RNA-seq of Prorocentrum arenarium - SRA

SRX22876973: RNA-seq of Prorocentrum arenarium
1 DNBSEQ (DNBSEQ-T7) run: 35.6M spots, 10.7G bases, 6.8Gb downloads

Design: After extracting total RNA, the secondary structure was opened by warm denaturation, and mRNA with polyA tails was enriched using magnetic beads attached to Oligo (dT). Enriched mRNA is segmented into small fragments using fragment buffer at appropriate temperature. A one strand synthesis reaction system was prepared using random hexamer primers for reverse transcription to generate the first strand of cDNA. The first strand of cDNA was mixed with DNA polymerase I, buffer, dNTPs, and RNase H and reacted at appropriate temperature to synthesize the second strand. Repair the double stranded cDNA end and add a nucleotide (adenine) to its 3 'end. The synthesized product was purified by Ampure XP beads and dissolved in EB solution. Heat the double stranded PCR product purified in the previous step to denature it into a single stranded DNA, and use a bridge primer to cyclize the single stranded DNA to obtain a single stranded circular DNA (ssCirDNA) library. After digesting the non cyclized linear DNA, the final library is obtained. Single stranded circular DNA molecules are replicated by rolling to form a DNA nanosphere (DNB) containing over 200 copies. The DNBs are added to the network of small pores on the chip using high-density DNA nanochip technology, and can be sequenced using a combined probe anchored polymerization technique (cPAS) to obtain sequencing read lengths of 50 bp/100 bp/150 bp. This study set up 3 biological replicates for each sample and established a total of 9 cDNA libraries. The constructed transcriptome library was subjected to high-throughput sequencing by Shenzhen Huada Gene Technology Co., Ltd., using the BGIseq500 platform (BGI Shenzhen, China). The raw reads obtained from sequencing were subjected to quality control (QC) using Agilent 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA, USA) and ABI StepOnePlus Real Time PCR System (Applied Biosystems, Foster City, CA, USA) for quantitative and qualitative analysis of the cDNA library, and clean reads were obtained for subsequent analysis.

Submitted by: Jinan University

Study: Refining Taxonomic Identification of Prorocentrum through Molecular and Genetic Evolution

PRJNA1051965 • SRP477726 • All experiments • All runs

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Selection of morphologically similar Prorocentrum for transcriptome sequencing and analysis of orthologous genes based on sequencing results for species definition.

Sample: HN231

SAMN38809337 • SRS19849796 • All experiments • All runs

Organism: Prorocentrum arenarium

Library:

Name: P.arenarium-M1-HN231

Instrument: DNBSEQ-T7

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: PCR

Layout: SINGLE

Runs: 1 run, 35.6M spots, 10.7G bases, 6.8Gb

Run	# of Spots	# of Bases	Size	Published
SRR27196882	35,623,238	10.7G	6.8Gb	2023-12-13

ID:: 30932996

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