Comment[ArrayExpressAccession]	E-MEXP-3987
Investigation Title	Nkya et al 2014 - Insecticide resistance mechanisms associated with different environments in the malaria vector Anopheles gambiae. A case study in Tanzania																											
Comment[Submitted Name]	Nkya et al 2014 - Insecticide resistance mechanisms associated with different environments in the malaria vector Anopheles gambiae. A case study in Tanzania
Comment[AEExperimentDisplayName]	Transcription profiling by array of nine Anopheles gambiae populations sampled from different environments in Tanzania to investigate insecticide resistance mechanisms																											
Comment[MIAMExpressLogin]	jpdavid																											
Comment[MIAMExpressSubmissionID]	8902																											
Experiment Description	Nine Anopheles gambiae populations were sampled in three areas of Tanzania showing contrasting agriculture activity, urbanization and usage of insecticides for vector control. Insecticide resistance levels were measured in larvae and adults through bioassays with deltamethrin, DDT and bendiocarb. A microarray approach was used for identifying transcription level variations associated to different environments and insecticide resistance. the Ifakara strain originating from central Tanzania and susceptible to all insecticides was used as a reference strain.																											
Experimental Design	strain or line design	reference design	co-expression_design																									
Comment[AEExperimentType]	transcription profiling by array																											
Experimental Factor Name	strain																											
Experimental Factor Type	strain																											
Person Last Name	DAVID																											
Person First Name	Jean-Philippe																											
Person Email	jean-philippe.david@ujf-grenoble.fr																											
Person Phone	0476514459																											
Person Affiliation	CNRS																											
Person Address	Laboratoire d'Ecologie Alpine LECA, 2233 rue de la piscine Bat D biologie, Grenoble, IsM-hre, 38041, France																											
Person Roles	submitter																											
Person Roles Term Source REF	EFO																											
Quality Control Type																												
Public Release Date	2013-10-31																											
Comment[ArrayExpressSubmissionDate]	2013-10-04 17:12:55																											
Publication Title	Insecticide resistance mechanisms associated with different environments in the malaria vector Anopheles gambiae. A case study in Tanzania																											
Publication Status	submitted																											
Protocol Name	P-MTAB-35101	P-MTAB-35102	P-MTAB-35103	P-MTAB-35104	P-MTAB-35105
Protocol Description	scanning was performed as recommended in the 'Two-Color Microarray-Based Gene Expression Analysis Low Input Quick Amp Labeling<br><br>Protocol'<br><br>Version 6.6, September 2012<br>(Parameters: Scanning hardware = G2565AA DNA microarray scanner [Agilent], Scanning software = Feature Extraction Software [Agilent])	pools of twenty five 2-3 days-old adult females Anopheles arabiensis from each population were collected, stored in RNAlater and used for RNA extraction.	Total RNA was extracted from pools of 25 three days-old adult females from each population using the RNAqueous-4PCR kit (Ambion)according to manufacturer's instructions. Total RNAs were treated with DNaseI (Ambion) to remove any genomic DNA contaminant.<br>(Parameters: Extracted product = total_RNA, Amplification = none)	hybridization were performed according to the M-^QTwo-Color Microarray-Based Gene Expression Microarrays Analysis v.6.6' (G4140-900050).<br>(Parameters: Chamber type = Agilent, Quantity of label target used = 300, Mass unit = Nano gram, time = 17, Tiny time unit = hours, Volume unit = Nano litre, temperature = 65)	Anopheles gambiae arabiensis mosquito larvae were collected from 9 different populations in east Tanzania (F0). Larvae were bred in insectary to the adult stage,allowed to mate and lay eggs for the next generation (F1). F1 individuals from each population were bred in standard insectary conditions and used for gene expression study using DNA microarray. Adult females of 2-3 days old (non-blood fed) were used for microarray experiments in comparison with individuals of same sex and life stage form the reference strain Ifakara.																							
Protocol Type	array scanning protocol	pool	nucleic acid extraction protocol	nucleic acid hybridization to array protocol	treatment protocol																							
Protocol Term Source REF	EFO	EFO	EFO	EFO	EFO																							
Term Source Name	EFO	ArrayExpress
Term Source File	http://www.ebi.ac.uk/efo/	http://www.ebi.ac.uk/arrayexpress																										
SDRF File	E-MEXP-3987.sdrf.txt