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Table 3 Differential expression of transcripts from fins and organs by hybridization to the oligo microarray

From: Zebrafish fin immune responses during high mortality infections with viral haemorrhagic septicemia rhabdovirus. A proteomic and transcriptomic approach

   

fold

accession number

short name

long name transcripts

Fins

Organs

complement components

NM_131243

c3b

complement component c3b

8.37

-1.21

P01024

c3

complement c3 precursor

6.63

1.81

NM_001024435

c9

complement component 9

5.95

1.46

TC319537

c9

complement component 9

5.85

3.33

TC360850

c9

complement component 9

5.83

1.75

NM_131338

cfb

complement factor b

5.60

1.00

XR_029814

cfb/c2b

~to complement factor b/c2b

5.14

-1.27

NM_001003496

c8a

complement component 8, alpha polypeptide

4.94

-1.26

NM_200863

c8g

complement component 8 gamma polypeptide

1.41

-4.34

TC331566

crpp

complement regulatory plasma protein

4.74

-1.11

XM_0013357

cfhp

~to complement factor h precursor

3.96

1.02

NM_200638

c6

complement component 6

2.22

1.11

XM_692828

perf

~to perforin

-1.78

2.93

immunoglobulin-related proteins

AY494978

sid4

secreted immunoglobulin 4 precursor

5.68

1.18

NM_001034182

sid4

secreted immunoglobulin domain 4

5.30

1.26

AF273876

ighv4-6

VH101 immunoglobulin heavy chain variable region

2.57

1.33

AF273880

ighv1-2

VH114 immunoglobulin heavy chain variable region

2.42

1.96

AF273901

ighv1-1

VHcd9 immunoglobulin heavy chain variable region

2.08

3.63

AY646264

ighv1-1

immunoglobulin zeta heavy chain

2.29

1.21

AY643752

ighz

immunoglobulin Z heavy chain constant region

1.35

2.02

XM_690081

iefr

~to immunoglobulin epsilon Fc receptor IgE

2.64

-1.56

XM_001920109

pirp

~to Polymeric immunoglobulin receptor precursor

2.33

1.22

NM_001145630

lrit3

leucine-rich repeat Ig-like and transmembrane domains 3

-2.85

-3.25

XM_001919777

npcid

containing immunoglobulin domains

5.07

-2.07

cluster differentiation antigens

NM_001002572

cd36

CD36 antigen

6.12

-11.11

Q3U490

cd11c

CD11c dendritic cells

2.53

-1.05

macrophages

NM_152980

mst1

macrophage stimulating 1 hepatocyte growth factor

6.42

1.20

NM_152980

mst1

macrophage stimulating 1 hepatocyte growth factor

5.54

1.08

NM_001113641

mict

~to macrophage-inducible C-type lectin

4.93

1.23

interleukins

Q494Q4

il11b

interleukin-11b.

4.27

2.88

NP_998009

il1b

interleukin 1, beta

2.36

1.37

NM_001020789

il17d

interleukin 17d

-2.27

-4.85

NM_001018118

il15l

interleukin 15 like (il15l) transcript variant 2

-1.07

-2.44

NM_001007108

il12ba

interleukin 12Ba natural killer cell stimulatory factor 2

1.53

-25.70

NM_153660

il17rd

interleukin 17 receptor D

1.04

-1.45

tolls & receptors

Q6TQH6

tlr7

toll-like receptor 7

4.09

1.22

AY389449

tlr5a

toll-like receptor 5a

2.03

1.28

NM_001130594

tlr9

toll-like receptor 9

1.05

-2.29

NM_131010

tll1

tolloid-like 1

-1.72

2.82

NM_001113602

crlf1b

cytokine receptor-like factor 1b

-1.72

-2.90

NM_200600

traf3ip1

TNF receptor-associated factor 3 interacting protein 1

1.19

-2.51

XM_001334668

traf

~to TRAF and TNF receptor-associated homolog

-1.61

-2.00

major hystocompatibility complex

Z46776

mhc1uaa

UAA class I MHC

3.92

-23.6

AJ420954

mhc1ze

MHC class I antigen

2.16

1.44

NM_001045563

mhc1dz63

novel MHC class I antigen dZ63M10.3

-1.14

-2.84

antimicrobial peptides

NM_205583

hamp1

hepcidin antimicrobial peptide 1

10.91

-1.04

NM_205583

hamp1

hepcidin antimicrobial peptide 1

9.63

-1.05

interferons

NM_001111083

ifn3

interferon 3

2.13

-1.08

XM_001344345

gig2

~to interferon-inducible protein Gig2

2.57

-2.18

Q1LVY7

ifi44

~to vertebrate interferon-induced protein 44

1.16

-3.30

Lymphocytes

Q5RI69

sell

~to vertebrate selectin L (Lymphocyte adhesion mol 1)

1.48

3.33

NM_131426

lef1

lymphocyte enhancer binding factor 1

-1.35

-5.71

A1L4S5

ctlp4

cytotoxic T-lymphocyte protein 4.

-1.96

-3.26

XM_001340972

prf1

~to Perforin-1 precursor (Lymphocyte pore-forming)

-1.33

-3.07

NM_001126448

lect1

leukocyte cell derived chemotaxin 1

1.11

-2.83

Q5RJ36

lnk

~vertebrate lymphocyte adaptor protein

-1.08

-2.05

Various

XM_001336492

sica21

~to small inducible cytokine A21

-1.04

-3.43

NM_001030118

sart3

squamous cell carcinoma antigen recognised by T cells 3

0.96

-3.39

NM_001030118

sart3

squamous cell carcinoma antigen recognised by T cells 3

1.13

-2.97

  1. For each experiment, 10 zebrafish were infected with 2 × 106 ffu of VHSV/ml at 14°C while other 10 zebrafish remained non-infected. RNA was extracted from the fins or organs 2-days after VHSV or mock infection, labeled with Cy3 and hybridized to the microarrays. The 636 immune-related selected sequences from the 4x44 K microarray (Appligene) from zebrafish were selected and their data analyzed. In each microarray, 4 assays of rplp0 gene were used for normalization. The mean and p (t Student one tail) were then calculated from 4 experiments. The transcripts from either fins and/or organs with >2-fold and p < 0.05 changes were first tabulated and then the rest of the table was completed with their corresponding calculated fold values in organs and/or fins, respectively. Fold, expression level in VHSV-infected tissue/expression level in non-infected tissue. +, increased. -, decreased. ~, similar. Figure 4 shows the representation of the means of all the immune-related genes.
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BMC Genomics

ISSN: 1471-2164

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