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SRX2764650: GSM2589095: Bm_15; Spodoptera frugiperda; RNA-Seq
1 ILLUMINA (Illumina HiSeq 2000) run: 26.5M spots, 4.8G bases, 3.1Gb downloads

Submitted by: NCBI (GEO)
Study: De novo sequencing of transcriptome of Sf9 cells after Bm-15 overexpression and repression
show Abstracthide Abstract
Small nucleolar RNAs (snoRNA) function in guiding 2'-O-methylation and pseudouridylation of ribosomal RNAs. But we found that knock down of a C/D box snoRNA, Bm-15, can induce apoptosis of insect Spodoptera frugiperda Sf9 cells. For the genome sequence of Spodoptera frugiperda is incomplete, here with the de novo sequencing method, transcriptome of Spodoptera frugiperda cell line Sf9 were sequenced after being transfected with overexpression vector and repression probes of snoRNA Bm-15. Results showed that 21 apoptosis-related genes were up-regulated upon Bm-15 inhibition and down-regulated with Bm-15 overexpression. Overall design: Examination of transcriptome of 3 different samples, normal Sf9 cells, cells with Bm-15 overexpression and repression.
Sample: Bm_15
SAMN06830802 • SRS2149111 • All experiments • All runs
Library:
Instrument: Illumina HiSeq 2000
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: PAIRED
Construction protocol: Total RNA was extracted from different samples of Sf9 cells with the TRIzol (Thermo Fisher Scientific) method. After the total RNA extraction and DNase I treatment, magnetic beads with Oligo (dT) are used to isolate mRNA or by removing rRNAs from the total RNA. Mixed with the fragmentation buffer, the mRNA is fragmented into short fragments. Then cDNA is synthesized using the mRNA fragments as templates. Short fragments are purified and resolved with EB buffer for end reparation and single nucleotide A (adenine) addition. After that, the short fragments are connected with adapters. The suitable fragments are selected for the PCR amplification as templates. During the QC steps, Agilent 2100 Bioanaylzer and ABI StepOnePlus Real-Time PCR System are used in quantification and qualification of the sample library. At last, the library could be sequenced using Illumina HiSeq™ 2000.
Experiment attributes:
GEO Accession: GSM2589095
Links:
Runs: 1 run, 26.5M spots, 4.8G bases, 3.1Gb
Run# of Spots# of BasesSizePublished
SRR548119926,462,3514.8G3.1Gb2019-04-19

ID:
3984263

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