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Items: 1 to 20 of 174

1.

Transcriptome analysis of ARF and Aux/IAA expression during the induction of somatic embryogenesis in Coffea canephora

(Submitter supplied) Somatic embryogenesis (SE) is a useful biotechnological tool to study the morpho-physiological, biochemical and molecular processes during the development of Coffea canephora. Plant growth regulators (PGR) play a key role during cell differentiation in SE. The Auxin-response-factor (ARF) and Auxin/Indole-3-acetic acid (Aux/IAA) are fundamental components involved in the signaling of the IAA. The IAA signaling pathway activates or represses the expression of genes responsive to auxins during the embryogenic transition of the somatic cells. more...
Organism:
Coffea canephora
Type:
Expression profiling by high throughput sequencing
Platform:
GPL26348
12 Samples
Download data: TXT
Series
Accession:
GSE128888
ID:
200128888
2.

Integrative analysis of the late maturation programme and desiccation tolerance mechanisms in intermediate coffee seeds

(Submitter supplied) The intermediate seed category was defined in the early 1990s using coffee (Coffea arabica) as a model. In contrast to orthodox seeds, intermediate seeds cannot survive complete drying, which is a major constraint for seed storage, for both biodiversity conservation and agricultural purposes. However, intermediate seeds are considerably more tolerant to drying than recalcitrant seeds, which are highly sensitive to desiccation. more...
Organism:
Coffea arabica
Type:
Expression profiling by array
Platform:
GPL24372
42 Samples
Download data: TXT
Series
Accession:
GSE107949
ID:
200107949
3.

Coffea canephora sRNA profiling

(Submitter supplied) SRNAs from field collected Coffea canephora leaves were profiled by Illumina sequencing and 63 unique microRNA genes belonging to 34 families were found.
Organism:
Coffea canephora
Type:
Non-coding RNA profiling by high throughput sequencing
Platform:
GPL17111
1 Sample
Download data: TXT
Series
Accession:
GSE46617
ID:
200046617
4.

Fingerprinting the Asterid species using subtracted diversity array reveals novel species-specific sequences.

(Submitter supplied) Asterids is one of the major plant clades comprising of many commercially important medicinal species. One of the major concerns in medicinal plant industry is adulteration/contamination resulting from misidentification of herbal plants. This study reports the construction and validation of a microarray capable of fingerprinting medicinally important species from the Asterids clade.
Organism:
Sambucus nigra; Camellia sinensis; Coffea arabica; Angelica archangelica; Vitex agnus-castus; Trachelospermum jasminoides; asterids; Rehmannia glutinosa; Cornus; Achillea millefolium; Impatiens; Tetrapanax papyrifer; Scrophularia nodosa; Gardenia jasminoides; Forsythia suspensa; Withania somnifera; Ilex paraguariensis; Codonopsis; Valeriana officinalis; Taraxacum officinale; Lonicera japonica; Lycium barbarum; Leonurus cardiaca; Embryophyta; Digitalis purpurea; Platycodon grandiflorus; Symphytum
Type:
Genome variation profiling by array
Platform:
GPL14119
27 Samples
Download data: TXT
Series
Accession:
GSE31242
ID:
200031242
5.

The 'PUCE CAFÉ' project: A genome-wide 15K coffee microarray, a new tool to discover candidate genes correlated to quality traits

(Submitter supplied) Background: Understanding the genetic elements that contribute to key aspects of coffee biology will impact future agronomical improvements for this economically important tree. The past years, EST collections were generated in Coffee, opening the possibility to create new tools for functional genomics. Results: The project PUCE CAFE, set up by the scientific consortium NESTLE/IRD/CIRAD has developed of long oligonucleotide coffee array using public coffee EST sequences mainly obtained from different stages during fruit development and leaves in Coffea canephora (Robusta). more...
Organism:
Coffea arabica
Type:
Expression profiling by array
Platform:
GPL10928
18 Samples
Download data: TXT
Series
Accession:
GSE24754
ID:
200024754
6.

Non-additive gene expression in the natural allopolyploid Coffea arabica is massively affected by growth temperature

(Submitter supplied) Background: Polyploidy has long been recognized as an important mechanism in eukaryotes evolution. Recent studies have documented dynamic changes in plant polyploid gene expression, which reflects genomic and functional plasticity of duplicate genes and genomes in plants. Genomewide approaches in a variety of allopolyploids, mostly synthetics, reveal a trend of non-additive gene expression. The aim of the study was to document expression divergence between a relatively recently formed natural allopolyploid (Coffea arabica) and its ancestral parents (Coffea canephora and Coffea eugenioides) and to verify if the divergence was ‘environment-dependent’.Results: Employing a microarray platform designed against 15,522 unigenes, we assayed gene expression levels in allopolyploid and its two parental diploids. more...
Organism:
Coffea arabica
Type:
Expression profiling by array
Platform:
GPL10928
72 Samples
Download data: TXT
Series
Accession:
GSE24682
ID:
200024682
7.

Shoot tip tissue: Tall Mokka vs Typica.

