title: Spatial mapping of protein abundances in the mouse brain by voxelation integrated with high-throughput liquid chromatography-mass spectrometry.
abstract: Temporally and spatially resolved mapping of protein abundance patterns within the mammalian brain is of significant interest for understanding brain function and molecular etiologies of neurodegenerative diseases; however, such imaging efforts have been greatly challenged by complexity of the proteome, throughput and sensitivity of applied analytical methodologies, and accurate quantitation of protein abundances across the brain. Here, we describe a methodology for comprehensive spatial proteome mapping that addresses these challenges by employing voxelation integrated with automated microscale sample processing, high-throughput liquid chromatography (LC) system coupled with high-resolution Fourier transform ion cyclotron resonance (FTICR) mass spectrometer, and a "universal" stable isotope labeled reference sample approach for robust quantitation. We applied this methodology as a proof-of-concept trial for the analysis of protein distribution within a single coronal slice of a C57BL/6J mouse brain. For relative quantitation of the protein abundances across the slice, an 18O-isotopically labeled reference sample, derived from a whole control coronal slice from another mouse, was spiked into each voxel sample, and stable isotopic intensity ratios were used to obtain measures of relative protein abundances. In total, we generated maps of protein abundance patterns for 1028 proteins. The significant agreement of the protein distributions with previously reported data supports the validity of this methodology, which opens new opportunities for studying the spatial brain proteome and its dynamics during the course of disease progression and other important biological and associated health aspects in a discovery-driven fashion.
authors.affiliation: Biological Sciences Division and Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, Richland, WA 99352, USA.
authors.forename: Vladislav A
authors.initials: VA
authors.lastname: Petyuk
authors.forename: Wei-Jun
authors.initials: WJ
authors.lastname: Qian
authors.forename: Mark H
authors.initials: MH
authors.lastname: Chin
authors.forename: Haixing
authors.initials: H
authors.lastname: Wang
authors.forename: Eric A
authors.initials: EA
authors.lastname: Livesay
authors.forename: Matthew E
authors.initials: ME
authors.lastname: Monroe
authors.forename: Joshua N
authors.initials: JN
authors.lastname: Adkins
authors.forename: Navdeep
authors.initials: N
authors.lastname: Jaitly
authors.forename: David J
authors.initials: DJ
authors.lastname: Anderson
authors.forename: David G
authors.initials: DG
authors.lastname: Camp
authors.forename: Desmond J
authors.initials: DJ
authors.lastname: Smith
authors.forename: Richard D
authors.initials: RD
authors.lastname: Smith
mesh_terms: D000818:Animals; D001921:Brain / Q000378:metabolism*; D002853:Chromatography, Liquid / Q000379:methods*; D051379:Mice; D008810:Mice, Inbred C57BL; D010103:Oxygen Isotopes; D011506:Proteins / Q000145:classification / Q000378:metabolism*; D040901:Proteomics / Q000379:methods*; D012333:RNA, Messenger / Q000378:metabolism*; D053719:Tandem Mass Spectrometry / Q000379:methods*
chemical_list: D010103:Oxygen Isotopes; D011506:Proteins; D012333:RNA, Messenger