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Table 2 Measurement of genotype and/or ACTH effects on transcript accumulation by relative quantitative real-time PCR and comparison with microarray data

From: Gene array and real time PCR analysis of the adrenal sensitivity to adrenocorticotropic hormone in pig

Gene symbol

Microarray

     

Real time PCR

     
 

p-value (ANOVA)

 

Fold Change

  

p-value (ANOVA)

 

Fold Change

  
    

genotype: MS/LW

treatment: ACTH/control

  

genotype: MS/LW

treatment: ACTH/control

 

genotype

treatment

interaction

control

ACTH

LW

MS

genotype

treatment

interaction

control

ACTH

LW

MS

Rnf2

2.81E-13

7.89E-01

1.96E-02

3.5

2.5

1.2

-1.2

0.82

0.64

0.81

1.1

-1.0

1.1

1.0

Anpep

5.65E-12

8.27E-03

NS

2.1

1.9

-1.1

-1.2

< 0.0001

0.040

0.056

3.9

3.0

-1.0

-1.4

Gadd45b

6.38E-04

1.41E-11

NS

-1.3

-1.3

2.4

2.4

0.028

< 0.0001

0.33

-1.5

-1.5

2.6

2.6

Eif1b

9.08E-06

7.89E-10

NS

1.5

1.9

2.5

3.3

0.009

< 0.0001

0.040

1.4

1.9

2.9

4.1

Crem

4.34E-02

2.70E-10

NS

1.7

1.1

4.4

3.0

0.18

< 0.0001

0.43

1.6

1.3

6.4

5.4

A2m

2.45E-10

3.68E-03

NS

-1.8

-1.7

-1.2

-1.1

< 0.0001

0.11

0.54

-2.1

-2.1

-1.3

-1.2

Ldlr*

5.19E-03

4.15E-07

NS

1.6

1.3

2.3

1.8

ND

ND

ND

ND

ND

ND

ND

Ckb

1.03E-06

3.00E-02

NS

2.1

1.9

1.3

1.2

0.004

0.43

0.88

2.3

2.1

1.3

1.2

Dab2

2.92E-02

5.63E-05

NS

-1.1

-1.3

-1.4

-1.7

0.34

0.052

0.63

-1.3

-1.2

-1.8

-1.6

Ldlr*

1.50E-02

1.14E-03

1.06E-02

1.5

1.0

1.6

1.1

0.069

< 0.0001

0.80

1.4

1.2

2.2

2.0

Fxc1

3.06E-04

2.35E-02

NS

1.2

1.3

1.1

1.1

0.28

0.16

0.48

-1.1

-1.4

1.6

1.2

Star

4.85E-04

NS

NS

1.6

1.2

1.4

1.1

0.053

0.26

0.406

1.4

1.1

1.3

1.0

Mc2r

ND

ND

ND

ND

ND

ND

ND

0.95

0.24

0.77

-1.1

1.0

1.2

1.4

Scarb1

NS

NS

NS

NS

NS

NS

NS

0.89

0.25

0.75

1.1

-1.0

1.2

1.1

Bzrp

ND

ND

ND

ND

ND

ND

ND

0.017

0.64

0.089

-2.3

-1.2

-1.4

1.4

Sqle

NS

NS

NS

NS

NS

NS

NS

0.16

0.39

0.32

-1.1

-1.5

1.3

-1.0

Cyp11a1

NS

NS

NS

NS

NS

NS

NS

0.85

0.36

0.37

1.2

-1.1

1.4

1.0

Hsd3b1

NS

NS

NS

NS

NS

NS

NS

0.51

0.17

0.94

-1.1

-1.1

-1.3

-1.3

Cyp21

NS

NS

NS

NS

NS

NS

NS

0.022

0.90

0.33

-1.2

-1.5

1.1

-1.1

Cyp11b

NS

NS

NS

NS

NS

NS

NS

0.13

0.27

0.94

1.3

1.3

1.2

1.2

Per2

ND

ND

ND

ND

ND

ND

ND

0.46

0.040

0.066

-1.2

1.8

-2.3

-1.0

Cry1

NS

NS

NS

NS

NS

NS

NS

0.96

0.48

0.62

1.1

-1.1

1.2

1.0

Bmal1

ND

ND

ND

ND

ND

ND

ND

0.002

0.21

0.70

-2.5

-2.9

-1.4

-1.6

  1. The changes in expression levels for 11 genes shown by microarray analysis to be significantly regulated by genotype and/or ACTH were quantified by real-time PCR. For comparison, relative expression values for each gene were determined in each animal (fold change, n = 6 pigs per experimental point). Changes in expression levels were also analyzed for 11 additional genes of great interest for our study whereas they were either shown by microarray analysis to be not significant (NS, p > 0.05) or not determined (ND) since they were not included on the microarray or due to the data normalization process. * LDLR gene was represented by 2 cDNA clones on the microarray and changes in its expression were verified by real-time PCR using only the cDNA sequence for which exons/introns structure could be deduced.