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Series GSE175506 Query DataSets for GSE175506
Status Public on Sep 12, 2023
Title Gene expression changes in leaves, roots and Laccaria bicolor mycorrhiza of Poplar treated with ozone or stopped watering.
Organisms Populus trichocarpa; Laccaria bicolor
Experiment type Expression profiling by high throughput sequencing
Summary Illumina technology was used to generate mRNA profiles of leaves, roots and Laccaria bicolor mycorrhiza of Poplar treated with ozone or stopped watering. Total RNA was extracted separately from each plant and pooled to 4 biological replicates per condition.TruSeq mRNA Stranded libraries were constructed and and sequenced using Illumina HiSeq 3000 at the Genotoul sequencing facilities (Toulouse, France). Raw reads were filtered and trimmed using erne-filter command. Filtered reads from each library were aligned to P. trichocarpa (https://phytozome-next.jgi.doe.gov/info/Ptrichocarpa_v4_1) using TopHat2 v2.12.
 
Overall design mRNA profiles of leaves, roots and Laccaria bicolor mycorrhiza of Poplar treated with ozone or stopped watering were generated by Illumina HiSeq 3000 (2x150bp). Four biological replicates were sequenced.
 
Contributor(s) de Freitas Pereira M, Cohen D, Hummel I, Kohler A, Vaultier MN, Veneault-Fourrey C
Citation(s) 37715981
Submission date May 25, 2021
Last update date Dec 15, 2023
Contact name Annegret Kohler
E-mail(s) annegret.kohler@inrae.fr
Phone +33 (0)383 394072
Organization name INRAE
Department UMR 1136
Lab Interactions Arbres/Micro-organismes
Street address Centre INRAE Grand Est Nancy
City Champenoux
ZIP/Postal code 54280
Country France
 
Platforms (2)
GPL30192 Illumina HiSeq 3000 (Laccaria bicolor; Populus trichocarpa)
GPL30193 Illumina HiSeq 3000 (Populus trichocarpa)
Samples (60)
GSM5336218 Leaf-inoculated-stop_watering-1 [L-I-SW-1]
GSM5336219 Leaf-inoculated-stop_watering-2 [L-I-SW-2]
GSM5336220 Leaf-inoculated-stop_watering-3 [L-I-SW-3]
Relations
BioProject PRJNA732659
SRA SRP321273

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE175506_RAW.tar 15.6 Mb (http)(custom) TAR (of TXT)
Raw data are available in SRA
Processed data provided as supplementary file

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