Identification of genes showing differential expression profile associated with growth rate in skeletal muscle tissue of Landrace weanling pig

Abstract

Suppression subtractive hybridization was used to identify genes showing differential expression profile associated with growth rate in skeletal muscle tissue of Landrace weanling pig. Two subtracted cDNA populations were generated from musculus longissimus muscle tissues of selected pigs with extreme expected breeding values at the age of 100 kg. Three upregulated genes (EEF1A2, TSG101 and TTN) and six downregulated genes (ATP5B, ATP5C1, COQ3, HADHA, MYH1 and MYH7) in pig with genetic propensity for higher growth rate were identified by sequence analysis of 12 differentially expressed clones selected by differential screening following the generation of the subtracted cDNA population. Real-time PCR analysis confirmed difference in expression profiles of the identified genes in musculus longissimus muscle tissues between the two Landrace weanling pig groups with divergent genetic propensity for growth rate. Further, differential expression of the identified genes except for the TTN was validated by Western blot analysis. Additionally, the eight genes other than the ATP5C1 colocalized with the same chromosomal positions as QTLs that have been previously identified for growth rate traits. Finally, the changes of expression predicted from gene function suggested association of upregulation of expression of the EEF1A2, TSG101 and TTN genes and downregulation of the ATP5B, ATP5C1, COQ3, HADHA, MYH1 and MYH7 gene expression with increased growth rate. The identified genes will provide an important insight in understanding the molecular mechanism underlying growth rate in Landrace pig breed.

An analysis of <i>MYH7</i> single nucleotide polymorphism (g.7:75667956G>A) in relation to growth and carcass traits in pigs

“…This finding is in contrast to the results of our and Kim et al (2015) studies and may be associated with the different age of pig used in the experiments. In our study, as well as in the experiment of Kim et al (2015) pigs were at the slaughter age, however in the study of Komatsu et al (2016) animals aged 23 days. Moreover growth rate groups were selected based on the expected breeding value not direct phenotypic data.…”

“…In the previous study of Komatsu et al (2016) it was shown that expression of MYH7 gene in pigs is correlated with growth rate. In our study MYH7 SNP (g.7:75667956G>A) that is associated with the expression levels of mature miR-208b as well as MYH7 gene were investigated.…”

“…Kim et al (2015) in previous study showed that AA genotype is associated with highest expression of MYH7 gene in the longissimus dorsi muscle tissue of Berkshire pigs. Komatsu et al (2016), however, stated that high expression of MYH7 gene in longissimus dorsi is associated with extremely low growth rate in Landrace pigs. This finding is in contrast to the results of our and Kim et al (2015) studies and may be associated with the different age of pig used in the experiments.…”

“…The other way to reveal candidate genes in plants and animals is Differential Gene Expression (DGE) analysis (Behringer et al, 2015;Fernandez-Rodriguez et al, 2011). The DGE analysis, for example, was used in the study of Komatsu et al (2016) who compared expression profile in Landrace pigs characterized by extremely high growth rate and extremely low growth rate. Investigations indicated 3 up-regulated and 6 downregulated genes in pigs with genetic propensity for higher growth rate.…”

Integrated Transcriptome Analysis of miRNAs and mRNAs in the Skeletal Muscle of Wuranke Sheep

“…In skeletal muscle, mitochondrial fatty acid β-oxidation and ketolysis represent aerobic energy sources [79,80]. Zheng et al [81] detected the expression of OXCT1 and found it is associated with chicken skeletal muscle hypertrophy, while Komatsu et al [82] demonstrated that HADHA expression in skeletal muscle is associated with the growth rate of pigs. In our research, oar-miR-1185-5p was found to be significantly downregulated in all three comparison groups and to have interacted with the abovementioned three mRNAs.…”