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SRX24837532: RNA-Seq of Brachypodium distachyon Bd21-3: three week whole shoot tissue
1 ILLUMINA (Illumina HiSeq 4000) run: 57.3M spots, 17.2G bases, 5.1Gb downloads

Design: A total amount of 1 g RNA per sample was used as input material for the RNA sample preparations. Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, USA) following manufacturers recommendations and index codes were added to attribute sequences to each sample. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads. Fragmentation was carried out using divalent cations under elevated temperature in NEBNext First Strand Synthesis Reaction Buffer (5X). First strand cDNA was synthesized using random hexamer primer and M-MuLV Reverse Transcriptase (RNase H-). Second strand cDNA synthesis was subsequently performed using DNA Polymerase I and RNase H. Remaining overhangs were converted into blunt ends via exonuclease/polymerase activities. After adenylation of 3 ends of DNA fragments, NEBNext Adaptor with hairpin loop structure were ligated to prepare for hybridization. In order to select cDNA fragments of preferentially 150~200 bp in length, the library fragments were purified with AMPure XP system (Beckman Coulter, Beverly, USA). Then 3 l USER Enzyme (NEB, USA) was used with size-selected, adaptor- ligated cDNA at 37 C for 15 min followed by 5 min at 95 C before PCR. Then PCR was performed with Phusion High-Fidelity DNA polymerase, Universal PCR primers and Index (X) Primer. At last, PCR products were purified (AMPure XP system) and library quality was assessed on the Agilent Bioanalyzer 2100 system.
Submitted by: KU Leuven
Study: Transcriptome of BdVRT2 Mutant line versus control
show Abstracthide Abstract
To understand the downstream targets of transcription factor BdVRT2 in Brachypodium Bd21-3
Sample: bdvrt2 T-DNA line biological replicate 6
SAMN41598922 • SRS21549122 • All experiments • All runs
Library:
Name: TDNA6
Instrument: Illumina HiSeq 4000
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: PAIRED
Runs: 1 run, 57.3M spots, 17.2G bases, 5.1Gb
Run# of Spots# of BasesSizePublished
SRR2932103057,339,76617.2G5.1Gb2024-07-01

ID:
33171777

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