 1
  • Hong Chen
    • 2
  • Guirong Sun
    • 1
  • Guoxi Li
    • 1
  • Yichun Bai
    • 1
  • Yadong Tian
    • 1
  • Yanqun Huang
    • 1
  1. 1.College of Livestock Husbandry and Veterinary EngineeringHenan Research Center of Breeding Resources for Poultry, Henan Agricultural UniversityZhengzhouPeople’s Republic of China
  2. 2.Shaanxi Key Laboratory of Molecular Biology for Agriculture, College of Animal Science and TechnologyNorthwest A&F UniversityYanglingPeople’s Republic of China