Regulatory gene network from a genome-wide association study for sow lifetime productivity traits

J. H. Kang, E. A. Lee, Ki Chang Hong, J. M. Kim

Research output: Contribution to journalArticle

3 Citations (Scopus)

Abstract

Among swine reproductive traits, sow lifetime productivity (SLP) is considered a profitable trait in commercial pig farming. Notably, longevity and efficiency in SLP can be adopted as the key phenotype representing SLP. In this study, we conducted a co-association network analysis using results from a genome-wide association study for SLP-related traits. A total of 656 purebred Landrace female pigs were genotyped using a 60K SNP array. Significantly associated SNPs identified from the GWAS were annotated for the specific genes. Then, we constructed an association weight matrix to build a network based on the co-associations between the genes and 10 SLP traits. The entire network consisted of 495 nodes and 37 755 significant edges. We identified three key regulatory transcription factors: STAT2 (signal transducer and activator of transcription 2), MYF6 (myogenic factor 6) and TFCP2L1 (transcription factor CP2 like 1). The network revealed that the STAT2 and MYF6 regulatory modules cooperate with each other and specifically influence the longevity and efficiency of sows, whereas the TFCP2L1 family specifically affects the improvement of litter size.

Original languageEnglish
JournalAnimal Genetics
DOIs
Publication statusAccepted/In press - 2018 Jan 1

Fingerprint

STAT2 Transcription Factor
Gene Regulatory Networks
Genome-Wide Association Study
sows
Transcription Factors
Swine
Single Nucleotide Polymorphism
Litter Size
transcription factors
Agriculture
Genes
swine
transcription (genetics)
Phenotype
Weights and Measures
reproductive traits
purebreds
litter size
landraces
gene regulatory networks

Keywords

  • Association weight matrix
  • GWAS
  • Landrace
  • Network analysis
  • Reproductive traits

ASJC Scopus subject areas

  • Animal Science and Zoology
  • Genetics

Cite this

Regulatory gene network from a genome-wide association study for sow lifetime productivity traits. / Kang, J. H.; Lee, E. A.; Hong, Ki Chang; Kim, J. M.

In: Animal Genetics, 01.01.2018.

Research output: Contribution to journalArticle

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