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Sample GSM2350419 Query DataSets for GSM2350419
Status Public on Oct 19, 2016
Title 5LFS
Sample type SRA
Source name whole larva
Organism Drosophila melanogaster
Characteristics genotype: Canton S
developmental stage: 3rd stage larva
Growth protocol The research objects were placed in the Foton-M4 satellite in 50-ml plastic Falcon-type tubes in three BB-2 blocks of the BB-1F scientific equipment and exposed to passive oxygenation using the air medium of the satellite. Thirty tubes with air-permeable stoppers were placed into each BB-2 block. The tubes contained the firm standard (for breeding Drosophila) nutrient medium with the following composition: water – 1,000 ml, agar-agar – 7 g, sugar – 40 g, semolina – 40 g, baker’s yeast – 25 g, and propionic acid – 10 ml.
Extracted molecule polyA RNA
Extraction protocol Each group contained 20 larvae. The total RNA was isolated from the larvae of all study groups using TRIzol reagent (Invitrogen, USA) according to the manufacturer’s instructions.
Equal amounts of RNA from each sample were selected and the cDNA libraries were prepared using Illumina TruSeq RNA Library Preparation Kit v2 (Illumina, USA), according to the manufacturer’s instructions.
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina MiSeq
Description The 5th generation larvae whose grandparents were born during the flight of the Foton-M4 satellite and whose parents were left of Earth
Data processing The data obtained after sequencing were analysed using Galaxy (
The intersection analisys and the comparison of direct and reverse reads, as well as the alignment relative to the reference genome were performed using the tophat2 application.
The identification of transcripts was performed using Cufflinks. The FPKM was used to determine the mRNA content of each gene
The absolute log2ratio ≥1 was used as the limit to assess the differential gene expression in different comparison groups
Genome_build: BDGP R5/dm3
Supplementary_files_format_and_content: Microsoft Excel table summarising FPKM values for each gene in all samples.
Submission date Oct 18, 2016
Last update date May 15, 2019
Contact name Daniil Maksimov
Organization name MCB NSC RAS
Lab Genomics lab
Street address Lavrentjeva ave., 8/2
City Novosibirsk
ZIP/Postal code 630090
Country Russia
Platform ID GPL16479
Series (1)
GSE88866 The development of Drosophila melanogaster during space flight
Reanalyzed by GSM3282135
BioSample SAMN05916057
SRA SRX2250381

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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