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TransOmic analysis of forebrain sections in Sp2 conditional knockout embryonic mice using IR-MALDESI imaging of lipids and LC-MS/MS label-free proteomics

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Abstract

Quantitative methods for detection of biological molecules are needed more than ever before in the emerging age of “omics” and “big data.” Here, we provide an integrated approach for systematic analysis of the “lipidome” in tissue. To test our approach in a biological context, we utilized brain tissue selectively deficient for the transcription factor Specificity Protein 2 (Sp2). Conditional deletion of Sp2 in the mouse cerebral cortex results in developmental deficiencies including disruption of lipid metabolism. Silver (Ag) cationization was implemented for infrared matrix-assisted laser desorption electrospray ionization (IR-MALDESI) to enhance the ion abundances for olefinic lipids, as these have been linked to regulation by Sp2. Combining Ag-doped and conventional IR-MALDESI imaging, this approach was extended to IR-MALDESI imaging of embryonic mouse brains. Further, our imaging technique was combined with bottom-up shotgun proteomic LC-MS/MS analysis and western blot for comparing Sp2 conditional knockout (Sp2-cKO) and wild-type (WT) cortices of tissue sections. This provided an integrated omics dataset which revealed many specific changes to fundamental cellular processes and biosynthetic pathways. In particular, step-specific altered abundances of nucleotides, lipids, and associated proteins were observed in the cerebral cortices of Sp2-cKO embryos.

TransOmic Analysis of Dorsolateral cortices of Sp2 conditional Knockout mouse embryos. Target tissue was extracted by laser microdissection and analyzed by LC-MS/MS label- free quantitative proteomics. In parallel, lipid imaging of these tissues was performed by conventional IR-MALDESI and Agdoped IR-MALDESI imaging. These data were then integrated to obtain insight into lipid pathways altered by presence or absence of transcription factor Specificity Protein 2

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Acknowledgments

This work was supported by NIH R01NS089795 (HTG), NIH R01GM087964 (DCM), and the NIH/NCSU Molecular Biotechnology Training Grant 5T32GM00-8776-08 (PL). FM acknowledges travel funding from DAAD (German Academic Exchange Service).

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  1. Florian Meier

    Present address: Proteomics and Signal Transduction, Max-Planck-Institute of Biochemistry, Am Klopferspitz 18, 82152, Martinsried, Germany

Authors and Affiliations

  1. W.M. Keck FTMS Laboratory for Human Health Research, Department of Chemistry, North Carolina State University, Raleigh, NC, 27695, USA

    Philip Loziuk, Florian Meier & David C. Muddiman

  2. Department of Chemistry, Saarland University, 66123, Saarbruecken, Germany

    Florian Meier

  3. Department of Molecular Biomedical Sciences, College of Veterinary Medicine, North Carolina State University, Raleigh, NC, 27607, USA

    Caroline Johnson & H. Troy Ghashghaei

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  1. Philip Loziuk
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Correspondence to H. Troy Ghashghaei or David C. Muddiman.

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The authors declare that they have no conflicts of interest. Mice used in this study were bred and housed in the College of Veterinary Medicine vivarium according to Institutional Animal Care and Use Committee (IACUC), North Carolina State University regulations, and Public Health Service (PHS) Policy on Humane Care and Use of Laboratory Animals.

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Philip Loziuk and Florian Meier contributed equally to this work.

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Loziuk, P., Meier, F., Johnson, C. et al. TransOmic analysis of forebrain sections in Sp2 conditional knockout embryonic mice using IR-MALDESI imaging of lipids and LC-MS/MS label-free proteomics. Anal Bioanal Chem 408, 3453–3474 (2016). https://doi.org/10.1007/s00216-016-9421-3

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