Rapid Preparation of Nuclei-Depleted Detergent-Resistant Membrane Fractions Suitable for Proteomics Analysis

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Rapid Preparation of Nuclei-Depleted Detergent-Resistant Membrane Fractions Suitable for Proteomics Analysis

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dc.contributor.author Adam, Rosalyn Mare
dc.contributor.author Di Vizio, Dolores
dc.contributor.author Mukhopadhyay, Nishit K.
dc.contributor.author Steen, Hanno
dc.contributor.author Yang, Wei
dc.date.accessioned 2011-04-23T14:21:55Z
dc.date.issued 2008
dc.identifier.citation Adam, Rosalyn M., Wei Yang, Dolores Di Vizio, Nishit K. Mukhopadhyay, and Hanno Steen. 2008. Rapid preparation of nuclei-depleted detergent-resistant membrane fractions suitable for proteomics analysis. BMC Cell Biology 9: 30. en_US
dc.identifier.issn 1471-2121 en_US
dc.identifier.uri http://nrs.harvard.edu/urn-3:HUL.InstRepos:4874783
dc.description.abstract Background: Cholesterol-rich membrane microdomains known as lipid rafts have been implicated in diverse physiologic processes including lipid transport and signal transduction. Lipid rafts were originally defined as detergent-resistant membranes (DRMs) due to their relative insolubility in cold non-ionic detergents. Recent findings suggest that, although DRMs are not equivalent to lipid rafts, the presence of a given protein within DRMs strongly suggests its potential for raft association in vivo. Therefore, isolation of DRMs represents a useful starting point for biochemical analysis of lipid rafts. The physicochemical properties of DRMs present unique challenges to analysis of their protein composition. Existing methods of isolating DRM-enriched fractions involve flotation of cell extracts in a sucrose density gradient, which, although successful, can be labor intensive, time consuming and results in dilute sucrose-containing fractions with limited utility for direct proteomic analysis. In addition, several studies describing the proteomic characterization of DRMs using this and other approaches have reported the presence of nuclear proteins in such fractions. It is unclear whether these results reflect trafficking of nuclear proteins to DRMs or whether they arise from nuclear contamination during isolation. To address these issues, we have modified a published differential detergent extraction method to enable rapid DRM isolation that minimizes nuclear contamination and yields fractions compatible with mass spectrometry. Results: DRM-enriched fractions isolated using the conventional or modified extraction methods displayed comparable profiles of known DRM-associated proteins, including flotillins, GPI-anchored proteins and heterotrimeric G-protein subunits. Thus, the modified procedure yielded fractions consistent with those isolated by existing methods. However, we observed a marked reduction in the percentage of nuclear proteins identified in DRM fractions isolated with the modified method (15%) compared to DRMs isolated by conventional means (36%). Furthermore, of the 21 nuclear proteins identified exclusively in modified DRM fractions, 16 have been reported to exist in other subcellular sites, with evidence to suggest shuttling of these species between the nucleus and other organelles. Conclusion: We describe a modified DRM isolation procedure that generates DRMs that are largely free of nuclear contamination and that is compatible with downstream proteomic analyses with minimal additional processing. Our findings also imply that identification of nuclear proteins in DRMs is likely to reflect legitimate movement of proteins between compartments, and is not a result of contamination during extraction. en_US
dc.language.iso en_US en_US
dc.publisher BioMed Central en_US
dc.relation.isversionof doi:10.1186/1471-2121-9-30 en_US
dc.relation.hasversion http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2440737/pdf/ en_US
dash.license LAA
dc.title Rapid Preparation of Nuclei-Depleted Detergent-Resistant Membrane Fractions Suitable for Proteomics Analysis en_US
dc.type Journal Article en_US
dc.description.version Version of Record en_US
dc.relation.journal BMC Cell Biology en_US
dash.depositing.author Adam, Rosalyn Mare
dc.date.available 2011-04-23T14:21:55Z
dash.affiliation.other HMS^Surgery-Children's Hospital en_US
dash.affiliation.other HMS^Pathology en_US

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