GSM1955178: ECM 3month; Populus trichocarpa; Laccaria bicolor; RNA-Seq - SRA

SRX1453370: GSM1955178: ECM 3month; Populus trichocarpa; Laccaria bicolor; RNA-Seq
1 ILLUMINA (Illumina HiSeq 2000) run: 100M spots, 10.1G bases, 6.5Gb downloads

Submitted by: NCBI (GEO)

Study: Transcriptome analyses of the Laccaria bicolor-Populus trichocarpa mycorrhiza

PRJNA304300 • SRP066733 • All experiments • All runs

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Illumina HiSeq2000 technology was used to generate mRNA profiles from the ectomycorrhizal fungi Laccaria bicolor colonizing roots of Populus trichocarpa. Samples were taken after 3 months of contact in order to identify mycorrhiza-regulated transcripts. 100bp reads were generated and aligned to the Populus trichocarpa (http://www.phytozome.net/poplar.php) reference genome. Overall design: mRNA profiles from Populus trichocarpa roots colonized by Laccaria bicolor for three months as well as from control roots were generated by using one lane of 1X100bp Illumina HiSeq2000 sequencing per sample.

Sample: ECM 3month

SAMN04297423 • SRS1181048 • All experiments • All runs

Organism: Populus trichocarpa

Library:

Instrument: Illumina HiSeq 2000

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: cDNA

Layout: SINGLE

Construction protocol: RNA was extracted using the RNAeasy kit (Qiagen) as per the manufacturer's instructions with the addition of 20 mg PEG8000/mL to the extraction RLC buffer solution and an on-column DNA digestion step with DNAse I (Qiagen). RNA qualityb was verified by Experion HighSens capillary gels (Bio-Rad). Four total RNA preparations were pooled and amplified using the SMARTer PCR cDNA Synthesis Kit (Clontech) according to the manufacturer's instructions. cDNA libraries were prepared for sequencing using standard Illumina protocols by Beckman Coulter Genomics (Danvers, MA, USA)

Experiment attributes:

GEO Accession: GSM1955178

Links:

NCBI link: NCBI Entrez (gds)

Runs: 1 run, 100M spots, 10.1G bases, 6.5Gb

Run	# of Spots	# of Bases	Size	Published
SRR2962392	100,024,760	10.1G	6.5Gb	2017-04-03

ID:: 2052781

SRA

Sequence Read Archive

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