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SRX2004075: GSM2262748: ere_AA_1; Drosophila erecta; RNA-Seq
1 ILLUMINA (Illumina HiSeq 2500) run: 12.5M spots, 1.2G bases, 848.7Mb downloads

Submitted by: NCBI (GEO)
Study: Developmental hotspots drive transcriptional variability and convergence in the Drosophila olfactory system
show Abstracthide Abstract
The goal of this study was to identify the preponderance of developmental hotspots in the Drosophila olfactory system. Using RNASeq-derived transcriptome profiles of the developing and adult antennae for six different Drosophila species, we show that a few highly variable transcription factors may drive, likely in a combinatorial fashion, high variability in a few select olfactory receptor neuron (ORN) developmental lineages (i.e. developmental hotspots) in an otherwise mostly conserved background. Furthermore, the high variability of these few ORN lineages leads to a correspondingly high probability that they will recruited during the adaptation of the Drosophila olfactory system to specific ecological pressures, one potential example being the remarkably convergent antennal transcriptome profiles in two Drosophila species that have independently evolved the ability to specialize on specific host plants.  Overall design: mRNA profiles from antenna and antennal discs across 4 developmental time points for 6 Drosophila species
Sample: ere_AA_1
SAMN05513879 • SRS1603639 • All experiments • All runs
Library:
Instrument: Illumina HiSeq 2500
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: PAIRED
Construction protocol: Dissected tissue was stored in Trizol reagent for pooling. RNA was extracted using the RNeasy kit (Qiagen) according to the manufacturer’s instructions, including an on-column DNase digestion (Qiagen). RNA concentrations were measured and 700ng RNA was diluted to 60ul total volume with H2O. RNA sequencing libraries were prepared with TruSeq Stranded mRNA Sample Prep Kit (Illumina) according to manufacturer’s instructions. For the RNA fragmentation step, 94˚C, 2min was used with the intention to obtain a median size ~185bp. PCR amplification was done with 15 cycles. A total of 24 multiplexed libraries (barcoded) were accessed for quality and combined together before separation into two identical pooled libraries, which were then subjected to cluster generation followed by Illumina 50bp paired-end sequencing by the UNC High-Throughput Sequencing Facility (HTSF).
Experiment attributes:
GEO Accession: GSM2262748
Links:
Runs: 1 run, 12.5M spots, 1.2G bases, 848.7Mb
Run# of Spots# of BasesSizePublished
SRR400392812,518,4951.2G848.7Mb2016-12-02

ID:
2880029

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