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Table 4 Significantly enriched GO terms for genes near SNPs associated with traits following PRRSV/PCV2b co-infection

From: Genomic regions associated with host response to porcine reproductive and respiratory syndrome vaccination and co-infection in nursery pigs

Trait

SNP Lista

GO term

Fold change

P-valueb

PRRS VL

Non-Vxc

2

Sensory perception of smell

1.67

3.5E-3

2.5

Sensory perception

1.85

4.3E-2

3

–

–

–

PRRS VL

Vx

2

Cellular protein modification process

0.53

1.2E-2

Immune response

0.47

4.9E-2

2.5

Chromatin organization

2.80

2.7E-2

G-protein coupled receptor signaling pathway

1.82

2.7E-2

3

–

–

–

PCV2b VL

Non-Vx

2

Sensory perception of chemical stimulus

0.50

2.9E-4

Sensory perception

0.63

2.5E-2

2.5

Chromatin organization

2.82

2.4E-2

3

–

–

–

PCV2b VL

Vx

2

Cellular defense response

2.61

1.0E-2

Cell-cell adhesion

2.26

4.7E-3

Sensory perception of chemical stimulus

0.54

1.4E-2

Sensory perception

0.61

4.3E-2

2.5

Cellular defense response

4.38

1.4E-3

Chromatin organization

3.75

3.2E-4

Nucleobase-containing compound metabolic process

1.47

3.6E-2

3

Cellular defense response

8.52

3.3E-4

ADG

Non-Vx

2

Chromatin organization

2.07

3.9E-2

2.5

Chromatin organization

3.14

1.4E-3

3

Chromatin organization

4.75

8.5E-6

Nucleobase-containing compound metabolic process

1.53

3.6E-2

Primary metabolic process

1.35

3.7E-2

ADG

Vx

2

Chromatin organization

1.86

2.5E-2

JAK-STAT cascade

< 0.20

4.1E-2

2.5

Cholesterol metabolic process

3.54

4.9E-2

3

Chromatin organization

2.73

1.1E-2

Sensory perception of chemical stimulus

0.31

9.8E-4

  1. aSNP List: Lists of SNPs from the GWAS with a –log10 p-value above 2, 2.5 or 3
  2. b P-value: Bonferroni corrected p-value
  3. cNon-Vx, Non-Vaccinated: Pigs were either vaccinated (Vx) or not (Non-Vx) for PRRS