Full-length transcriptome sequencing of spinach - SRA

SRX7765370: Full-length transcriptome sequencing of spinach
1 PACBIO_SMRT (Sequel) run: 15,267 spots, 33.8M bases, 8.3Mb downloads

Design: Total RNA was extracted by grinding tissue in TRIzol reagent (Life technologies) on dry ice and processed following the protocol provided by the manufacturer. The integrity of the RNA was determined with the Agilent 2100 Bioanalyzer and agarose gel electrophoresis. The purity and concentration of the RNA were determined with the Nanodrop micro-spectrophotometer (Thermo fisher). mRNA was enriched by Oligo (dT) magnetic beads. Then the enriched mRNA was reverse transcribed into cDNA using Clontech SMARTer PCR cDNA Synthesis Kit. PCR cycle optimization was used to determine the optimal amplification cycle number for the downstream large-scale PCR reactions. Then the optimized cycle number was used to generate double-stranded cDNA. In addition, 4kb size selection was performed using the BluePippin TM Size-Selection System and mixed equally with the no-size-selection cDNA. Then large-scale PCR was performed for the next SMRTbell library construction. cDNAs were DNA damage repaired, end repaired, and ligated to sequencing adapters. The SMRTbell template was annealed to sequencing primer and bound to polymerase, and sequenced on the PacBio Sequel platform using P6-C4 chemistry with 10 h movies by Gene Denovo Biotechnology Co. (Guangzhou, China).

Submitted by: Henan Normal University

Study: Full-length transcriptome sequencing of spinach

PRJNA607896 • SRP250242 • All experiments • All runs

show Abstracthide Abstract

The study goal is to uncover the exact full-length of mRNA, alternative splicing events, alternative polyadenylation evens, SNP, fusion and long non-coding RNA, etc., which increased the diversity of spinach transcriptome. This work will provide voluable information for functional research in spianch and related plants.

Sample:

SAMN14150129 • SRS6182313 • All experiments • All runs

Organism: Spinacia oleracea

Library:

Name: Sp-Mix

Instrument: Sequel

Strategy: OTHER

Source: TRANSCRIPTOMIC

Selection: cDNA

Layout: SINGLE

Runs: 1 run, 15,267 spots, 33.8M bases, 8.3Mb

Run	# of Spots	# of Bases	Size	Published
SRR11128852	15,267	33.8M	8.3Mb	2020-11-20

ID:: 10143489

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