Identification of differentially expressed genes in longissimus muscle of pigs with high and low intramuscular fat content using RNA sequencing

K. S. Lim, K. T. Lee, J. E. Park, W. H. Chung, G. W. Jang, B. H. Choi, K. C. Hong, T. H. Kim

Research output: Contribution to journalArticlepeer-review

37 Citations (Scopus)


Intramuscular fat (IMF) content in pork is an important element of consumer preference and is positively correlated with meat quality, including tenderness and juiciness. With advances in RNA sequencing technologies, transcriptome-related differences can be associated with specific traits in animals. The objective of this study was to investigate differentially expressed genes (DEGs) closely related to IMF content in porcine longissimus muscle using RNA sequencing. A total of 107 Berkshire pigs were used for IMF content measurements, and significant differences between extremely high (H, n = 3) and low (L, n = 3) IMF content groups were found (P < 0.0001). From multi-dimensional scaling analyses, it was observed that the relationships between H and L groups were similar to each other. Here, we identified a total of 134 genes that were differentially expressed between the groups (false discovery rate <0.05; fold change ≥2). Functional analyses with DEGs revealed that lipid metabolism (SCD and FASN) was one of the significant biological processes related to IMF content determination. In addition, we found that DEGs related to muscle regeneration (MYOG and VEGFA) and extracellular matrix (COL1A1, COL1A2, COL5A1, COL14A1 and COL15A1) were changed among individuals with extreme IMF contents. These results will aid in understanding the regulation of IMF content in pigs.

Original languageEnglish
Pages (from-to)166-174
Number of pages9
JournalAnimal Genetics
Issue number2
Publication statusPublished - 2017 Apr 1

Bibliographical note

Funding Information:
This work was supported by 15-51 Agenda research (PJ01022002) from the National Institute of Animal Science and a 2015 Post-doctoral Fellowship Program from the National Institute of Animal Science, Rural Development Administration, Republic of Korea.

Publisher Copyright:
© 2016 Stichting International Foundation for Animal Genetics


  • Gene Ontology
  • IMF
  • differential expression
  • swine
  • transcriptome

ASJC Scopus subject areas

  • Animal Science and Zoology
  • Genetics


Dive into the research topics of 'Identification of differentially expressed genes in longissimus muscle of pigs with high and low intramuscular fat content using RNA sequencing'. Together they form a unique fingerprint.

Cite this