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Table 1 Comparison of fold-changes in gene expression in the infected MDM relative to the non-infected control MDM based on microarray and real time qRT-PCR results

From: Pan-genomic analysis of bovine monocyte-derived macrophage gene expression in response to in vitro infection with Mycobacterium avium subspecies paratuberculosis

Gene symbol

Gene name

Gene description

2 h mean fold-changes in gene expression

6 h mean fold-changes in gene expression

24 h mean fold-changes in gene expression

Microarray data

Real time qRT-PCR

P-value (real time qRT-PCR)

Microarray data

Real time qRT-PCR

P-value (real time qRT-PCR)

Microarray data

Real time qRT-PCR

P-value (real time qRT-PCR)

AREGB

Amphiregulin B

A growth-modulating glycoprotein

NS

- 1.29

≤ 0.01

- 2.03

- 2.58

≤ 0.05

NS

- 1.54

≤ 0.01

CCL4

Chemokine (C-C motif) ligand 4

A proinflammatory and chemotactic chemokine

+ 6.59

+ 28.87

≤ 0.001

+ 3.11

+ 9.67

≤ 0.05

NS

+ 1.28

NS

CCL5

Chemokine (C-C motif) ligand 5

A proinflammatory chemokine involved in the chemotaxis of monocytes and T-helper cells

+ 3.56

+ 5.07

≤ 0.05

+ 4.02

+ 4.60

≤ 0.05

NS

+ 2.11

≤ 0.05

CCL20

Chemokine (C-C motif) ligand 20

A chemokine involved in the chemoattraction of lymphocytes and neutrophils

+ 10.47

+ 63.19

≤ 0.001

+ 2.80

+ 10.82

≤ 0.05

NS

+ 1.22

NS

CD40

CD40 molecule, TNF receptor superfamily member 5

A member of the TNF-receptor superfamily. Mediates the immune and inflammatory responses

+ 4.44

+ 6.55

≤ 0.001

+ 5.23

+ 10.80

≤ 0.001

+ 1.71

+ 1.82

≤ 0.05

CFB

Complement factor B

A component of the alternative pathway of complement activation

+ 3.54

+ 4.61

≤ 0.05

+ 4.84

+ 8.64

≤ 0.01

+ 2.98

+ 4.19

≤ 0.001

CXCL2

Chemokine (C-X-C motif) ligand 2

An immunoregulatory chemokine produced by activated monocytes and neutrophils at sites of inflammation

+ 14.34

+ 28.56

≤ 0.001

+ 2.38

+ 3.07

≤ 0.01

NS

+ 1.45

NS

IL1B

Interleukin 1, beta

A cytokine that mediates the inflammatory response including cell proliferation, differentiation and apoptosis

+ 14.41

+ 48.53

≤ 0.001

+ 2.97

+ 6.16

≤ 0.05

NS

+ 2.25

≤ 0.05

IL6

Interleukin 6

A cytokine that functions in inflammation and the maturation of B cells

+ 6.25

+ 21.12

≤ 0.001

NS

+ 2.51

≤ 0.01

NS

+ 1.38

NS

IL15

Interleukin 15

A cytokine that regulates T and natural killer cell activation and proliferation

+ 3.51

+ 4.40

≤ 0.001

+ 2.03

+ 2.73

≤ 0.01

NS

1.04

NS

IRF1

Interferon regulatory factor 1

A member of the interferon regulatory transcription factor family. An activator of interferon alpha and beta transcription

+ 6.57

+ 12.64

≤ 0.001

+ 3.60

+ 5.20

≤ 0.01

NS

+ 1.60

≤ 0.01

NFKB2

Nuclear factor of kappa light polypeptide gene enhancer in B-cells 2 (p49/p100)

A pleiotropic transcription factor involved in inflammation, immunity, differentiation, cell growth and apoptosis

+ 3.41

+ 5.37

≤ 0.001

+ 3.69

+ 5.82

≤ 0.001

NS

+ 1.34

NS

PIK3IP1

Phosphoinositide-3-kinase interacting protein 1

Suppresses the activity of phosphatidylinositol-3-kinase (PI3K), a regulator of cell division

- 1.70

- 2.34

≤ 0.05

NS

- 1.36

NS

NS

+ 1.54

NS

SPRY2

Sprouty homolog 2 (Drosophila)

An inhibitor of receptor tyrosine kinase signalling proteins

- 2.07

- 2.20

NS

NS

- 1.12

NS

NS

- 1.46

NS

TNF

Tumor necrosis factor (TNF superfamily, member 2)

A proinflammatory cytokine (secreted by macrophages) involved in the regulation cell proliferation, differentiation and apoptosis, and coagulation.

+ 13.89

+ 33.01

≤ 0.001

+ 2.73

+ 6.51

≤ 0.01

NS

+ 1.61

≤ 0.01

  1. Geometric mean fold-changes of gene expression (infected MDM relative to non-infected control MDM from the same animal at each time point) are given for the microarray and real time qRT-PCR data at each time point. “NS” indicates that the gene was not significantly differentially expressed at the appropriate time point. The P-values obtained from analysis of the real time qRT-PCR analysis are presented. Geometric fold-changes given for the microarray data were significantly differentially expressed using an adjusted P-value ≤ 0.10. Descriptions of the function of each gene were obtained from the Entrez Gene database [44] and the GeneCards version 3 database [45].