To
study the characteristics of genes and metabolites related to
intramuscular fat (IMF) content with less influence by breed background
and individual differences, the skeletal muscle samples from 40 Beijing
black pigs with either high or low IMF content were used to perform
transcriptome and metabolome analyses. About 99 genes (twofold-change)
were differentially expressed. Up-regulated genes in the high IMF
pigs were mainly related to fat metabolism. The key genes in charge
of IMF deposition are ADIPOQ, CIDEC, CYP4B1, DGAT2, LEP, OPRL1, PLIN1, SCD, and THRSP. KLHL40, TRAFD1, and HSPA6 were novel candidate genes for the IMF
trait due to their high abundances. In the low IMF pigs, the differentially
expressed genes involved in virus resistance were up-regulated. About
16 and 18 differential metabolites (1.5 fold-change) were obtained
in the positive and negative modes, respectively. Pigs with low IMF
had weaker fatty acid oxidation due to the down-regulation of various
carnitines. Differentially expressed genes were more important in
determining IMF deposition than differential metabolites because relatively
few differential metabolites were obtained, and they were merely the
products under the physiological status of diverged IMF content. This
study provided valuable information for further studies on IMF deposition.