GSM3423848: CHW1: 14196X9_170505_D00294_0319_BCAJ3JANXX; Anopheles ar... - SRA

SRX4818042: GSM3423848: CHW1: 14196X9_170505_D00294_0319_BCAJ3JANXX; Anopheles arabiensis; RNA-Seq
1 ILLUMINA (Illumina HiSeq 2500) run: 22.2M spots, 5.6G bases, 2.5Gb downloads

Submitted by: NCBI (GEO)

Study: Genome-wide gene expression profiling of three Ethiopian insecticide resistant Anopheles arabiensis populations and two insecticide susceptible Anopheles arabiensis strains

PRJNA495342 • SRP164719 • All experiments • All runs

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Illumina HiSeq 2500 technology was used to sequence the transcriptome of three Ethiopian field populations of An. arabiensis (Asendabo (ASN), Chewaka (CHW) and Tolay (TOL)) and two An. arabiensis strains (Sekoru (SEK, from Ethiopia) and Moz (MOZ, from Mozambique)). Both ASN, CHW and TOL were previously shown to be resistant against delamethrin and DDT, while the two An. arabiensis strains (SEK and MOZ) were both susceptible to deltamethrin and DDT (Alemayehu et al. 2017, DOI: 10.1186/s13071-017-2342-y; Witzig et al. 2013, DOI: 10.1038/hdy.2012.112). Differentially expressed genes (absolute fold change (FC) = 2 and Benjamini-Hochberg adjusted p-value < 0.05) were determined between each insecticide resistant field population (ASN, CHW or TOL) and one of the insecticide susceptible strains (SEK or MOZ). Overall design: mRNA profiles consisting of four biological replicates each for each population (ASN, CHW, TOL) or strain (SEK, MOZ), twenty samples in total, were generated with RNA collected from ten adult female An. arabiensis mosquitoes.

Sample: CHW1: 14196X9_170505_D00294_0319_BCAJ3JANXX

SAMN10222131 • SRS3892595 • All experiments • All runs

Organism: Anopheles arabiensis

Library:

Instrument: Illumina HiSeq 2500

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: cDNA

Layout: PAIRED

Construction protocol: 3-5 days old non-blood-fed An. arabiensis female adult mosquitoes from each population (ASN, CHW or TOL) or strain (SEK, MOZ) were preserved in RNAlater (Ambion, Thermo Fischer Scientific) in a 1.5ml Eppendorf tube. All tubes were stored at -80 oC. Total RNA was extracted from batches of ten female mosquitoes using RNAqueous®-4PCR Kit (Ambion, Thermo Fischer Scientific) protocol. RNA was treated with DNase1 treatment and DNase inactivation according to the instructions of the RNAqueous®-4PCR Kit. Four biological replicates were included for each population and each laboratory strain. Illumina libraries were constructed with the TruSeq Stranded mRNA Library Preparation Kit with polyA selection (Illumina, USA) RNAseq, libraries were sequenced on an Illumina HiSeq 2500 to generate strand-specific paired reads of 2 x 125 bp (High-Throughput Genomics Core of the Huntsman Cancer Institute, University of Utah, Utah, USA). Sequenced reads were trimmed by the sequencing facility.

Experiment attributes:

GEO Accession: GSM3423848

Links:

NCBI link: NCBI Entrez (gds)

Runs: 1 run, 22.2M spots, 5.6G bases, 2.5Gb

Run	# of Spots	# of Bases	Size	Published
SRR7985450	22,209,556	5.6G	2.5Gb	2019-03-20

ID:: 6518119

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