Comment[ArrayExpressAccession]	E-MTAB-1285
Investigation Title	Effect of Deformed wing virus (DWV) and Varroa destructor (mite)  on gene expression in honeybee (Apis mellifra) pupae
Comment[Submitted Name]	Effect of Deformed wing virus (DWV) and Varroa destructor (mite)  on gene expression in honeybee (Apis mellifra) pupae
Experiment Description	Experiment was designed to study the effect of Deformed wing virus (DWV) and the mite Varroa destructor on global gene expression using microarray transcriptional profiling in developing worker honeybee (Apis mellifera). Newly hatched bee larvae (day 3 of bee development) were transferred from a Varroa-free colony with low DWV levels to a Varroa-infested colony with high levels of DWV in bees and Varroa mites. All transferred larvae were receiving the DWV strains present in this Varroa-infested colony with the food delivered by the nurse bees until their capping (day 8).   About half of these larvae were capped with Varroa mite and were subjected to the mite piercing and feeding on their haemolymph during pupal development until sampling at purple eye stage (day 14). Exposure to the mite piercing and feeding resulted in about 1000-fold increase of the DWV levels in the majority of the mite-exposed pupae compared to the control pupae and the pupae not exposed to Varroa mites.
Experimental Design	disease_state_design	growth_condition_design	environmental_history_design	replicate_design	co-expression_design
Comment[AEExperimentType]	transcription profiling by array
Comment[AEExperimentDisplayName]	Transcription profiling by array of developing worker honeybee (Apis mellifera) to study the effect of Deformed wing virus (DWV) and the mite Varroa destructor on global gene expression
Experimental Factor Name	ENVIRONMENTAL_HISTORY	GROWTH_CONDITION	DISEASE_STATE
Experimental Factor Type	environmental_history	growth_condition	disease_state
Quality Control Type	dye_swap_quality_control	biological_replicate	technical_replicate
Public Release Date	2013-06-01
Person Last Name	Ryabov
Person First Name	Eugene
Person Mid Initials	V
Person Email	eugene.ryabov@warwick.ac.uk
Person Phone	+44(0)2476572537
Person Address	School of Life Sciences, University of Warwick, Coventry, CV4 7AL, UK
Person Affiliation	School of Life Sciences
Person Roles	submitter;investigator
PubMed ID	24968198
Publication Author List	Ryabov EV, Wood GR, Fannon JM, Moore JD, Bull JC, Chandler D, Mead A, Burroughs N, Evans DJ.
Publication Title	A Virulent Strain of Deformed Wing Virus (DWV) of Honeybees (Apis mellifera) Prevails after Varroa destructor-Mediated, or In Vitro, Transmission.
Publication Status
Protocol Name	P-MTAB-28297	P-MTAB-28298	P-MTAB-28303	P-MTAB-28304	P-MTAB-28305
Protocol Type	specified_biomaterial_action	nucleic_acid_extraction	labeling	hybridization	image_acquisition
Protocol Description	Larvae of worker honeybee, Apis mellifra  (day 3 of bee development), which were hatched from the eggs laid in a colony free from Varroa destructor mites and harbouring low levels of Deformed wing virus (DWV),  were either left to develop in the same Varroa-free hive before sampling at pupal stage (day 15) (EnvironmentalHistory-NoTransfer), or were transferred to a Varroa-infested colony with high levels of DWV in bees and the mites (EnvironmentalHistory -TransferToVarroaColony). All transferred larvae were receiving the DWV strains present in this Varroa-infested colony with the food delivered by the nurse bees until capping on day 9.   About half of these larvae were capped with Varroa mite and were subjected to the mite piercing and feeding on their haemolymph for 5 days during pupal development until sampling on day 14 (GrowthCondition-MiteFeeding), the rest of the pupae developed without the mite (GrowthCondition-NoMite).   Exposure to the mite piercing and feeding resulted in about 1000-fold increase of the DWV levels in about 80% of the mite-exposed pupae (DiseaseState-HighDWV). In the rest of mite-exposed pupae the levels of DWV remained relatively low (DiseaseState -LowMidDWV) and were similar to those in the pupae not exposed to the mite.	TRIzol reagent (Invitrogen) extraction of total RNA from individual whole pupae; RNA clean-up with Qiagen Rneasy Plant Mini kit;	Cy3,Cy5 low input RNA fluorescent linear amplification kit (Agilent).	60-mer oligonucleotidide array based on Apis mellifera transcriptome (OGS1) and Apis mellifera fungal and viral pathogens (Agilent ID: 027104, SurePrint G3 Custom GE 8x60K) - ArrayExpress: A-MEXP-2251	Agilent G2565CA scanner
SDRF File	E-MTAB-1285.sdrf.txt
Publication DOI	10.1371/journal.ppat.1004230