Genes & Genomics

, Volume 39, Issue 7, pp 759–766 | Cite as

Longissimus lumborum muscle transcriptome analysis of Laiwu and Yorkshire pigs differing in intramuscular fat content

  • Wei Chen
  • Guo-feng Fang
  • Shou-dong Wang
  • Hui WangEmail author
  • Yong-qing ZengEmail author
Research Article


The pig provides meat products for human consumption on a large scale. High-throughput sequencing technology provides a powerful approach for the characterization of the muscle transcriptome of pigs. Despite many studies using high-throughput technologies, the functional complexity of porcine muscle transcriptome is not fully elucidated. Therefore, the aim of this study was to gain insight into the longissimus lumborum muscle transcriptome between two pig breeds with distinct phenotypes, Laiwu pig, a Chinese indigenous pig breed, and Yorkshire pig, a Western breed. RNA-seq was applied to sample transcripts of the longissimus lumborum muscle between the two pig breeds to gain insights into whole-genome transcription profiles. For the Laiwu and Yorkshire libraries, we obtained a total of 40,498,476 and 59,072,892 high quality reads, respectively. Moreover, the resulting data set provided expression patterns for many annotated, predicted and novel pig genes. 178 significantly differentially expressed genes were identified between the Laiwu and Yorkshire pigs, with 98 up-regulated and 80 down-regulated genes in Laiwu pig compared with Yorkshire pig. Gene expression results of the RNA-seq data were validated by qRT-PCR for twelve genes. Genes that were differentially expressed were involved in lipid metabolism and were more highly expressed in Laiwu pigs. The present study provides a comprehensive view of differences in the muscle transcriptome between two pig phenotypes. These results expand our knowledge of the genes transcribed in the skeletal muscle of two breeds and provide a basis for future research of the molecular mechanisms underlying the phenotypic differences on meat quality.


Pig Transcriptome sequencing Differentially expressed genes Intramuscular fat 



This study was supported by the National Animal Breed Resource Preservation Project of China (2130135), the National Project for Breeding Transgenic Pigs of China (2013ZX08006-002), Shandong Province Modern Pig Technology and Industry System Project (SDAIT-08-02) and Shandong Province Agricultural Animal Breeding Project of China (2013LZ02-015, 2014LZ03-016).

Compliance with ethical standards

Conflict of interest

Wei Chen, Guo-Feng Fang, Shou-Dong Wang, Hui Wang andYong-Qing Zeng declares that they have no conflict of interest.

Supplementary material

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Supplementary material 1 (DOCX 13 KB)
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13258_2017_540_MOESM5_ESM.pdf (109 kb)
Supplementary material 5 (PDF 108 KB)


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Copyright information

© The Genetics Society of Korea and Springer-Science and Media 2017

Authors and Affiliations

  1. 1.Laboratory for Animal Genetics and Breeding, College of Animal Science and TechnologyShandong Agricultural UniversityTai’anPeople’s Republic of China

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