Abstract
Peroxisomes are dynamic subcellular organelles in mammals, playing essential roles in cellular lipid metabolism and redox homeostasis. They perform a wide spectrum of functions in human health and disease, with new roles, mechanisms, and regulatory pathways still being discovered. Recently elucidated biological roles of peroxisomes include as antiviral defense hubs, intracellular signaling platforms, immunomodulators, and protective organelles in sensory cells. Furthermore, peroxisomes are part of a complex inter-organelle interaction network, which involves metabolic cooperation and cross talk via membrane contacts. The detection of endogenous and/or overexpressed proteins within a cell by immunolabelling informs us about the organellar and even sub-organellar localization of both known and putative peroxisomal proteins. In turn, this can be exploited to characterize the effects of experimental manipulations on the morphology, distribution, and/or number of peroxisomes in a cell, which are key properties controlling peroxisome function. Here, we present a protocol used successfully in our laboratory for the immunolabelling of peroxisomal proteins in cultured mammalian cells. We present immunofluorescence and transfection techniques as well as reagents to determine the localization of endogenous and overexpressed peroxisomal proteins.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
References
Schrader M, Costello JL, Godinho LF et al (2016) Proliferation and fission of peroxisomes – an update. Biochim Biophys Acta Mol Cell Res 1863:971–983
Wanders RJA, Waterham HR (2006) Biochemistry of mammalian peroxisomes revisited. Annu Rev Biochem 75:295–332
Islinger M, Schrader M (2011) Peroxisomes. Curr Biol 21:R800–R801
Silva BSC, DiGiovanni L, Kumar R et al (2020) Maintaining social contacts: the physiological relevance of organelle interactions. Biochim Biophys Acta Mol Cell Res 1867:118800
Sargsyan Y, Thoms S (2020) Staying in healthy contact: how peroxisomes interact with other cell organelles. Trends Mol Med 26(2):201–214
Ferreira AR, Marques M, Ramos B et al (2022) Emerging roles of peroxisomes in viral infections. Trends Cell Biol 32:124–139
Mast FD, Rachubinski RA, Aitchison JD (2015) Signaling dynamics and peroxisomes. Curr Opin Cell Biol 35:131–136
Fransen M, Lismont C (2018) Redox signaling from and to peroxisomes: progress, challenges, and prospects. Antioxid Redox Signal. https://doi.org/10.1089/ars.2018.7515
Delmaghani S, Defourny J, Aghaie A et al (2015) Hypervulnerability to sound exposure through impaired adaptive proliferation of peroxisomes. Cell 163:894–906
Di Cara F, Savary S, Kovacs WJ et al (2022) The peroxisome: an up-and-coming organelle in immunometabolism. Trends Cell Biol S0962-8924(22):00140–00144
Yifrach E, Fischer S, Oeljeklaus S et al (2018) Defining the mammalian peroxisomal proteome. In: del RÃo LA, Schrader M (eds) Subcell Biochem. Springer, Singapore, pp 47–66
Yifrach E, Holbrook-Smith D, Bürgi J et al (2022) Systematic multi-level analysis of an organelle proteome reveals new peroxisomal functions. Mol Syst Biol 18:e11186
Wiese S, Gronemeyer T, Ofman R et al (2007) Proteomics characterization of mouse kidney peroxisomes by tandem mass spectrometry and protein correlation profiling. Mol Cell Proteomics 6:2045–2057
Gronemeyer T, Wiese S, Ofman R et al (2013) The proteome of human liver peroxisomes: identification of five new peroxisomal constituents by a label-free quantitative proteomics survey. PLoS One 8:e57395
Islinger M, Lüers GH, Zischka H et al (2006) Insights into the membrane proteome of rat liver peroxisomes: microsomal glutathione-S-transferase is shared by both subcellular compartments. Proteomics 6:804–816
Koch A, Thiemann M, Grabenbauer M et al (2003) Dynamin-like protein 1 is involved in peroxisomal fission. J Biol Chem 278:8597–8605
Koch A, Yoon Y, Bonekamp NA et al (2005) A role for Fis1 in both mitochondrial and peroxisomal fission in mammalian cells. Mol Biol Cell 16:5077–5086
Costello JL, Schrader M (2018) Unloosing the Gordian knot of peroxisome formation. Curr Opin Cell Biol 50:50–56
Islinger M, Lüers GH, Li KW et al (2007) Rat liver peroxisomes after fibrate treatment. A survey using quantitative mass spectrometry. J Biol Chem 282:23055–23069
Dastig S, Nenicu A, Otte DM et al (2011) Germ cells of male mice express genes for peroxisomal metabolic pathways implicated in the regulation of spermatogenesis and the protection against oxidative stress. Histochem Cell Biol 136:413–425
Karnati S, Baumgart-Vogt E (2009) Peroxisomes in airway epithelia and future prospects of these organelles for pulmonary cell biology. Histochem Cell Biol 131:447–454
Islinger M, Cardoso MJ, Schrader M (2010) Be different--the diversity of peroxisomes in the animal kingdom. Biochim Biophys Acta 1803:881–897
Grzmil P, Burfeind C, Preuss T et al (2007) The putative peroxisomal gene Pxt1 is exclusively expressed in the testis. Cytogenet Genome Res 119:74–82
