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Table 2 Specific salt-responsive transcripts influenced by AtNHX1, organized by functional category

From: Impact of AtNHX1, a vacuolar Na+/H+ antiporter, upon gene expression during short- and long-term salt stress in Arabidopsis thaliana

  

P(f)a

Treatment influenced by AtNHX1b

Transcripts intensity under the influenced treatmentc

Accession

Funtional Classes and Gene Descriptions

L

LxT

 

nhx1 d

wild-type

NHX1::nhx1

 

A. DNA binding elements

      

At3g53730

histone H4

 

**

Control

2511.1

3461.3

4184.2

At5g67580

myb family transcription factor

*

*

Control

287.4

123.8

149.1

At5g35330

methyl-CpG-binding domain-containing protein

***

***

Control

772.7

526.9

508.3

At1g14685

BASIC PENTACYSTEINE 2, BPC2

 

**

Control

555.1

370.5

390.9

At2g36960

myb family transcription factor

 

*

12 h

298.0

368.5

476.0

At2g26150

heat shock transcription factor family protein

 

*

12 h

684.1

98.8

181.5

At3g24500

Transcriptional Coactivator Multiprotein Bridging Factor 1c.

 

*

12 h

1024.0

261.8

393.4

At1g69010

basic helix-loop-helix (bHLH) family protein

**

**

48 h

422.3

278.1

243.7

At3g56980

basic helix-loop-helix (bHLH) family protein

 

*

48 h

503.2

304.3

130.8

At4g25490

DRE-binding protein (DREB1B)/CRT/CRE-binding factor 1 (CBF1)

 

*

48 h

758.3

522.5

569.9

At1g69580

myb family transcription factor

**

*

48 h

236.4

141.3

135.7

At3g54810

zinc finger (GATA type) family proteine

 

**

1 wk

1168.0

571.7

340.6

At2g31730

putative ethylene-responsive protein

 

*

1 wk

293.2

147.8

47.1

At1g21910

DREB A-5 subfamily member, ERF/AP2 transcription factor family

 

*

1 wk

1871.5

771.5

598.6

At3g54810

zinc finger (GATA type) family proteine

 

**

2 wk

473.7

967.6

803.4

At4g00850

GRF1-interacting factor 3 (GIF3), SSXT family protein

 

**

2 wk

366.7

273.8

86.5

At2g04240

zinc finger (C3HC4-type RING finger) family protein

 

**

2 wk

1018.2

539.9

360.6

At5g57660

zinc finger (B-box type) family protein

*

 

All

1108.0

1585.0

1545.2

At4g27410

no apical meristem (NAM) family protein (RD26)

*

 

All

402.0

971.3

870.1

At5g56860

zinc finger (GATA type) family protein

***

 

All

244.5

157.7

125.6

At1g18710

myb family transcription factor (MYB47)

**

 

All

257.3

460.3

467.0

 

B. Signaling Elements

      

At4g34150

C2 domain-containing, similar to calcium-dependent protein kinase

***

**

48 h

2199.5

4215.4

4558.0

At4g08960

phosphotyrosyl phosphatase activator (PTPA) family protein

**

*

1 wk

542.6

377.1

279.9

At5g54380

protein kinase family protein

 

**

1 wk

1866.1

1250.7

826.4

At5g54840

GTP-binding family protein

 

**

1 wk

134.1

60.7

57.2

At5g66210

calcium-dependent protein kinase family protein (CPK28)

 

**

1 wk

367.5

221.8

213.5

At1g52570

phospholipase D alpha 2 (PLD2)/choline phosphatase 2

 

*

2 wk

229.2

99.4

74.5

At2g24160

pseudogene, leucine rich repeat protein family

 

*

2 wk

349.8

160.4

71.7

At2g38750

annexin 4 (ANN4)

***

 

All

511.2

875.1

804.2

At3g09960

calcineurin-like phosphoesterase family protein

*

 

