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| Status |
Public on Oct 19, 2016 |
| Title |
3LS |
| Sample type |
SRA |
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| Source name |
whole larva
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| Organism |
Drosophila melanogaster |
| Characteristics |
genotype: Canton S
developmental stage: 3rd stage larva
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| 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.
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| 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.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina MiSeq |
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| Description |
3rd instar Larvae Synchronous control collected in the liquid nitrogen 1.5h after satellite landing
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| Data processing |
The data obtained after sequencing were analysed using Galaxy (www.usegalaxy.org).
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.
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| Submission date |
Oct 18, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Daniil Maksimov |
| E-mail(s) |
vift@mail.ru
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| Organization name |
MCB NSC RAS
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| Lab |
Genomics lab
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| Street address |
Lavrentjeva ave., 8/2
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| City |
Novosibirsk |
| ZIP/Postal code |
630090 |
| Country |
Russia |
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| Platform ID |
GPL16479 |
| Series (1) |
| GSE88866 |
The development of Drosophila melanogaster during space flight |
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| Relations |
| Reanalyzed by |
GSM3282128 |
| BioSample |
SAMN05916054 |
| SRA |
SRX2250374 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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