Skip to main content

Table 2 Misregulated gene profiles from microarray analysis comparing transgenic UBI::PtaHB1 and wild-type lines and RT-qPCR validations.

From: Gene family structure, expression and functional analysis of HD-Zip III genes in angiosperm and gymnosperm forest trees

Poplar Gene ID.

Functional Annotation

Microarray results

RT-qPCR validation

EST

(Genbank)

Populus trichocarpa Genome V 2.01

E value

*POPTR BlastN **NCBI BlastX

q-value (%)

M (log2 fold difference)

M (log2 fold difference)2

SD

CN517570

POPTR_0004s23850

E-45

*predicted protein

3.065

-0.261

N/A

 

CN517617

POPTR_0006s12510

0

**s-adenosylmethionine synthase 6

2.384

0.333

-0.833

0.453

CN517648

POPTR_0005s11070

E-120

**Peroxidase (PO3)

0.000

-0.275

0.017

0.195

CN517711

POPTR_0004s24390

E-90

*predicted protein

3.065

-0.213

N/A

 

CN517879

POPTR_0001s28710

E-42

**Serine/threonine protein kinase

0.000

-0.488

-0.090 *

0.693

CN518033

POPTR_0010s14250

0

*predicted protein

3.065

-0.364

N/A

 

CN518196

scaffold_6:22787285..22789257

E-05

**protein kinase

2.258

-0.179

N/A

 

CN518487

POPTR_0010s12680

E-91

**mitochondrial beta subunit of F1 ATP synthase (PtrAtpB)

2.384

0.320

N/A

 

CN518490

POPTR_0004s22020

E-53

**Fasciclin-like AGP 10

3.065

-0.545

-0.678 *

0.365

CN518917

POPTR_0010s05180

E-27

**putative polygalacturonase, pectidase

2.600

-0.200

N/A

 

CN518924

POPTR_0015s00430

E-41

**Plastid-specific 30 S ribosomal protein 1

3.575

-0.293

N/A

 

CN518966

POPTR_0003s13440

E-73

**progesterone 5-beta-reductase-A

2.384

0.323

N/A

 

CN519065

POPTR_0008s14360

E-171

*Myoinositol oxygenase, Aldehyde reductase

0.000

0.449

0.323 *

0.838

CN519230

POPTR_0015s03670

0

*predicted protein

2.258

-0.272

-0.044 *

0.837

CN519263

POPTR_0022s00750

E-32

**Lactoylglutathione lyase, Glyoxalase putative

3.651

-0.204

N/A

 

CN519295

POPTR_0012s14780

E-30

**Coatomer delta subunit

3.065

-0.266

N/A

 

CN519368

POPTR_0004s21650

0

*phosphate-responsive 1 family protein

0.000

0.567

-0.246

0.404

CN519565

POPTR_0001s22700

E-55

**leucine rich protein, Brassinosteroid insensitve 1-associated receptor kinase (BAK-1)

2.768

-0.314

-0.710 *

0.326

CN520095

POPTR_0005s22210

E-108

**Oxidoreductase activity protein

0.000

0.390

-0.803

0.446

CN520368

POPTR_0008s06940

E-41

**Cys-3-His zinc finger protein

4.086

-0.332

-0.044 *

0.619

CN520805

POPTR_0009s02400

E-93

*leucine rich protein **Brassinosteroid insensitve 1-associated kinase repector, (BAK-1)

0.000

-0.203

-0.424 *

0.344

CN521180

POPTR_0001s13540

E-50

**Lactoylglutathione lyase/glyoxalase 1 family protein

0.000

-0.281

-0.287 *

0.432

CN521321

POPTR_0007s10200

E-14

**hydrolase, alpha/beta fold family protein

2.200

-0.227

N/A

 

CN521367

POPTR_0006s29050

E-27

**ABC1 family protein

3.065

-0.255

N/A

 

CN521610

POPTR_0009s12310

E-86

*Predicted protein

4.086

-0.520

0.059

0.591

CN521704

POPTR_0010s24930

E-21

**DnaJ homolog

3.651

-0.233

N/A

 

CN521866

POPTR_0011s04190

E-49

**Armadillo/beta-catenin repeat family protein

0.000

-0.243

N/A

 

CN522073

POPTR_0017s06630

E-29

**EXS family protein

0.000

-0.259

N/A

 

CN522222

POPTR_0009s10300

E-142

*C3HC4 ring Zn-finger, Anaphase-promoting complex (APC), subunit 11

3.065

-0.258

N/A

 

CN522424

POPTR_0008s23260

E-109

*Ethylene response factor (ERF35) Pt-RAP2.4

2.768

-0.358

N/A

 

CN522566

POPTR_0005s12510

E-163

*Unknown function

0.000

-0.407

N/A

 

CN522696

POPTR_0012s09650

E-81

**4-coumarate-coa ligase (Ptr4CL9)

2.768

-0.214

N/A

 

CN522933

POPTR_0005s19400

E-21

**Branched-chain amino acid aminotransferase, putative

0.000

-0.209

N/A

 

CN522970

POPTR_0005s27930

E-14

**bZIP transcription factor family protein

3.651

-0.297

-0.237 *

0.379

CN523006

POPTR_0006s19770

E-48

**phytocyanin-like arabinogalactan-protein

0.000

0.613

-0.890

0.762

CN523531

POPTR_0006s23940

E-104

**phytanoyl-CoA hydroxylase (PhyH) glycoproteins AGP19

3.065

-0.299

-0.330 *

0.484

CN521717

POPTR_0002s14730

E-26

**Transketolase

0.000

0.261

N/A

 

CN523609

POPTR_0011s13810

E-126

*Translation initiation factor activity SUI1

3.065

-0.281

-0.192 *

0.560

CN522357

POPTR_0007s08390

E-136

**Elongation factor EF-2

3.065

-0.336

-0.533 *

0.427

HO702741

POPTR_0007s12770

0

*Unknown function

0.000

-0.397

-0.679 *

0.300

HO702768

POPTR_0009s13750

E-28

**Farnesylated protein

2.145

-0.388

N/A

 

HO702822

POPTR_0010s00900

E-37

**AP2/Ethylene response factor domain-containing transcription facctor

3.651

-0.517

-1.034

0.860

HO702830

POPTR_0010s01590

E-160

*Late embryogenesis abundant protein 3

3.065

-0.868

-0.983 *

0.561

HO702837

POPTR_0015s06030

E-117

*Unknown fonction

3.065

-0.234

N/A

 

HO702874

POPTR_0010s11840

E-66

*DUF26

2.600

-0.240

N/A

 

HO702885

POPTR_0002s20260

E-61

**Ethylene receptor 1 (ETR1)

3.651

-0.280

N/A

 

HO702895

scaffold_20:856315..856454

E-45

*Unknown function

0.000

-0.360

N/A

 

HO703041

POPTR_0008s20950

E-128

*DUF588, Nitrate, Iron, Fromate dehydrogenase, integral membrane protein

3.065

-0.914

N/A

 
  1. 1 Sequence identified from poplar genome V1.1; was not found in V2.0
  2. 2 Microarray results validated by RT-qPCR are highlighted in black, while grey highlights indicate results were not validated by RT-qPCR. N/A not assayed.
  3. Microarray results are for primary stem tissues. Fold differences (M) were derived from two independent transgenic lines (two plants per line) (see methods, raw data available on NCBI GEO database, accession # GSE24703).