All

59.2

98.7

104.2

At4g21370

putative S-locus protein kinase, pseudogene

*

 

All

63.0

102.8

110.1

At4g04540

protein kinase family protein///protein kinase family protein

**

 

All

412.6

289.1

220.3

At5g56040

leucine-rich repeat protein kinase, putative

**

 

All

930.9

748.2

617.4

At5g67380

casein kinase II alpha chain 1

***

 

All

637.3

496.1

488.6

 

C. Metabolism/Energy Components

      

At4g11600

putative glutathione peroxidase (AtGPX6)

**

*

12 h

3636.1

5433.9

4962.7

At1g68290

bifunctional nuclease, putative

***

*

12 h

105.1

236.2

244.6

At3g16050

putative pyridoxine (Vitamin B6) biosynthesis protein

 

*

12 h

403.6

121.1

227.3

At4g32360

NADP adrenodoxin-like ferredoxin reductase

 

*

48 h

102.5

172.0

203.7

At2g26560

putative patatin (PLP2)

***

**

48 h

1647.2

3298.0

3515.3

At1g56430

putative nicotianamine synthase

 

*

48 h

995.2

433.8

601.6

At3g03520

phosphoesterase family protein

**

*

48 h

208.4

125.2

122.2

At5g05960

protease inhibitor/seed storage/lipid transfer protein (LTP) family protein

 

*

48 h

754.4

423.3

436.3

At3g63440

FAD-binding domain-containing protein/cytokinin oxidase family protein

 

**

48 h

224.6

132.2

48.8

At4g04955

amidohydrolase family protein

 

*

1 wk

204.2

296.5

465.4

At1g63710

cytochrome P450, putative

 

**

1 wk

126.9

67.9

25.9

At2g17570

undecaprenyl pyrophosphate synthetase family protein

 

**

2 wk

112.5

206.2

310.0

At5g19890

putative peroxidase

*

**

2 wk

212.8

99.3

79.7

At1g28480

glutaredoxin family protein

***

 

All

349.1

696.8

1131.5

At2g46650

cytochrome b5, putative

**

 

All

1075.4

1748.2

1638.4

At5g17220

glutathione S-transferase (AtGSTF12, TT19)

*

 

All

270.8

402.7

422.1

At4g39940

adenylylsulfate kinase 2 (AKN2)

**

 

All

1940.2

2675.4

2748.4

At4g04610

5'-adenylylsulfate reductase (APR1)/PAPS reductase homolog (PRH19)

*

 

All

507.7

1362.0

1284.4

At3g22740

homocysteine S-methyltransferase 3 (HMT-3)

***

 

All

622.8

928.0

1155.4

At1g21440

mutase family protein

**

 

All

2176.8

2737.5

2793.7

At1g06520

phospholipid/glycerol acyltransferase family protein

**

 

All

69.9

120.1

126.8

At1g16410

cytochrome P450 family protein (CYP79F1) (bushy1)

***

 

All

280.2

480.4

492.0

At2g32150

haloacid dehalogenase-like hydrolase family protein

***

 

All

357.9

720.0

857.9

At5g47240

MutT/nudix family protein

***

 

All

961.5

1939.5

1471.4

At2g06050

12-oxophytodienoate reductase (OPR3)/delayed dehiscence1 (DDE1)

**

 

All

804.0

1315.1

1454.0

 

D. Structure/Growth Components

      

At2g20000

cell division cycle family protein/CDC family protein

 

*

Control

429.7

274.3

260.2

At2g40610

expansin, putative (EXP8)

*

*

12 hours

792.4

462.8

381.2

At1g27630

cyclin family protein

 

**

48 h

519.1

744.7

913.9

At3g02350

glycosyl transferase family 8 protein

*

*

48 h

1160.2

947.2

609.2

At1g19170

glycoside hydrolase family 28/polygalacturonase (pectinase) family

*

*

48 h

365.0

220.3

177.9

At3g45970

expansin family protein (EXPL1/AtEXLA1)

