Identification of a Novel Polymorphism in Bovine lncRNA ADNCR Gene and Its Association with Growth Traits

ABSTRACT

Adipocyte differentiation-associated long noncoding RNA (ADNCR) is a newly discovered lncRNA. It plays function by targeting miR-204 to significantly regulates the expression of the target SIRT1 gene in preadipocytes both at the level of mRNA and protein, thereby inhibiting adipogenesis. The tetra-primer amplification refractory mutation system PCR (T-ARMS-PCR) strategy is fast and accuracy at a negligible cost for SNP genotyping in large samples. In the study, a novel SNP g.1263T>A in intron 1 of bovine ADNCR gene was found. Herein, the T-ARMS-PCR assay was applied to detect the genotypes of the novel SNP of bovine ADNCR gene in 1017 individuals from seven cattle breeds and validated the accuracy by DNA sequencing assay of ninety animals representing three different genotypes. The concordance between two different methods was 100%. The association analysis indicated that this locus was significantly associated with the body weight (P = 0.010), chest girth (P = 0.014) and rump length (P = 0.038) in Jinnan cattle, hucklebone width (P = 0.032) in Qinchuan cattle, the cannon circumference (P = 0.019) in Jinjiang cattle, respectively. These novel findings may be used for marker-assisted selection (MAS) and contribute to the performance of beef cattle in the future.

KEYWORDS:

• ADNCR gene
• bovine
• growth traits
• SNP
• T-ARMS-PCR

Abbreviations::

• ADNCR, adipocyte differentiation-associated long noncoding RNA
• Ho, homozygosity
• He, heterezygosity
• HWE, Hardy–Weinberg equilibrium
• lncRNAs, long noncoding RNAs
• MAS, marker-assisted selection
• Ne, effective allele numbers
• PCR, polymerase chain reaction
• PIC, polymorphism information content
• SNP, single nucleotide polymorphism
• T-ARMS-PCR, tetra-primer amplification refractory mutation system PCR

Additional information

Funding

This work was supported by the National Natural Science Foundation of China (no. 31672400) and the program of National Beef Cattle and Yak Industrial Technology System (No.CARS-37).