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Table 2 Most significant canonical pathways observed among differentially expressed genes in relation to feed efficiency (FE)

From: RNA-seq of muscle from pigs divergent in feed efficiency and product quality identifies differences in immune response, growth, and macronutrient and connective tissue metabolism

Canonical Pathway

-log (B-H p-value)

Z-score

Genes

IL-8 signalling

4.13

2.50a

RND2 , PIK3C2B , PLCB2 , VCAM1 , PTK2B , PIK3C2G , GNB5 , MAPK8, RAC3 , ROCK2, ITGB2 , FGFR4 , NCF2 , CYBB

Leukocyte extravasation signalling

3.38

1.73

PIK3C2B , VCAM1 , PTK2B , CXCR4 , PIK3C2G , MAPK8, RAPGEF3, ROCK2, ITGB2 , FGFR4 , NCF2 , CYBB , VAV1

Sphingosine-1-phosphate signalling

3.38

1.67

RND2 , PIK3C2B , NAAA , PLCB2 , PTK2B , FGFR4 , ADCY4, PIK3C2G , SPHK1, CASP1

PKCθ signalling in T lymphocytes

3.22

0.63

PIK3C2B , MAP3K14, FGFR4 , PIK3C2G , MAPK8, CD86 , NFATC2, VAV1 , RAC3 , NFATC1

fMLP signalling in neutrophils

2.86

1.41

PIK3C2B , PLCB2 , FGFR4 , NCF2 , PIK3C2G , CYBB , GNB5 , NFATC2, NFATC1

B cell receptor signalling

2.86

0.91

PIK3C2B , MAP3K14, FOXO1, PTK2B , FGFR4 , PIK3C2G , MAPK8, NFATC2, VAV1 , PIK3AP1 , NFATC1

Myc mediated apoptosis signalling

2.86

NA

MYC, PIK3C2B , FGFR4 , PIK3C2G , MAPK8, CYCS, SFN

Chemokine signalling

2.86

1.13

ROCK2, PLCB2 , PTK2B , CXCR4 , PIK3C2G , MAPK8, CCL5

Gαq signalling

2.86

1.00

RND2 , ROCK2, PIK3C2B , PLCB2 , PTK2B , FGFR4 , PIK3C2G , GNB5 , NFATC2, NFATC1

CD28 signalling in T helper cells

2.86

0.33

PIK3C2B , FGFR4 , PIK3C2G , MAPK8, CD86 , NFATC2, VAV1 , CTLA4 , NFATC1

  1. aSignificantly activated (z-score > 2) pathways in high-FE pigs, NA no activity pattern available, up-regulated genes in high-FE pigs are highlighted in bold and down-regulated genes in normal typeface