The developmental proteome of Drosophila melanogaster

Author:

Casas-Vila Nuria,Bluhm Alina,Sayols Sergi,Dinges Nadja,Dejung Mario,Altenhein Tina,Kappei Dennis,Altenhein Benjamin,Roignant Jean-Yves,Butter Falk

Abstract

Drosophila melanogaster is a widely used genetic model organism in developmental biology. While this model organism has been intensively studied at the RNA level, a comprehensive proteomic study covering the complete life cycle is still missing. Here, we apply label-free quantitative proteomics to explore proteome remodeling across Drosophila’s life cycle, resulting in 7952 proteins, and provide a high temporal-resolved embryogenesis proteome of 5458 proteins. Our proteome data enabled us to monitor isoform-specific expression of 34 genes during development, to identify the pseudogene Cyp9f3Ψ as a protein-coding gene, and to obtain evidence of 268 small proteins. Moreover, the comparison with available transcriptomic data uncovered examples of poor correlation between mRNA and protein, underscoring the importance of proteomics to study developmental progression. Data integration of our embryogenesis proteome with tissue-specific data revealed spatial and temporal information for further functional studies of yet uncharacterized proteins. Overall, our high resolution proteomes provide a powerful resource and can be explored in detail in our interactive web interface.

Funder

Rhineland Palatinate Forschungsschwerpunkt GeneRED

Gene Regulation in Evolution and Development

National Research Foundation Singapore

Singapore Ministry of Education

Publisher

Cold Spring Harbor Laboratory

Subject

Genetics(clinical),Genetics

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