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Table 3 Functional categories of DE and prior candidate genes expressed in abdominal fat and the average fold change (FL/LL) as determined by microarray and/or qRT-PCR analyses

From: Transcriptional analysis of abdominal fat in genetically fat and lean chickens reveals adipokines, lipogenic genes and a link between hemostasis and leanness

Functional category

Symbol

Gene name

Microarray (FC)*

qRT-PCR (FC)*

Hemostasis

A2M

Alpha-2-macroglobulin

−1.89

−1.10

 

AGT

Angiotensinogen

1.20

-

 

ANG

Angiogenin

−2.51

-

 

CFB

Complement factor B

−1.49

-

 

CPB2

Carboxypeptidase B2

−1.43

-

 

CPM

Carboxypeptidase M

−1.32

-

 

F2

Thrombin

−1.85

−1.35

 

F9

Christmas factor

−1.51

−4.04

 

FGA

Fibrinogen alpha

−2.61

-

 

PLG

Plasminogen

−1.79

-

 

PROC

Protein C

−1.39

−3.54

 

SERPINA1

Antitrypsin

−1.75

-

 

SERPIND1

Heparin cofactor

−2.00

−1.50

 

THBS2

Thrombospondin 2

−1.17

-

Adipokines

ADIPOQ

Adiponectin

1.03

−1.48

 

ANGPTL4

Angiopoietin-like 4

1.01

−1.58

 

ATRN

Attractin

−1.12

−1.22

 

CFD

Adipsin

1.24

-

 

LPL

Lipoprotein lipase

-

−1.41

 

NAMPT

Visfatin

-

−1.20

 

RARRES2

Chemerin

−1.32

−1.54

 

RBP4

Retinol binding protein 4

−2.33

−1.11

Lipogenesis

DHCR7

7-Dehydrocholesterol reductase

1.11

-

 

FADS2

Fatty acid desaturase 2

1.21

-

 

FASN

Fatty acid synthase

1.36

1.60

 

G6PC

Glucose-6-phosphatase, catalytic subunit

1.46

-

 

scGH

Growth hormone, chicken, short form

1.15

-

 

HMGCR

3-Hydroxy-3-methylglutaryl-CoA reductase

1.09

-

 

INSIG2

Insulin induced gene 2

1.74

-

 

LCAT

Lecithin-cholesterol acyltransferase

1.32

-

 

MVD

Mevalonate (diphospho) decarboxylase

1.20

-

 

SCD

Stearoyl-CoA desaturase

1.48

1.88

 

SREBF1

Sterol regulatory element binding transcription factor 1

1.12

1.32

 

THRSPA

Thyroid hormone responsive spot 14 A

-

1.64

 

TXNIP

Thioredoxin interacting protein

-

1.80

Lipolysis

ACAT1

Acetyl-CoA acetyltransferase 1

−3.18

-

 

ADH1C

Alcohol dehydrogenase 1C (class I), gamma polypeptide

−1.81

-

 

APOA1

Apolipoprotein A-I

−1.16

-

 

APP

Amyloid beta (A4) precursor protein

−1.15

-

 

BCMO1

beta-carotene 15,15′-monooxygenase

-

−1.13

 

BCO2

beta-carotene oxygenase 2

−1.15

−1.48

 

CYP27A1

Cytochrome P450, family 27, subfamily A, polypeptide 1

−1.14

-

 

CYP2E1

Cytochrome P450, family 2, subfamily E, polypeptide 1

−1.80

-

 

EHHADH

Enoyl-CoA, hydratase/3-hydroxyacyl CoA dehydrogenase

−1.09

-

 

GAMT

Guanidinoacetate N-methyltransferase

−1.21

-

 

HADHB

Hydroxyacyl-CoA dehydrogenase (trifunctional protein)

−1.10

-

 

HSD17B4

Hydroxysteroid (17-beta) dehydrogenase 4

−1.92

-

 

HSD17B6

Hydroxysteroid (17-beta) dehydrogenase 6

−1.19

-

 

IRS1

Insulin receptor substrate 1

−1.59

-

 

PDK4

pyruvate dehydrogenase kinase, isozyme 4

-

−1.99

 

PHYH

Phytanoyl-CoA 2-hydroxylase

−1.56

-

 

SLC2A2

Facilitated glucose transporter 2 (GLUT2)

−2.23

-

 

SOD3

superoxide dismutase 3, extracellular

−1.10

−1.20

 

TP53

Tumor protein p53

−1.29

-

 

UCP3

Uncoupling protein 3 (mitochondrial, proton carrier)

−1.21

-

  1. *Fold-change (FC) represents the ratio of FL/LL transcript abundance averaged across six juvenile ages (1–11 wk). Prior candidate genes were identified as differentially expressed (DE) genes by previous microarray or qRT-PCR analysis of previous genetic, nutritional or hormonal perturbation studies. Pearson’s correlation coefficient (r) of expression ratios (FL/LL) of 15 select genes subjected to both microarray and qRT-PCR analyses indicates a significant (P≤0.01) correlation between the two methods (r = 0.64). The exclusion of two genes with the lowest microarray FC estimate (ANGPTL4 and ADIPOQ) greatly increases the Pearson correlation coefficient (r = 0.79) and the significance level (P≤0.001).
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BMC Genomics

ISSN: 1471-2164

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