(Submitter supplied) The closely related Coffea arabica cultivars ‘Tall Mokka’ and ‘Typica’, with excellent flavor, but differing distinctively in the size of aerial organs, branching pattern and branch numbers. Differential gene expression analysis of shoot tips of arabica coffee cultivars 'Tall Mokka' and 'Typica' were done using Potato cDNA microarray as cross-species platform. Using cross-species microarray hybridization, we identified a prolyl oligopeptidase (CaPOP) gene as differentially expressed between the shoot tips of ‘Tall Mokka’ and ‘Typica’. more...
Organism:
Solanum tuberosum; Coffea arabica
Type:
Expression profiling by array
Platform:
GPL14110
8 Samples
Download data: GPR
Series
Accession:
GSE31179
ID:
200031179
8.

Coffee leaf miner infestation in coffee plants

(Submitter supplied) Coffee leaf miner is an important plague in coffee crops. Using subtracted cDNA libraries and nylon filter arrays, we analyzed the expression profile of 1536 expressed sequence tags (ESTs) of coffee plants from an hybrid progeny (C. arabica x C. racemosa), containg resistant (R) and susceptible plants (S) to the infestation of coffee leaf miner. Leaf discs were collected from non-infested plants (R control - RC; S control - SC), infested plants after moth oviposition (R oviposition - Ro; S oviposition - So) and infested after larvar eclosion (R eclosion - Re; S eclosion - Se). more...
Organism:
Coffea; Coffea hybrid cultivar
Type:
Expression profiling by array
Platform:
GPL1730
6 Samples
Download data
Series
Accession:
GSE2045
ID:
200002045
9.

Illumina NextSeq 500 (Coffea canephora)

Organism:
Coffea canephora
1 Series
12 Samples
Download data
Platform
Accession:
GPL26348
ID:
100026348
10.

MGX_Coffee_microarray_15K [PROBE NAME]

(Submitter supplied) The Coffea Genome Oligo contains 15.580 70mers representing 15.580 genes. The Coffea canephora long oligonucleotide set was designed and synthetized by Operon (Town, State) based on the SGN Coffee built II (15721 unigenes; http://solgenomics.net/ ). An amino linker was attached to the 5'-end of each oligonucleotide. The oligonucleotides, selected to limit secondary structure, have a melting temperature of 67 ± 3°C, length 65 ± 5 bases, GC content 43 ± 5 %. more...
Organism:
Coffea arabica
1 Series
42 Samples
Download data
Platform
Accession:
GPL24372
ID:
100024372
11.

Illumina HiSeq 2000 (Coffea canephora)

Organism:
Coffea canephora
1 Series
1 Sample
Download data
Platform
Accession:
GPL17111
ID:
100017111
12.

MGX_Coffee_microarray_15K

(Submitter supplied) The Coffea Genome Oligo contains 15.580 70mers representing 15.580 genes. The Coffea canephora long oligonucleotide set was designed and synthetized by Operon (Town, State) based on the SGN Coffee built II (15721 unigenes; http://solgenomics.net/ ). An amino linker was attached to the 5'-end of each oligonucleotide. The oligonucleotides, selected to limit secondary structure, have a melting temperature of 67 ± 3°C, length 65 ± 5 bases, GC content 43 ± 5 %. more...
Organism:
Coffea arabica
2 Series
90 Samples
Download data
Platform
Accession:
GPL10928
ID:
100010928
13.

coffee nylon arrays

(Submitter supplied) Nylon membranes containing coffee ESTs from subtracted cDNA librares. Plasmid clones were used. A set of sixteen 96-well plates was spotted on two nylon filters (85 mm x 125 mm) in a 4 x 4 array configuration, with a 96 pins hand-held array tool
Organism:
Coffea hybrid cultivar
1 Series
6 Samples
Download data
Platform
Accession:
GPL1730
ID:
100001730
14.

21_2_DAI

Organism:
Coffea canephora
Source name:
Foliar tissue
Platform:
GPL26348
Series:
GSE128888
Download data: TXT
Sample
Accession:
GSM3688011
ID:
303688011
15.

21_1_DAI

Organism:
Coffea canephora
Source name:
Foliar tissue
Platform:
GPL26348
Series:
GSE128888
Download data: TXT
Sample
Accession:
GSM3688010
ID:
303688010
16.

2_2_DAI

Organism:
Coffea canephora
Source name:
Foliar tissue
Platform:
GPL26348
Series:
GSE128888
Download data: TXT
Sample
Accession:
GSM3688009
ID:
303688009
17.

2_1_DAI

Organism:
Coffea canephora
Source name:
Foliar tissue
Platform:
GPL26348
Series:
GSE128888
Download data: TXT
Sample
Accession:
GSM3688008
ID:
303688008
18.

1_2_DAI

Organism:
Coffea canephora
Source name:
Foliar tissue
Platform:
GPL26348
Series:
GSE128888
Download data: TXT
Sample
Accession:
GSM3688007
ID:
303688007
19.

1_1_DAI

Organism:
Coffea canephora
Source name:
Foliar tissue
Platform:
GPL26348
Series:
GSE128888
Download data: TXT
Sample
Accession:
GSM3688006
ID:
303688006
20.

0_2_DBI

Organism:
Coffea canephora
Source name:
Foliar tissue
Platform:
GPL26348
Series:
GSE128888
Download data: TXT
Sample
Accession:
GSM3688005
ID:
303688005
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