title: The developmental proteome ofDrosophila melanogaster.
abstract: Drosophila melanogasteris 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 acrossDrosophila'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 pseudogeneCyp9f3Ψ 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.
authors.affiliation: Quantitative Proteomics, Institute of Molecular Biology, 55128 Mainz, Germany.
authors.forename: Nuria
authors.initials: N
authors.lastname: Casas-Vila
authors.affiliation: Quantitative Proteomics, Institute of Molecular Biology, 55128 Mainz, Germany.
authors.forename: Alina
authors.initials: A
authors.lastname: Bluhm
authors.affiliation: Bioinformatics Core Facility, Institute of Molecular Biology, 55128 Mainz, Germany.
authors.forename: Sergi
authors.initials: S
authors.lastname: Sayols
authors.affiliation: RNA Epigenetics, Institute of Molecular Biology, 55128 Mainz, Germany.
authors.forename: Nadja
authors.initials: N
authors.lastname: Dinges
authors.affiliation: Proteomics Core Facility, Institute of Molecular Biology, 55128 Mainz, Germany.
authors.forename: Mario
authors.initials: M
authors.lastname: Dejung
authors.affiliation: Institute of Genetics, Johannes Gutenberg University, 55128 Mainz, Germany.
authors.forename: Tina
authors.initials: T
authors.lastname: Altenhein
authors.affiliation: Cancer Science Institute of Singapore, National University of Singapore, Singapore 117599.
authors.forename: Dennis
authors.initials: D
authors.lastname: Kappei
authors.affiliation: Institute of Genetics, Johannes Gutenberg University, 55128 Mainz, Germany.|Institute of Zoology, University of Cologne, 50674 Cologne, Germany.
authors.forename: Benjamin
authors.initials: B
authors.lastname: Altenhein
authors.affiliation: RNA Epigenetics, Institute of Molecular Biology, 55128 Mainz, Germany.
authors.forename: Jean-Yves
authors.initials: JY
authors.lastname: Roignant
authors.affiliation: Quantitative Proteomics, Institute of Molecular Biology, 55128 Mainz, Germany.
authors.forename: Falk
authors.initials: F
authors.lastname: Butter
mesh_terms: D000818:Animals; D029721:Drosophila Proteins / Q000096:biosynthesis*; D004331:Drosophila melanogaster; D018507:Gene Expression Regulation, Developmental / Q000502:physiology*; D020543:Proteome / Q000096:biosynthesis*
chemical_list: D029721:Drosophila Proteins; D020543:Proteome