A high-quality catalog of the Drosophila melanogaster proteome

Research output: Contribution to journalArticle


title = "A high-quality catalog of the Drosophila melanogaster proteome",
abstract = "Understanding how proteins and their complex interaction networks convert the genomic information into a dynamic living organism is a fundamental challenge in biological sciences. As an important step towards understanding the systems biology of a complex eukaryote, we cataloged 63{\%} of the predicted Drosophila melanogaster proteome by detecting 9,124 proteins from 498,000 redundant and 72,281 distinct peptide identifications. This unprecedented high proteome coverage for a complex eukaryote was achieved by combining sample diversity, multidimensional biochemical fractionation and analysis-driven experimentation feedback loops, whereby data collection is guided by statistical analysis of prior data. We show that high-quality proteomics data provide crucial information to amend genome annotation and to confirm many predicted gene models. We also present experimentally identified proteotypic peptides matching approximately 50{\%} of D. melanogaster gene models. This library of proteotypic peptides should enable fast, targeted and quantitative proteomic studies to elucidate the systems biology of this model organism.",
keywords = "Amino Acid Sequence, Animals, Databases, Protein, Drosophila Proteins, Drosophila melanogaster, Molecular Sequence Data, Proteome, Journal Article, Research Support, N.I.H., Extramural, Research Support, Non-U.S. Gov't",
author = "Erich Brunner and Ahrens, {Christian H} and Sonali Mohanty and Hansruedi Baetschmann and Sandra Loevenich and Frank Potthast and Deutsch, {Eric W} and Christian Panse and {de Lichtenberg}, Ulrik and Oliver Rinner and Hookeun Lee and Pedrioli, {Patrick G A} and Johan Malmstrom and Katja Koehler and Sabine Schrimpf and Jeroen Krijgsveld and Floyd Kregenow and Heck, {Albert J R} and Ernst Hafen and Ralph Schlapbach and Ruedi Aebersold",
year = "2007",
month = "5",
doi = "10.1038/nbt1300",
language = "English",
volume = "25",
pages = "576--83",
journal = "Nature Biotechnology",
issn = "1546-1696",
publisher = "Nature Publishing Group",
number = "5",