GEO DataSets

(Submitter supplied) The goal is to examine the molecular aspects underpinning somatic embryogenesis (SE) within shoot tissues of adult white spruce trees by conducting transcriptome-wide expression profiling of shoot explants taken from responsive and nonresponsive genotypes.

Organism:

Picea sitchensis; Picea glauca

Type:

Expression profiling by array

Platform:

GPL15033

20 Samples

Download data: TXT

(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) A 21.8k spruce EST-spotted microarray was utilized to examine the genetic basis of constitutive defenses against herbivory. From twelve-year-old trees originating from partial diallel pedigree that segregates for resistance against Pissodes strobi, bark tissue of apical leaders was harvested at the onset of seasonal growth and natural weevil activity in the field. Our experimental design is based on a priori known genotype. more...

Organism:

Picea; Picea engelmannii x Picea glauca

Type:

Expression profiling by array

Platform:

GPL5423

94 Samples

Download data: TXT

(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) 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) 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) In Cichorium intybus, macroscopic and histological modifications were identified during in vitro cell reactivation and morphogenesis events. The relationships between these modifications and transcript profiles of genes were investigated. Two chicory genotypes derived from the Hungarian landrace Koospol, were tested: K59 is a responsive genotype (embryogenic), as it undergoes cell de- and re-differentiation that leads to somatic embryogenesis (SE). more...

Organism:

Cichorium intybus

Type:

Expression profiling by array

Platform:

GPL8373

5 Samples

Download data: GPR

(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) We used a next-generation sequencing approach, Illumina Digital Gene Expression II (DGEII) technology, to Genome-wide profiling of gene expression during somatic (SE) and zygotic embryo (ZE) development. As a result, 4242 differentially expressed genes (DEGs) were identified between SE and ZE. Expression pattern cluster and functional classification analysis of the differentially expressed genes revealed that large number of genes indicative of response to stress highly expressed in somatic embryos. more...

Organism:

Gossypium hirsutum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16485

6 Samples

Download data: TXT

(Submitter supplied) White pine weevil is a major pest of conifers in North America, especially for Spruce trees. Constitutive defenses are important in understanding defense mechanisms because they constitute the initial barrier to attacks by weevils and other pests. Resistant and susceptible trees exhibit constitutive differences in spruce. To improve our knowledge of their genetic basis, we compared the constitutive expression levels of 17,825 genes between 20 resistant and 20 susceptible trees in interior spruce (Picea glauca).

Organism:

Picea engelmannii x Picea glauca; Picea

Type:

Expression profiling by array

Platform:

GPL5423

20 Samples

Download data: TXT