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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).