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| Status |
Public on Jul 02, 2019 |
| Title |
1005-3D |
| Sample type |
SRA |
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| Source name |
females, whole body
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| Organism |
Tribolium castaneum |
| Characteristics |
environment: Dry
strain: Cro1
Sex: female
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| Treatment protocol |
We used four different climatic conditions. A control condition (33°C, 70% relative humidity) , in which the beetles had lived for more than 20 generations, and three stressful treatments: Dry, Hot, Hot-Dry. The conditions in the treatments were: Hot: 37°C and 70% r. h., Dry: 33°C and 30% r. h., Hot-Dry: 37°C and 30% r. h.
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| Growth protocol |
Beetles were kept in 24h dark on organic wheat flour mixed with 10% organic baker's yeast. Flour and yeast were sterilized by heating them for 12h at 80°C before use. RNA was extracted from the whole body of reproducing females at the age of eight weeks.
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| Extracted molecule |
total RNA |
| Extraction protocol |
RNA Mini Prep kit (Zimo Research, California, USA)
LEXOGEN mRNA-Seq Library Kit (LEXOGEN GmbH, Vienne, Austria)
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
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| Data processing |
reads were mapped against the reference genome(ftp://ftp.ensemblgenomes.org/pub/release30/metazoa/gtf/tribolium_castaneum/Tribolium_castaneum.Tcas3.30.gtf.gz) with STAR v.2.5 (adaptors were trimmed and the first 10 bases were hard trimmed, minimum average quality Q10, minimum tail quality 10, minimum read length 20).
Number of reads per gene were counted with FeatureCounts (gtfFeatureType: exon, featureLevel: gene, allowMultiOverlap=TRUE, minFeatureOverlap=10, minMapQuality=10)
Genome_build: Tcas3.30
Supplementary_files_format_and_content: tab-delimited text files: raw read counts data for each sample
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| Submission date |
Jul 01, 2019 |
| Last update date |
Jul 07, 2019 |
| Contact name |
Eva Koch |
| E-mail(s) |
eva.koch@ieu.uzh.ch
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| Organization name |
University of Zurich
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| Department |
IEU
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| Street address |
Winterthurerstrasse 190
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| City |
Zurich |
| ZIP/Postal code |
8057 |
| Country |
Switzerland |
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| Platform ID |
GPL20193 |
| Series (1) |
| GSE133570 |
Transcriptome of Tribolium castaneum in different climatic conditions |
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| Relations |
| BioSample |
SAMN12172030 |
| SRA |
SRX6384979 |
| 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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