Table 5 Representative DETs between DEAB and TTNPB with respect to CTRL at 24 and 48 h after RNA-seq analysis.

From: An improved de novo assembling and polishing of Solea senegalensis transcriptome shed light on retinoic acid signalling in larvae

Tentative

\({\hbox {Description}}^{a}\)

Gene

DEAB

TTNPB

transcript ID

 

name

24 h

48 h

24 h

48 h

RA signalling

SOLSEv5.0_49442

Retinoic acid receptor \(\gamma\) B

rargb

NA

NA

NA

1.73*

SOLSEv5.0_14451

Retinoic acid receptor \(\alpha\) A

raraa

\({-0.87}\) 

0.34

\({-}1.81\)*

0.88

SOLSEv5.0_08337

Retinoic acid receptor RXR-\(\beta\)-A

rxrba

\({-}{1.11}\)

\({-}{0.31}\)

\({-}{1.46}\)*

\({-}{0.14}\)

SOLSEv5.0_50356

Cellular retinoic acid binding protein 1

crabp1a

1.11*

0.01

1.28*

\({-}{0.59}\)

SOLSEv5.0_16248

Cellular retinoic acid-binding protein 2

crabp2b

\({-0.30}\)

0.05

1.33*

1.00

SOLSEv5.0_31100

Retinol binding protein 4

rbp4

\({-1.27}\)*

\({-0.13}\)

\({-1.17}\)*

0.05

SOLSEv5.0_14047

Diacylglycerol O-acyltransferase 1

dgat1a

\({-1.42}\)*

\({-0.25}\)

\({-1.76}\)*

0.34

SOLSEv5.0_12778

Aldehyde oxidase 1

aox1

\({-1.30}\)*

0.20

\(-\)1.05*

0.73

RA biosynthesis and degradation

SOLSEv5.0_18848

Lecithin retinol acyltransferase

lrata

NA

NA

2.22*

5.32*

SOLSEv5.0_22413

Lecithin retinol acyltransferase-like

lratb.1

1.10

0.05

2.78*

3.58*

SOLSEv5.0_15374

Putative all-trans-retinol 13,14-reductase

retsat

\(-\)1.51

\(-\)0.65

\(-\)1.82*

\(-\)3.11

SOLSEv5.0_49456

Retinol dehydrogenase 7

rdh7

\(-\)1.68*

\(-\)0.25

\(-\)1.72*

0.48

SOLSEv5.0_07671

Dehydrogenase/reductase 3

dhrs3b

\(-\)2.57*

\( - \)1.97

1.35*

5.34*

SOLSEv5.0_32529

Aldehyde dehydrogenase 1 family member A2

aldh1a2

\(-\)1.07

0.75

\(-\)1.92*

1.21

SOLSEv5.0_28106

\(\beta ,\beta\)-carotene 15,15’-dioxygenase-like

bco1

\(-\)3.34*

\(-\)0.08

\(-\)1.17

0.15

SOLSEv5.0_48894

\(\beta ,\beta\)-carotene 9’,10’-oxygenase-like

bco2a

1.32*

0.12

0.57

\(-\)0.43

SOLSEv5.0_10122

\(\beta ,\beta\)-carotene 9’,10’-oxygenase-like

bco2l

\(-\)2.23*

\(-\)0.32

\(-\)1.07*

2.75*

SOLSEv5.0_12130

Cytochrome P450 26A1

cyp26a1

\(-\)0.91

\(-\)0.54

4.56*

7.75*

SOLSEv5.0_16663

Cytochrome P450 26B1

cyp26b1

\(-\)0.30

0.11

0.04

3.20*

Thyroid axis

SOLSEv5.0_10022

Thyroglobulin

tg

\(-\)1.63

\(-\)0.43

\(-\)3.83*

0.17

SOLSEv5.0_11284

Thyroid hormone receptor \(\alpha\)-B

thrab

\(-\)0.74

\(-\)0.04

\(-\)1.71*

0.53

SOLSEv5.0_00904

Iodothyronine deiodinase 1

dio1

1.37*

0.91

0.62

\(-\)0.04

Phototransduction signalling in retina

SOLSEv5.0_08034

Retinal-specific ATP-binding cassette transporter

abca4

2.25

\(-\)0.05

2.10*

0.05

SOLSEv5.0_03276

RPE-retinal G protein-coupled receptor

rgr

1.52*

1.41*

0.31

\(-\)0.42

SOLSEv5.0_07779

Retinal Mueller cells isomerohydrolase

rpe65b

0.74

\(-\)0.23

1.01*

1.13*

Pigmentation

SOLSEv5.0_43495

GTP cyclohydrolase 1

gch1

\(-\)0.49

\(-\)0.71

0.44

1.28

SOLSEv5.0_16833

Purine nucleoside phosphorylase 5

pnp5a

\(-\)0.10

0.74

\(-\)1.32*

0.16

SOLSEv5.0_41612

Cytosolic purine 5’-nucleotidase

nt5c2

\(-\)0.77

\(-\)0.53

1.08*

1.88*

SOLSEv5.0_19961

G protein-coupled receptor 143

gpr143

1.12

NA

1.33

0.58

Extracellular matrix

SOLSEv5.0_17376

Collagen \(\alpha\)-4(IV) chain

col4a4

0.76

0.07

1.08*

NA

SOLSEv5.0_41972

Collagen type IV \(\alpha\) 5 chain

col4a5

\(-\)0.83

0.09

\(-\)1.64*

NA

SOLSEv5.0_10967

Collagen type IV \(\alpha\) 6 chain

col4a6

\(-\)1.29

\(-\)0.02

\(-\)1.85*

NA

SOLSEv5.0_19543

Collagen \(\alpha\)-2(V) chain

col5a2a

\(-\)1.32

\(-\)0.06

\(-\)1.82*

NA

SOLSEv5.0_10008

Collagen type V \(\alpha\) 3 chain

col5a3

\(-\)0.43

0.57

NA

1.27*

SOLSEv5.0_41833

Collagen type XI \(\alpha\) 1 chain

col11a1b

\(-\)1.55*

0.20

\(-\)1.52*

NA

SOLSEv5.0_41831

Collagen type XI \(\alpha\) 1 chain

col11a1a

\(-\)1.28*

\(-\)0.31

\(-\)1.20*

NA

SOLSEv5.0_14185

Collagen type XVI \(\alpha\) 1 chain

col16a1

\(-\)1.48

\(-\)0.19

\(-\)1.04*

NA

SOLSEv5.0_20615

Collagen \(\alpha\)-1(XXI) chain

col21a1

\(-\)0.88

0.31

NA

1.29*

SOLSEv5.0_50025

Collagen \(\alpha\)-1(XXVIII) chain

col28a2a

\(-\)0.53

0.83

NA

2.11*

SOLSEv5.0_19261

Osteocalcin 2

bglap

\(-\)0.66

\(-\)0.89

NA

\(-\)2.20*

SOLSEv5.0_49404

Procollagen-lysine,2-oxoglutarate 5-dioxygenase 2

plod2

0.01

0.16

NA

1.19*

SOLSEv5.0_49653

Procollagen-lysine,2-oxoglutarate 5-dioxygenase 1

plod1a

\(-\)0.33

0.67

NA

1.98*

  1. Transcript ID as in SOLSEv5.0, gene description, gene name, and mean logFC are indicated.
  2. aDET descriptions confirmed by BLASTing their sequences at NCBI. *: Statistically significant fold-change. NA: logFC was not available for such comparison using the parameters established for the analysis with DEgenes Hunter.