title: Stable isotope labeling with amino acids in Drosophila for quantifying proteins and modifications.
abstract: Drosophila melanogaster is a common animal model for genetics studies, and quantitative proteomics studies of the fly are emerging. Here, we present in detail the development of a procedure to incorporate stable isotope-labeled amino acids into the fly proteome. In the method of stable isotope labeling with amino acids in Drosophila melanogaster (SILAC fly), flies were fed with SILAC-labeled yeast grown with modified media, enabling near complete labeling in a single generation. Biological variation in the proteome among individual flies was evaluated in a series of null experiments. We further applied the SILAC fly method to profile proteins from a model of fragile X syndrome, the most common cause of inherited mental retardation in human. The analysis identified a number of altered proteins in the disease model, including actin-binding protein profilin and microtubulin-associated protein futsch. The change of both proteins was validated by immunoblotting analysis. Moreover, we extended the SILAC fly strategy to study the dynamics of protein ubiquitination during the fly life span (from day 1 to day 30), by measuring the level of ubiquitin along with two major polyubiquitin chains (K48 and K63 linkages). The results show that the abundance of protein ubiquitination and the two major linkages do not change significantly within the measured age range. Together, the data demonstrate the application of the SILAC principle in D. melanogaster, facilitating the integration of powerful fly genomics with emerging proteomics.
authors: Department of Human Genetics, Center for Neurodegenerative Diseases, Emory University School of Medicine, Atlanta, Georgia 30322, USA.
authors: Ping
authors: P
authors: Xu
authors: Huiping
authors: H
authors: Tan
authors: Duc M
authors: DM
authors: Duong
authors: Yanling
authors: Y
authors: Yang
authors: Jeremy
authors: J
authors: Kupsco
authors: Kenneth H
authors: KH
authors: Moberg
authors: He
authors: H
authors: Li
authors: Peng
authors: P
authors: Jin
authors: Junmin
authors: J
authors: Peng
mesh_terms: D000595:Amino Acid Sequence; D000818:Animals; D029721:Drosophila Proteins / Q000032:analysis* / Q000737:chemistry / Q000378:metabolism; D004331:Drosophila melanogaster / Q000737:chemistry* / Q000378:metabolism; D005260:Female; D015151:Immunoblotting; D007553:Isotope Labeling / Q000379:methods*; D008297:Male; D013058:Mass Spectrometry / Q000379:methods; D008969:Molecular Sequence Data; D020543:Proteome / Q000032:analysis* / Q000737:chemistry / Q000378:metabolism; D040901:Proteomics / Q000379:methods*; D015203:Reproducibility of Results; D025801:Ubiquitin / Q000378:metabolism; D054875:Ubiquitination
chemical_list: D029721:Drosophila Proteins; D020543:Proteome; D025801:Ubiquitin