mRNAseq of specific Brassicaceae accession: Sample Y03 - SRA

SRX1565680: mRNAseq of specific Brassicaceae accession: Sample Y03
1 ILLUMINA (Illumina HiSeq 2500) run: 53.3M spots, 5.4G bases, 3.5Gb downloads

Design: "The libraries were normalised and equimolar pooled to 10 nM using elution buffer (Qiagen) . The library pool was then diluted to 2 nM with NaOH and 5?L transferred into 995?L HT1 (Illumina) to give a final concentration of 10pM. Each pool was spiked with 1% PhiX Control v3 and the flow cell was clustered using TruSeq SE Cluster Kit v3-cBot-HS. After the clustering procedure, the flow cell was loaded onto the Illumina HiSeq 2500 instrument following manufacturer's instructions. The sequencing chemistry used was TruSeq SBS Kit v3-HS using HiSeq Control Software 2.2.58 and RTA 1.18.64. Reads in bcl format were demultiplexed based on the 6 bp Illumina index by CASSAVA allowing for a one base-pair mismatch per library, and converted to FASTQ format by bcl2fastq."

Submitted by: TGAC

Study: RIPR: Brassica sp. transcriptome

PRJNA309368 • SRP069782 • All experiments • All runs

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The aim of RIPR (Renewable Industrial Products from Rapeseed Project) is to exploit Associative Transcriptomics to identify genes associated with the control of a range of bio-refining targets and fertilizer use traits. Besides,it aims to determine and make available functional genotypes for Brassica diversity collections. This batch focuses on Brassica napus progenitor species.The study involved the elucidation of the genetic component controlling the quantitative variation observed for selected bio-refining traits of rapeseed (tocopherol, phytosterol, waxes and functional polysaccharides) and indicators of nutrient use efficiency, along with the development and validation of molecular markers for the traits and improved germplasm.For that, quantitative analysis of content of seeds or leaves for a set of metabolites and minerals will be analysed in combination with transcriptome data.

Sample:

SAMN04446145 • SRS1279713 • All experiments • All runs

Organism: Brassicaceae

Library:

Name: LIB9700

Instrument: Illumina HiSeq 2500

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: PCR

Layout: SINGLE

Spot descriptor:

1 forward

Runs: 1 run, 53.3M spots, 5.4G bases, 3.5Gb

Run	# of Spots	# of Bases	Size	Published
SRR3152736	53,326,961	5.4G	3.5Gb	2016-08-01

ID:: 2215489

SRA

Sequence Read Archive

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