GEO DataSets

(Submitter supplied) Illumina technology was used to generate mRNA profiles of a time course of Laccaria bicolor S238N and Populus tremula x alba 717-1B4 in vitro ectomycorrhizal development. Total RNA was extracted, TruSeq mRNA Stranded libraries were constructed and and sequenced in triplicates (2 x 150 bp Illumina HiSeq3000) at the Genotoul sequencing facilities (Toulouse, France). Raw reads were trimmed for low quality (quality score 0.05), Illumina adapters and sequences shorter than 15 nucleotides and aligned to the L. more...

Organism:

Laccaria bicolor

Type:

Expression profiling by high throughput sequencing

Platform:

GPL31043

37 Samples

Download data: TXT

(Submitter supplied) Illumina technology was used to generate mRNA profiles of Laccaria bicolor mycelium grown under different nutrien conditions. Total RNA was extracted.TruSeq mRNA Stranded libraries were constructed and and sequenced (2 x 150 bp Illumina HiSeq3000) at the Genotoul sequencing facilities (Toulouse, France). Raw reads were trimmed for low quality (quality score 0.05), Illumina adapters and sequences shorter than 15 nucleotides and aligned to the L. more...

Organism:

Laccaria bicolor

Type:

Expression profiling by high throughput sequencing

Platform:

GPL31043

20 Samples

Download data: TXT

(Submitter supplied) Illumina technology was used to generate mRNA profiles of three stages of L. bicolor basidiocarps. Total RNA was extracted separately from cap and stipe.TruSeq mRNA Stranded libraries were constructed and and 2 x 100 bp sequenced using Illumina HiSeq 2000 at the Genotoul sequencing facilities (Toulouse, France). Raw reads were trimmed for low quality (quality score 0.05), Illumina adapters and sequences shorter than 15 nucleotides and aligned to the L. more...

Organism:

Laccaria bicolor

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19637

18 Samples

Download data: TXT

(Submitter supplied) Illumina HiSeq technology was used to generate mRNA profiles from Cenococcum geophilum ectomycorrhizal roots compared to free-living mycelium . Mycorrhizal roots were harvested after 3 months, pooled and used for RNA extraction. Reads of 2X100bp were generated and aligned to Cenococcum geophilum (http://genome.jgi.doe.gov/Cenge3/Cenge3.home.html) reference transcripts using CLC Genomics Workbench 6.

Organism:

Cenococcum geophilum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL22097

6 Samples

Download data: TXT

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

Organism:

Piloderma croceum; Serendipita vermifera; Paxillus involutus; Suillus luteus; Amanita muscaria; Hebeloma cylindrosporum; Oidiodendron maius; Tulasnella calospora

Type:

Expression profiling by high throughput sequencing

10 related Platforms

42 Samples

Download data: TXT

(Submitter supplied) Illumina HiSeq technology was used to generate mRNA profiles from Suillus luteus ectomycorrhizal roots compared to free-living mycelium . Mycorrhizal roots were harvested after 40 days, pooled and used for RNA extraction. Reads of 2X100bp were generated and aligned to Suillus luteus (http://genome.jgi-psf.org/Suilu1/Suilu1.home.html) using CLC Genomics Workbench 6.

Organism:

Suillus luteus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19513

4 Samples

Download data: TXT

(Submitter supplied) Illumina HiSeq technology was used to generate mRNA profiles from Piloderma croceum ectomycorrhizal roots compared to free-living mycelium . Mycorrhizal roots were harvested after 8 weeks, pooled and used for RNA extraction. Reads of 2X100bp were generated and aligned to Piloderma croceum (http://genome.jgi-psf.org/Pilcr1/Pilcr1.home.html) using CLC Genomics Workbench 6.

Organism:

Piloderma croceum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19512

6 Samples

Download data: TXT

(Submitter supplied) Illumina HiSeq technology was used to generate mRNA profiles from Paxillus involutus ectomycorrhizal roots compared to mycelium patches . Mycorrhizal roots were harvested after 4 weeks, pooled and used for RNA extraction. Reads of 2X100bp were generated and aligned to Paxillus involutus (http://genome.jgi-psf.org/Paxin1/Paxin1.home.html) using CLC Genomics Workbench 6.

Organism:

Paxillus involutus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19511

4 Samples

Download data: TXT

(Submitter supplied) Illumina HiSeq technology was used to generate mRNA profiles from Sebacina vermifera mycorrhizal roots compared to free-living mycelium . Mycorrhizal roots were harvested after 3, 7 and 14 days, pooled and used for RNA extraction. Reads of 2X100bp were generated and aligned to Sebacina vermifera (http://genome.jgi-psf.org/Sebve1/Sebve1.home.html) using CLC Genomics Workbench 6.

