GEO DataSets

(Submitter supplied) The 11K microarray was designed based on the white spruce (Picea gluca [Moench.] Voss) expressed sequence tag (EST) assembly. This assembly comprised 16600 unique contigs sequenced from 17 cDNA libraries, which represented different tissues at a diverse developmental stages and growing conditions. 10400 nonredundant sequences were selected and printed as double, side-by-side on the microarray slide with 4X12 subgrid layout and 132 spots per subgrid. more...

Organism:

Picea glauca

2 Series

30 Samples

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(Submitter supplied) The goal of this experiment is to assess tissue preferential transcript accumulation and fold difference between two tissues that support secondary vascular growth in three spruces: Picea glauca, Picea sitchensis and Picea mariana. Tissues compared are secondary xylem (wood forming tissue located on the internal side of the cambial meristem) and phelloderm (composite sample of the phloem and phelloderm tissues located on the outer side of the cambial meristem).

Organism:

Picea glauca; Picea mariana; Picea sitchensis

Type:

Expression profiling by array

Platform:

GPL15033

100 Samples

Download data: TXT

(Submitter supplied) The goal of this experiment is to evaluate the potential for utilising this oligonucleotide microarray in other species and genera of the Pinaceae family by using comparative RNA hybridizations in four different spruces (Picea spp), two pines (Pinus spp.) and a larch (Larix laricina), across two tissues, xylem and phelloderm.

Organism:

Picea abies; Picea sitchensis; Pinus strobus; Pinus resinosa; Larix laricina; Picea glauca; Picea mariana

Type:

Expression profiling by array

Platform:

GPL15033

142 Samples

Download data: TXT

(Submitter supplied) A small database of transcription profiles called PgGenExpress was developed from over 150 hybridizations spanning eight major tissue types. In total, transcripts were detected for 92% of the genes on the microarray, in at least one tissue. Non-annotated genes were predominantly expressed at low levels in fewer tissues than genes of known or predicted function. Diversity of expression within gene families may be rapidly assessed from PgGenExpress. more...

Organism:

Picea glauca; Picea abies; Picea sitchensis

Type:

Expression profiling by array

Platform:

GPL15033

149 Samples

Download data: TXT

(Submitter supplied) The sequences included in the microarray were selected on the basis of reproducible sequence quality form all of the ESTs and FL-cDNA described for P. glauca in Rigault et al. (2011) and P. sitchensis in Ralph et al. (2008) (Table 1A). To obtain a robust probe set, we selected sequences that were either detected in the two species, verified with two technologies (Sanger and 454) or were derived from a FL-cDNA (Table 1A). more...

Organism:

Picea glauca; Picea sitchensis

10 Series

582 Samples

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(Submitter supplied) Transcriptional profiling of primary xylem tranformed cells comparing control empty vector to PtaHB-1 overexpressed Over-expression constructs were obtained by inserting the complete coding sequences of PtaHB1 and PtaHB7 from P. tremula x P. alba between the maize ubiquitin promoter (Christensen et al., 1992) and a 35S terminator into the pCambia1305.2 vector (www.cambia.org). The resulting plasmids were then transferred into A. more...

Organism:

Populus trichocarpa x Populus deltoides; Populus tremula x Populus alba

Type:

Expression profiling by array

Platform:

GPL11055

8 Samples

Download data: TXT

(Submitter supplied) Downstream genes of PtVNS genes were explored with inducible expression system using glucocorticoid receptor (GR). Transgenic poplar plants expressing 35S:AtVND7-VP16-GR were treated with dexamethazone (DEX). A number of genes related to the formation of xylem vessels were induced by DEX.

Organism:

Populus tremula x Populus tremuloides; Populus sp.

Type:

Expression profiling by array

Platform:

GPL4359

6 Samples

Download data: CEL

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Picea abies

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29472

84 Samples

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(Submitter supplied) A custom cDNA microarray analysis was designed based on a proprietary cDNA library and EST data to investigate seasonal gene expression in Japanese cedar cambial region.

Organism:

Cryptomeria japonica

Type:

Expression profiling by array

Platform:

GPL18030

60 Samples

Download data: PAIR

(Submitter supplied) Bud formation is an adaptive trait that temperate forest trees have acquired to facilitate seasonal synchronization. We have characterized transcriptome-level changes that occur during bud formation of white spruce (Picea glauca [Moench] Voss.), a primarily determinate species in which preformed stem units contained within the apical bud constitute most of next season's growth. Microarray analysis identified 4460 differentially expressed sequences in shoot tips during short day-induced bud formation. more...

Organism:

Picea glauca

Type:

Expression profiling by array

Platform:

GPL10754

26 Samples

Download data: TXT

(Submitter supplied) This sudy focuses on the identification of transcripts in the shoot phloem of the model plant Arabidopsis thaliana. Transcripts expressed in the phloem tissue (parenchyma cell, companion cell, sieve element) were excised by laser microdissection pressure catapulting (LMPC). These were compared with transcripts isolated from leaf phloem exudates by EDTA-chelation technique. Optimization of sample harvest resulted in RNA of high quality from both sources. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

6 Samples

Download data: CEL, CHP

(Submitter supplied) In the autumn, stems of woody perennials such as forest trees undergo a transition from active growth to dormancy. We used microarray transcriptomic profiling in combination with a proteomics analysis to elucidate processes that occur during this growth-to-dormancy transition in a conifer, white spruce (Picea glauca [Moench] Voss). Several differentially expressed genes were likely associated with the developmental transition that occurs during growth cessation in the cambial zone and the concomitant completion of cell maturation in vascular tissues. more...

