Unknown,Transcriptomics,Genomics,Proteomics

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Developmental transcriptome profiling of sexed Anopheles gambiae pre-adult stages using strand-specific RNA-seq.

ABSTRACT: Overall, the study aims at obtaining a comprehensive picture of the African malaria mosquito, Anopheles gambiae, transcriptome using high-coverage RNA-seq of sexed whole-insect samples collected at different developmental time points. This experiment focuses on male and female transcriptomes from 20 hour old embryos, 12 hour old 3rd instar larvae, 24 hour old 4th instar larvae and 10 hour old pupae sampled using a strand-specific RNA-seq approach.

INSTRUMENT(S): Illumina HiSeq 2000

ORGANISM(S): Anopheles gambiae

SUBMITTER: Jaroslaw Krzywinski

PROVIDER: E-MTAB-2880 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Project description:An analysis of the transcriptional profiles of weak genetic perturbations generated via P-elements measured as heterozygotes in wing imaginal discs of Drosophila melanogaster. Abstract: A major objective of genomics is to elucidate the mapping between genotypic and phenotypic space as a step toward understanding how small changes in gene function can lead to elaborate phenotypic changes. One approach that has been utilized is to examine overall patterns of co-variation between phenotypic variables of interest, such as morphology, physiology and behavior, and underlying aspects of gene activity, in particular transcript abundance on a genome wide scale. Numerous studies have demonstrated that such patterns of co-variation occur, although these are often between samples with large numbers of unknown genetic differences (different strains, or even species) or perturbations of large effect (sexual dimorphism, or strong loss of function mutations), that may represent physiological changes outside of the normal experiences of the organism. We used weak mutational perturbations in genes affecting wing development in Drosophila melanogaster, that influence wing shape relative to a co-isogenic wild-type. We profiled transcription of 1150 genes expressed during wing development in 27 heterozygous mutants, as well as their co-isogenic wild type and one additional wild-type strain. Despite finding clear evidence of expression differences between mutants and wild-type, transcriptional profiles did not co-vary strongly with shape, suggesting that information from transcriptional profiling may not generally be predictive of final phenotype. We discuss these results in the light of possible attractor states of gene expression, and how this would affect interpretation of co-variation between transcriptional profiles and other phenotypes. Total RNA was extracted from pools of wing imaginal discs for each mutant strain as well as for their co-isogenic wild-type, and one additional wild-type strain. RNA was extracted using a modified protocol using the Qiagen RNAeasy kit.

Dataset Information

Developmental transcriptome profiling of sexed Anopheles gambiae pre-adult stages using strand-specific RNA-seq.

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