RT Journal
A1 Casas-Vila, Nuria
A1 Bluhm, Alina
A1 Sayols, Sergi
A1 Dinges, Nadja
A1 Dejung, Mario
A1 Altenhein, Tina
A1 Kappei, Dennis
A1 Altenhein, Benjamin
A1 Roignant, Jean-Yves
A1 Butter, Falk
T1 The developmental proteome of Drosophila melanogaster
JF Genome Research 
JO Genome Research 
YR 2017 
FD July 01 
VO 27 
IS 7 
SP 1273 
OP 1285 
DO 10.1101/gr.213694.116 
UL http://genome.cshlp.org/content/27/7/1273.abstract 
AB 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.