Organism:

Picea glauca

Type:

Expression profiling by array

Platform:

GPL10754

4 Samples

Download data: GPR

(Submitter supplied) Six different Solanaceae species, Potato (Solanum tubersosum), Tomato (Lycopersicum esculentum), Pepper (Capsicum annuum), Tobacco (Nicotiana tabaccum), Petunia and Nicotiana benthiamana were grown at 25C, 16h light and 8h darkness. Mature leaves were harvested after 4-6 weeks. RNA was isolated using Qiagen RNeasy. Tomato, pepper, petunia, tobacco and N. benthamiana samples were hybridized against potato samples. more...

Organism:

Capsicum annuum; Nicotiana benthamiana; Petunia x hybrida; Solanum lycopersicum; Nicotiana tabacum; Solanum tuberosum

Type:

Expression profiling by array

Dataset:

GDS2302

Platform:

GPL1901

10 Samples

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Comparison of leaves of Potato to those of 5 other members of the Solanaceae family. The Solanaceae is a family of closely related species with diverse phenotypes that is exploited for agronomic purposes. Results provide insight into the phylogenetic similarity among the six Solanaceae species.

Organism:

Capsicum annuum; Solanum lycopersicum; Nicotiana tabacum; Nicotiana benthamiana; Petunia x hybrida; Solanum tuberosum

Type:

Expression profiling by array, log2 ratio, 5 species sets

Platform:

GPL1901

Series:

GSE3380

10 Samples

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(Submitter supplied) Corning Ultra-GAPS (TM) slides are spotted with 64 pins (8x8) therefore the spotted area is divided into 3 metablocks, each containning 64 blocks of 144 spots (12x12) Protocol: A.thaliana genes were predicted with Eugene software (Foissac S. et al., Nucleic Acids Res., 2003) and gene-specific sequence tags were automatically designed (Thareau et al. Bioinformatics, 2003 Nov 22). Two rounds of PCR were performed and PCR products were finally purified and dissolved in 50% DMSO in TE at concentrations ranging between 50-200ng/ul and re-arrayed in 1536 microtiter plates. more...

Organism:

Arabidopsis thaliana

95 Series

1171 Samples

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(Submitter supplied) We report the discovery of a beta-glucosidase gene (Pgβglu-1) whose expression underpins natural resistance to a major forest pest, the spruce budworm (SBW) in white spruce (Picea glauca (Voss.) Moench). We performed a microarray experiment to compare resistant (R) and non-resistant (N-R) trees. Pgβglu-1 transcripts levels uniquely were up to 1000 times higher in phenotypically resistant trees and correlated with accumulation of acetophenones compounds that reduce SBW development. more...

Organism:

Picea glauca; Picea sitchensis

Type:

Expression profiling by array

Platform:

GPL15033

42 Samples

Download data: TXT

(Submitter supplied) Regeneration is a common strategy for plants to repair their damaged body plans after attack from other organisms or physical assaults. Trees with bark girdling on a large scale will grow new bark within one month and this bark regeneration after girdling system has been proven to be an efficient method to study secondary vascular development as well as plant tissue regeneration in vivo. We herein show the molecular features of differentiating xylem cell fate switch process during secondary vascular tissue (SVT) regeneration in Populus. more...

Organism:

Populus tomentosa; Populus sp.

Type:

Expression profiling by array

Platform:

GPL4359

11 Samples

Download data: CDF, CEL

(Submitter supplied) Contains a row for each intergenic region in each sample, indicating whether our analysis called a window within the region "present" or "absent" in the sample. Intergenic regions are regions containing neither annotated genes nor intergenic clusters. Region coordinates refer to version 3 of the TIGR annotation as submitted to GenBank (GI numbers 22330780, 22326553, 22331929, 22329272, 22328163). Keywords: other

Organism:

Arabidopsis thaliana

Type:

Expression profiling by genome tiling array

16 related Platforms

72 Samples

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(Submitter supplied) Contains a row for each intergenic cluster in each sample, indicating whether our analysis called the cluster "present" or "absent" in the sample. Intergenic clusters are novel (unannotated) genes detected by aligning Arabidopsis cDNAs/ESTs to the genome. Cluster coordinates refer to version 3 of the TIGR annotation as submitted to GenBank (GI numbers 22330780, 22326553, 22331929, 22329272, 22328163). more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by genome tiling array

16 related Platforms

72 Samples

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(Submitter supplied) Contains a row for each annotated gene in each sample, indicating whether our analysis called the region antisense to the coding region of the gene "present" or "absent" in the sample. Gene names and coordinates refer to version 3 of the TIGR annotation as submitted to GenBank (GI numbers 22330780, 22326553, 22331929, 22329272, 22328163). Keywords: other

Organism:

Arabidopsis thaliana

Type:

Expression profiling by genome tiling array

16 related Platforms

72 Samples

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