 

*

1 wk

3701.0

1684.2

1026.0

At3g62720

galactosyl transferase GMA12/MNN10 family protein

 

**

1 wk

2237.1

1459.9

790.3

At5g57560

cell wall-modifying enzyme, endo-xyloglucan transferase (TCH4)

 

**

1 wk

13493.5

6314.8

6047.0

At4g30470

cinnamoyl-CoA reductase-related

 

*

1 wk

756.6

478.9

512.6

At1g57590

putative pectinacetylesterase

*

*

2 wk

143.8

381.3

336.7

At1g16340

putative 3-deoxy-D-manno-2-octulosonate-8-phosphate synthase

 

*

2 wk

352.0

231.3

48.7

At4g16590

glucosyltransferase-related

*

 

All

194.5

578.7

602.4

At1g24070

glycosyl transferase family 2 protein (AtCSLA10)

**

 

All

280.2

509.7

495.6

 

E. Protein Processing

      

At3g17970

chloroplast outer membrane translocon subunit, putative

 

*

Control

252.5

115.4

162.0

At2g20560

DNAJ heat shock family protein

 

*

12 h

413.3

159.6

155.0

At1g08780

prefoldin, putative

 

*

48 h

476.4

303.2

182.0

At2g47440

DNAJ heat shock N-terminal domain-containing protein

 

**

1 wk

3769.5

2247.3

1271.8

At1g08730

myosin heavy chain (PCR43) (XIC)

***

***

2 wk

25.4

147.4

204.6

At5g58810

subtilisin-like serine protease, similar to prepro-cucumisin

***

**

2 wk

24.0

148.8

201.3

At5g59730

exocyst subunit EXO70 family protein

*

 

All

768.8

1096.8

1199.6

At3g25150

nuclear transport factor 2 (NTF2) family protein

***

 

All

693.3

527.6

439.1

At5g64760

26S proteasome regulatory subunit, putative (RPN5)

**

 

All

419.3

340.3

316.2

At1g22740

Ras-related protein (RAB7)/AtRab75/small GTP-binding

***

 

All

1324.9

892.1

703.5

At2g22040

transducin family protein/WD-40 repeat family protein

***

 

All

362.1

283.2

231.5

At5g47820

kinesin-like protein (FRA1)

**

 

All

389.3

303.8

259.8

At4g34980

subtilase family protein (SLP2)

**

 

All

1133.4

899.5

930.4

At3g23670

phragmoplast-associated kinesin-related protein, putative

**

 

All

138.2

101.9

75.6

 

F. Membrane Transport

      

At2g23980

cyclic nucleotide-regulated ion channel (CNGC6)

*

*

Control

393.3

259.6

180.7

At2g47830

cation efflux family/metal tolerance (MTPc1)

 

**

48 h

73.9

149.7

166.0

At1g31470

nodulin-related

 

*

1 wk

223.1

148.5

110.3

At2g25520

phosphate translocator-related

**

 

All

999.7

790.3

773.9

  1. a *, ** and *** indicate significant F values for the plant line effect and line × treatment interaction at the 0.05, 0.01 and 0.001 levels, respectively. An additional 58 salt-responsive AtNHX1 influenced transcripts with unclear functional assignment are not presented and can be found in Additional File 1
  2. b the specific treatment influenced by AtNHX1 for cases of significant interaction, or 'All' for cases where only the plant line effect was significant.
  3. c transcript intensity of the three plant lines for the treatment of interest, with the average expression value of all treatments used when only plant line effect was significant.
  4. d transcript intensity of the nhx1 line is in bold font for cases where the expression level is higher compared to the other lines, normal font signifies reduced expression.
  5. e At3g54810 is represented twice because it showed a significant influence of AtNHX1 at both one week and two weeks of salt treatment, with alternate relative levels of expression of the nhx1 line
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BMC Plant Biology

ISSN: 1471-2229

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