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Comparative characterization of rat hippocampal plasma membrane and mitochondrial membrane proteomes based on a sequential digestion-centered combinative strategy

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Abstract

Plasma membrane (PM) and mitochondrial membrane (MM) proteins of rat hippocampal neurons were identified and comparatively characterized on the basis of a sequential digestion-centered combinative strategy for sample treatment. A total of 478 membrane proteins were identified, of which 240 had PM localization, 170 had MM localization, and 33 had both of the two subcellular localizations. Compared with the PM proteome, the MM proteome not only was smaller, more basic, and more hydrophobic, but also had a narrower protein molecular mass distribution range and a higher proportion of transmembrane proteins. By functional enrichment analysis, 287 molecular function terms for the PM proteome and 173 for the MM proteome were obtained. The MM proteome had a lower percentage of binding function terms and a higher percentage of catalysis function terms than the PM proteome, suggesting that mitochondrial proteins were more inclined to affect the physiological and biochemical processes by binding various molecules and as enzymes. Biological process enrichment showed that the genes of the PM and MM proteomes were mapped to 1104 and 460 biological processes, respectively. The biological processes with the most mapped genes of the PM proteome included those involved in vesicle recycling, transmitter release, neuronal development, protein and ion transport, etc., whereas those involved in electron transport, ATP synthesis, mitochondrial transport, mitochondrial apoptosis, etc., were the most gene-mapped biological processes for the MM proteome. The present work has deepened our understanding of the structure and function of hippocampal neurons and provided reference methods for research in the related field.

Functional comparison of the plasma membrane and mitochondrial membrane proteomes

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Acknowledgements

This work was supported by grants from the National Natural Science Foundation of China (31271135, 81302886) and the Cooperative Innovation Center of Engineering and New Products for Developmental Biology of Hunan Province (20134486).

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Authors and Affiliations

  1. Key Laboratory of Protein Chemistry and Developmental Biology of Ministry of Education, College of Life Sciences, Hunan Normal University, Changsha, Hunan, 410081, China

    Jianying Shen, Jian Zhou, Yong Lin, Zhen Liu, Ping Chen & Xianchun Wang

  2. Research Base of TCM Syndrome, Fujian University of Traditional Chinese Medicine, Fuzhou, Fujian, 350108, China

    Jianying Shen

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  1. Jianying Shen
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  2. Jian Zhou
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  3. Yong Lin
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Correspondence to Xianchun Wang.

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All the procedures involving use of rats in this study conformed to the guidelines of the National Institutes of Health Guide for the Care and Use of Laboratory Animals, and were approved by the Medical Ethics Committee of Hunan Normal University.

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The authors declare that they have no competing interests. The funders of this study had no role in study design, data collection and analysis, decision to publish, or preparation of the article.

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Shen, J., Zhou, J., Lin, Y. et al. Comparative characterization of rat hippocampal plasma membrane and mitochondrial membrane proteomes based on a sequential digestion-centered combinative strategy. Anal Bioanal Chem 410, 3119–3131 (2018). https://doi.org/10.1007/s00216-018-0995-9

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  • DOI: https://doi.org/10.1007/s00216-018-0995-9

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