Single Nucleotide Polymorphisms of Porcine lncMGPF Regulate Meat Production Traits by Affecting RNA Stability

lncMGPF is a novel positive regulator of myogenic differentiation, muscle growth and regeneration in mouse, pig, and human. But whether natural mutations within lncMGPF gene regulate animal meat production traits is unclear. In this study, ten single nucleotide polymorphisms (SNPs) of pig lncMGPF (plncMGPF) gene were identified among commercial pig breeds and Chinese local pig breeds. These SNPs are highly linked and constructed into multiple haplotypes, and haplotype ATTCATGTTC (H1) mainly exists in commercial pig breeds while haplotype GCCTGCACCT (H3) is more frequent in Chinese local pig breeds. Association analysis indicated that all SNPs are significantly associated with the backfat thickness and loin muscle area (P < 0.05), respectively, and homologous H1 individuals have higher loin muscle area and lower backfat thickness than H3 pigs. Bioinformatics and functional analysis showed that haplotype H1 has a longer half-life and more stable RNA secondary structure than haplotype H3. plncMGPF haplotype H1 has stronger effects on pig primary myogenic progenitor cells differentiation and muscle growth than haplotype H3. Further experiments showed that two SNPs (rs81403974 and rs325492834) function together to confer plncMGPF stability and function. Our observation suggested that the SNPs in lncMGPF can change the RNA stabilities and lncMGPF function, thereby affecting the porcine meat production traits.

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Single nucleotide polymorphisms, haplotypes and combined genotypes of LAP3 gene in bovine and their association with milk production traits

Molecular Biology Reports ◽

10.1007/s11033-010-0524-1 ◽

2010 ◽

Vol 38 (6) ◽

pp. 4053-4061 ◽

Cited By ~ 28

Author(s):

Xue Zheng ◽

Zhihua Ju ◽

Ji Wang ◽

Qiuling Li ◽

Jinming Huang ◽

...

Keyword(s):

Single Nucleotide Polymorphisms ◽

Milk Production ◽

Nucleotide Polymorphisms ◽

Production Traits ◽

Milk Production Traits ◽

Single Nucleotide ◽

Combined Genotypes

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The effect of linkage disequilibrium on the estimates of Single Nucleotide Polymorphic effects

Proceedings of the British Society of Animal Science ◽

10.1017/s1752756200028830 ◽

2009 ◽

Vol 2009 ◽

pp. 44-44

Author(s):

K Moore ◽

J Gibson ◽

D Johnston

Keyword(s):

Linkage Disequilibrium ◽

Single Nucleotide Polymorphisms ◽

Genetic Improvement ◽

Dairy Herd ◽

Physical Distance ◽

Causative Mutation ◽

Nucleotide Polymorphisms ◽

Production Traits ◽

Single Nucleotide Polymorphic ◽

Single Nucleotide

The identification and exploitation of single nucleotide polymorphisms (SNP) associated with production traits present new opportunities for livestock genetic improvement. Often the identified SNP is not the causative mutation but rather is in some degree of linkage disequilibrium (LD). LD markers within 5cM can be considered as direct markers for the causative mutation because they are located close to the causative mutation (Dekkers, 2004). In a dairy herd, Farnir et al., (2000) estimated that the average LD, measured as D′ was 0.5 for loci pairs positioned within 5cM. Goddard et al., (2006) estimated that LD measured as r2 decreased rapidly as the physical distance between loci increased; at a separating distance of 0.5Mb the LD (r2) was only approximately 0.2. The aim of this work was to use stochastic simulation to investigate the effect that the distance between the SNP and causative mutation had on the accuracy of estimating additive and dominance effects of the causative mutation.

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