GEO DataSets

(Submitter supplied) Purpose: Kraft pulp yield (KPY) is a key determinant of plantation profitability and increasing the KPY of trees grown in plantations is a major breeding objective. To speed up the breeding process, molecular markers that can predict KPY are desirable. To achieve this goal, we carried out RNA-Seq studies on trees at extremes of KPY in two different trials to identify genes and alleles whose expression correlated with KPY. more...

Organism:

Eucalyptus nitens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18542

12 Samples

Download data: TXT

(Submitter supplied) Purpose: Water stress limits plant survival and production in many parts of the world. Identification of genes and alleles responding to water stress conditions is important in breeding plants better adapted to drought. Currently there are no studies examining the transcriptome wide gene and allelic expression patterns under water stress conditions. We used RNA sequencing (RNA-seq) to identify the candidate genes and alleles and to explore the evolutionary signatures of selection Methods: We studied the effect of water stress on gene expression in Eucalyptus camaldulensis seedlings derived from three natural populations. more...

Organism:

Eucalyptus camaldulensis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15809

12 Samples

Download data: TXT

(Submitter supplied) Histone modifications play an integral role in plant development, but have been poorly studied in woody plants. Investigating chromatin organization in wood-forming tissue and its role in regulating gene expression allows us to understand the mechanisms underlying cellular differentiation during xylogenesis (wood formation) and identify novel functional regions in plant genomes. However, woody tissue poses unique challenges for using high-throughput chromatin immunoprecipitation (ChIP) techniques for studying genome-wide histone modifications in vivo. more...

Organism:

Eucalyptus grandis

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL20030

5 Samples

Download data: BEDGRAPH

(Submitter supplied) The gene expression profiles of the differentiating xylem of 91 Eucalyptus grandis backcross individuals were characterized following a loop design (Churchill, G.A. Nat Genet. 2002 Dec;32 Suppl:490-5). In this design, RNA from genotype 1666 (labeled with Cy5) was hybridized with RNA from genotype 1667 (labeled with Cy3) on the first slide(GEO accession number GSM7637); the same genotype 1667 (now labeled with Cy5) was compared with genotype 1669 (Cy3) on the second slide (GSM7638), and so on. more...

Organism:

Eucalyptus grandis; Eucalyptus tereticornis

Type:

Expression profiling by array

Platform:

GPL348

91 Samples

Download data

(Submitter supplied) The cDNA microarray comprises 2608 ESTs, with four replicates. 555 ESTs represent the UniGene set derived from the sequencing of a cDNA library from Eucalyptus grandis differentiating xylem generated by the Forest Biotechnology Group at NCSU (egx prefix). The remaining 2053 ESTs are from four libraries from Eucalyptus grandis leaf and root tissue and two libraries from Eucalyptus tereticornis flower tissues, kindly made available by DuPont (Scott Tingey, DuPont Crop Genetics, Newark, DE). more...

Organism:

Eucalyptus grandis; Eucalyptus tereticornis

1 Series

24 Samples

Download data: TXT

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

Organism:

Eucalyptus grandis x Eucalyptus urophylla; Eucalyptus

Type:

Expression profiling by array; Other

Platforms:

GPL10916 GPL10939

192 Samples

Download data: TXT

(Submitter supplied) Technological advances are progressively increasing the application of genomics to a wider array of economically and ecologically important species. High-density maps enriched for transcribed genes facilitate the discovery of connections between genes and phenotypes. We report the construction of a high-density linkage map of expressed genes for the heterozygous genome of Eucalyptus using Single Feature Polymorphism (SFP) markers. more...

Organism:

Eucalyptus grandis x Eucalyptus urophylla; Eucalyptus

Type:

Expression profiling by array; Other

Platforms:

GPL10916 GPL10939

136 Samples

Download data: TXT

(Submitter supplied) Technological advances are progressively increasing the application of genomics to a wider array of economically and ecologically important species. High-density maps enriched for transcribed genes facilitate the discovery of connections between genes and phenotypes. We report the construction of a high-density linkage map of expressed genes for the heterozygous genome of Eucalyptus using Single Feature Polymorphism (SFP) markers. more...

Organism:

Eucalyptus grandis x Eucalyptus urophylla; Eucalyptus

Type:

Expression profiling by array; Other

Platform:

GPL10916

56 Samples

Download data: TXT

(Submitter supplied) Agilent 25 mers

Organism:

Eucalyptus

2 Series

128 Samples

Download data

(Submitter supplied) Agilent 25 mers

Organism:

Eucalyptus

3 Series

64 Samples

Download data

(Submitter supplied) Background: Dwarf cottons are more resistant to damage from wind and rain and associated with stable, increased yields, and also desirable source for breeding the machine harvest varieties. In an effort to uncover the transcripts and miRNA networks involved in plant height, the transcriptome and small RNA sequencing were performed based on dwarf mutant Ari1327 (A1), tall-culm mutant Ari3697 (A3) and wild type Ari971 (A9) in Gossypium hirsutum. more...

Organism:

Gossypium hirsutum

Type:

Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

Platform:

GPL16485

6 Samples

Download data: FA, TXT

(Submitter supplied) * In response to gravitational stresses, angiosperm trees form tension wood in the upper sides of branches and leaning stems in which cellulose content is higher, microfibrils are typically aligned closely with the fibre axis and the fibres often have a thick inner gelatinous cell wall layer (G-layer). * Gene expression was studied in Eucalyptus nitens branches oriented at 45° using microarrays containing 4 900 xylem cDNAs, and wood fibre characteristics revealed by X-ray diffraction, chemical and histochemical methods. more...

Organism:

Eucalyptus nitens

Type:

Expression profiling by array

Platform:

GPL5755

8 Samples

Download data: GPR

(Submitter supplied) Background: The investigation of extremophile plant species growing in their natural environment offers certain advantages, chiefly that plants adapted to severe habitats have a repertoire of stress tolerance genes that are regulated to maximize plant performance under physiologically challenging conditions. Accordingly, transcriptome sequencing offers a powerful approach to address questions concerning the influence of natural habitat on the physiology of an organism. more...

Organism:

Eutrema salsugineum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17514

10 Samples

Download data: TXT