Watermint early trichome mRNA Illumina - SRA

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SRX533474: Watermint early trichome mRNA Illumina
1 ILLUMINA (Illumina HiSeq 2000) run: 7.3M spots, 359.5M bases, 238.3Mb downloads

Design: Total RNA was isolated from glandular trichomes using the Invitrogen Concert™ plant RNA purification reagent (small scale RNA isolation) according to the manufacturer's instruction. Then 1-2 µg of RNA was treated with DNase I to eliminate genomic DNA and cleaned-up using QIAGEN RNeasy MinElute kit. The quality of the DNase digested and cleaned-up samples was tested by measuring the A260/280 and A260/230 ratios using a NanoDrop Spectrophotometer (2000 Spectrophotometer, ThermoFisher Scientific) and by RIN (RNA Integrity Number) measurement using Agilent 2100 Bioanalyzer. The samples that passed quality control evaluation were shipped to BGI (HongKong Co., Ltd). At BGI, the samples were enriched for mRNA using oligo-dT magnetic beads. mRNA was fragmented, and first strand cDNA was generated using random hexamer primers. After second strand cDNA synthesis, cDNA was purified with QIAquick PCR extraction kit, and washed with Qiagen EB buffer for end repair. Fragments were ligated to adapters, purified by agarose electrophoresis, enriched by PCR, and sequenced on an Illumina HiSeq 2000 instrument. Sequencing reads were filtered to remove low quality reads, reads with adapters, and reads with unknown bases making up more than 10% of the read. (Adapted from protocol supplied by BGI).

Submitted by: Washington State University

Study: Glandular trichome transcriptome sequencing of genus Mentha.

PRJNA245825 • SRP041687 • All experiments • All runs

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We sought to identify differences in gene expression in glandular trichomes among five members of the genus Mentha: M. x piperita, M. spicata, M. spicata var erospicata, M. arvensis, M. aquatica. Glandular trichomes were isolated from leaves at two different maturity stages from each plant: young (less than half full length), and mature (full length). Single end Illumina Hiseq 2000 reads were generated from mRNA for each condition. The goal was to identify differences in gene expression that explain observed differences in essential oil profiles among species and leaf maturity stages.

Sample: Mentha aquatica L. isolated trichome early

SAMN02739589 • SRS602277 • All experiments • All runs

Organism: Mentha aquatica

Library:

Instrument: Illumina HiSeq 2000

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: unspecified

Layout: SINGLE

Spot descriptor:

1 forward

Runs: 1 run, 7.3M spots, 359.5M bases, 238.3Mb

Run	# of Spots	# of Bases	Size	Published
SRR1271574	7,336,518	359.5M	238.3Mb	2015-07-22

ID:: 734031

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