Kaczmarek K, Niedzialkowska E, Studencka M et al (2009) Ccdc33, a predominantly testis-expressed gene, encodes a putative peroxisomal protein. Cytogenet Genome Res 126:243–252
Carmichael RE, Schrader M (2022) Determinants of peroxisome membrane dynamics. Front Physiol 13:834411
Carmichael RE, Islinger M, Schrader M (2022) Fission impossible (?)-new insights into disorders of peroxisome dynamics. Cells 11:1922
Schrader TA, Carmichael RE, Islinger M et al (2022) PEX11β and FIS1 cooperate in peroxisome division independent of Mitochondrial Fission Factor. J Cell Sci 135:jcs259924
Castro IG, Richards DM, Metz J et al (2018) A role for Mitochondrial Rho GTPase 1 (MIRO1) in motility and membrane dynamics of peroxisomes. Traffic 19:229–242
Azadi AS, Carmichael RE, Kovacs WJ et al (2020) A functional SMAD2/3 binding site in the PEX11β promoter identifies a role for TGFβ in peroxisome proliferation in humans. Front Cell Dev Biol 8:577637
Honsho M, Abe Y, Imoto Y et al (2020) Mammalian homologue NME3 of DYNAMO1 regulates peroxisome division. Int J Mol Sci 21(21):8040
Shamseldin HE, Alshammari M, Al-Sheddi T et al (2012) Genomic analysis of mitochondrial diseases in a consanguineous population reveals novel candidate disease genes. J Med Genet 49:234–241
Delille HK, Agricola B, Guimaraes SC et al (2010) Pex11pbeta-mediated growth and division of mammalian peroxisomes follows a maturation pathway. J Cell Sci 123:2750–2762
Grant P, Ahlemeyer B, Karnati S et al (2013) The biogenesis protein PEX14 is an optimal marker for the identification and localization of peroxisomes in different cell types, tissues, and species in morphological studies. Histochem Cell Biol 140:423–442
Passmore JB, Carmichael RE, Schrader TA et al (2020) Mitochondrial fission factor (MFF) is a critical regulator of peroxisome maturation. Biochim Biophys Acta Mol Cell Res 867(7):118709
Camões F, Islinger M, Guimarães SC et al (2015) New insights into the peroxisomal protein inventory: Acyl-CoA oxidases and -dehydrogenases are an ancient feature of peroxisomes. Biochim Biophys Acta 1853:111–125
Schrader M, Baumgart E, Volkl A et al (1994) Heterogeneity of peroxisomes in human hepatoblastoma cell line HepG2. Evidence of distinct subpopulations. Eur J Cell Biol 64:281–294
Schrader M (2001) Tubulo – reticular clusters of peroxisomes in living COS-7 cells: dynamic behavior and association with lipid droplets. J Histochem Cytochem 49:1421–1429
Schrader TA, Islinger M, Schrader M (2017) Detection and immunolabeling of peroxisomal proteins. In: Schrader M (ed) Methods in molecular biology (Clifton, N.J.). Springer, New York, pp 113–130
Schrader M, Reuber BE, Morrell JC et al (1998) Expression of PEX11beta mediates peroxisome proliferation in the absence of extracellular stimuli. J Biol Chem 273:29607–29614
Schrader TA, Schrader M (2017) siRNA-mediated silencing of peroxisomal genes in mammalian cells. In: Schrader M (ed) Methods in molecular biology (Clifton, N.J.). Springer, New York, pp 69–79
Aroso M, Agricola B, Hacker C et al (2015) Proteoglycans support proper granule formation in pancreatic acinar cells. Histochem Cell Biol 144:331–346
Brees C, Fransen M (2014) A cost-effective approach to microporate mammalian cells with the Neon Transfection System. Anal Biochem 466:49–50
Schrader M, Baumgart E, Fahimi HD (1995) Effects of fixation on the preservation of peroxisomal structures for immunofluorescence studies using HepG2 cells as a model system. Histochem J 27:615–619
Peranen J, Rikkonen M, Kaariainen L (1993) A method for exposing hidden antigenic sites in paraformaldehyde-fixed cultured cells, applied to initially unreactive antibodies. J Histochem Cytochem 41:447–454
Schrader M, Almeida M, Grille S (2012) Postfixation detergent treatment liberates the membrane modelling protein Pex11beta from peroxisomal membranes. Histochem Cell Biol 138:541–547
Bonekamp NA, Grille S, Cardoso MJ et al (2013) Self-interaction of human Pex11pbeta during peroxisomal growth and division. PLoS One 8:e53424
Acknowledgments
This work was supported by the Biotechnology and Biological Sciences Research Council (BB/R016844/1; BB/T002255/1; BB/W015420/1).
Author information
Authors and Affiliations
Corresponding author
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2023 The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature
About this protocol
Cite this protocol
Schrader, T.A., Carmichael, R.E., Schrader, M. (2023). Immunolabeling for Detection of Endogenous and Overexpressed Peroxisomal Proteins in Mammalian Cells. In: Schrader, M. (eds) Peroxisomes. Methods in Molecular Biology, vol 2643. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-3048-8_4
Download citation
DOI: https://doi.org/10.1007/978-1-0716-3048-8_4
Published:
Publisher Name: Humana, New York, NY
Print ISBN: 978-1-0716-3047-1
Online ISBN: 978-1-0716-3048-8
eBook Packages: Springer Protocols