Organism:

Serendipita vermifera

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19510

6 Samples

Download data: TXT

(Submitter supplied) Illumina HiSeq technology was used to generate mRNA profiles from Oidiodendron maius mycorrhizal roots compared to free-living mycelium . Mycorrhizal roots and control mycelium were harvested after 45 days and used for RNA extraction. Reads of 2X100bp were generated and aligned to Oidiodendron maius transcripts (http://genome.jgi-psf.org/Oidma1) using CLC Genomics Workbench 6.

Organism:

Oidiodendron maius

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19509

6 Samples

Download data: TXT

(Submitter supplied) Illumina HiSeq technology was used to generate mRNA profiles from Tulasnella calospora mycorrhizal protocorms compared to free-living mycelium . Protocorms and control mycelium were harvested after 30 days and used for RNA extraction. Reads of 2X100bp were generated and aligned to Tulasnella calospora transcripts (http://genome.jgi-psf.org/Tulca1) using CLC Genomics Workbench 6.

Organism:

Tulasnella calospora

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19502

6 Samples

Download data: TXT

(Submitter supplied) Illumina HiSeq technology was used to generate mRNA profiles from Hebeloma cylindrosporum ectomycorrhizal root tips compared to free-living mycelium . Ectomycorrhizal root tips and control mycelium were harvested after 3 weeks and used for RNA extraction. Reads of 150 bp were generated and aligned to Hebeloma cylindrosporum transcripts (http://genome.jgi-psf.org/Hebcy2) using CLC Genomics Workbench 7.

Organism:

Hebeloma cylindrosporum

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL19500 GPL19501

6 Samples

Download data: TXT

(Submitter supplied) Illumina HiSeq technology was used to generate mRNA profiles from Amanita muscaria ectomycorrhizal root tips compared to free-living mycelium . Ectomycorrhizal root tips and control mycelium were harvested after 6 weeks and used for RNA extraction. Reads of 150 bp were generated and aligned to Amanita muscaria transcripts (http://genome.jgi-psf.org/Amamu1) using CLC Genomics Workbench 7.

Organism:

Amanita muscaria

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL19499 GPL19498

4 Samples

Download data: TXT

(Submitter supplied) This study characterizes the transcriptomic alterations of Laccaria bicolor S238N during interaction with Pseudotsuga menziesii. Three time-points were analyzed, two weeks, four weeks and six weeks after inoculation and compared to the transcriptome of free-living mycelium from Laccaria bicolor S238N.

Organism:

Laccaria bicolor; Laccaria bicolor S238N-H82; Pseudotsuga menziesii

Type:

Expression profiling by array

Platform:

GPL14641

12 Samples

Download data: PAIR

(Submitter supplied) This study characterizes the transcriptomic alterations of Laccaria bicolor S238N during interaction with P. trichocarpa. Four time-points were analyzed, two weeks, four weeks , six weeks and twelve weeks after inoculation and compared to the transcriptome of free-living mycelium from Laccaria bicolor S238N

Organism:

Populus trichocarpa; Laccaria bicolor S238N-H82; Laccaria bicolor

Type:

Expression profiling by array

Platform:

GPL14641

19 Samples

Download data: PAIR

(Submitter supplied) The Transcriptome of different tissues and developmental stages of Tuber melanosporum was analyzed. The array probes were designed from gene models taken from the French Genoscope - Centre National de Séquençage Tuber melanosporum genome sequence version 1. One aim of this study was to verify the expression of the automatically annotated gene models in various tissues and to use this transcriptional information to confirm, to correct or to reject gene models. more...

Organism:

Corylus avellana; Tuber melanosporum

Type:

Expression profiling by array

Platform:

GPL8982

16 Samples

Download data: TXT

(Submitter supplied) To investigate which genes are affected by MiSSP7, a secreted effector protein of Laccaria bicolor, we analyzed the transcriptomes of poplar roots incubated with MiSSP7 protein.

Organism:

Populus tremula x Populus alba; Populus trichocarpa

Type:

Expression profiling by array

Platform:

GPL13485

6 Samples

Download data: PAIR

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

Organism:

Populus trichocarpa; Populus tremula x Populus tremuloides; Populus tremula x Populus alba

Type:

Expression profiling by array; Expression profiling by high throughput sequencing

Platforms:

GPL13485 GPL18583

40 Samples

Download data: PAIR, TXT

(Submitter supplied) Illumina HiSeq technology was used to generate mRNA profiles from Populus tremula x alba INRA 717-1B4 roots treated with Methyl jasmonate. Samples were harvested after two weeks either from untreated control roots or from Methyl jasmonate treated roots. Paired-end (2X100bp) reads were generated and aligned to the Populus trichocarpa (http://www.phytozome.net/poplar.php) using CLC Genomics Workbench 6.

Organism:

Populus tremula x Populus alba

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18583

4 Samples

Download data: TXT

(Submitter supplied) The Poplar transcriptome was analyzed in Populus tremulaxPopulus alba clone 717-1B4 control roots and in two poplar lines overexpressing MiSSP7.

Organism:

Populus trichocarpa; Populus tremula x Populus alba

Type:

Expression profiling by array

Platform:

GPL13485

9 Samples

Download data: PAIR, TXT