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SRX337187: Castanea sativa and Castanea crenata Transcriptome or Gene expression
1 LS454 (454 GS FLX Titanium) run: 258,197 spots, 135.2M bases, 294.3Mb downloads

Design: oly(A) RNA was enriched from 15-30 *g of total RNA using two rounds of the MicroPoly(A) Purist Kit (Applied Biosystems, Ambion, CA), according to the manufacturer’s instructions. A fraction of 200 nanograms of Poly(A) RNA of each isolate was used as starting material for cDNA library construction using Multiplex Identifiers (MIDs) according the cDNA Rapid Library Preparation Method Manual, GS FLX Titanium Series, October 2009 (Roche-454 Life Sciences, Brandford, CT, USA). Briefly, preparing the cDNA libraries consisted of fragmentation of RNA, double-stranded cDNA synthesis using the cDNA Synthesis System Kit with Primer ‘‘random’’ (Roche Diagnostics GmbH, Mannheim, Germany), rapid library MID adaptor ligation and cDNA library quality assessment with a High Sensitivity DNA chip (Agilent Technologies, Palo Alto, CA) on Agilent 2100 Bioanalyzer.
Submitted by: BIOFIG
Study: Castanea Transcriptome or Gene expression
show Abstracthide Abstract
Castanea sativa is declining since the beginning of the XX century due to ink disease caused by P. cinnamomi and P. cambivora, with considerable negative effects on fruit production and ecosystems. With the aim of advancing in the knowledge of defense mecanisms in chestnut to the ink disease, 454 pyrosequencing of four cDNA libraries was achieved. Three clones of the sensitive species C. sativa and 6 clones of the resistant species C. crenata were included, inoculated and mock-inoculated with P. cinnamomi. RNA-seq permitted the comparison of the two species' response to the pathogen at gene expression and pathway level.
Sample: DH
SAMN02318368 • SRS471193 • All experiments • All runs
Organism: soil metagenome
Library:
Name: Csi
Instrument: 454 GS FLX Titanium
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: SINGLE
Spot descriptor:
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Pipeline: show...hide...
ProgramVersion
Signal Processing2.6
GS Assembler2.6
Runs: 1 run, 258,197 spots, 135.2M bases, 294.3Mb
Run# of Spots# of BasesSizePublished
SRR954571258,197135.2M294.3Mb2014-01-31

ID:
474650

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