Identifying factors bound to specific genomic loci in an unbiased manner is the holy grail of chromatin research, because it would provide an ultimate description of locus function. In this Comment, we explain why purifying a single locus represents a major technical challenge and provide recommendations for achieving this goal.
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Change history
03 February 2020
A Correction to this paper has been published: https://doi.org/10.1038/s41580-020-0222-3
References
Gauchier, M. et al. Purification and enrichment of locus-specific proteomes: challenges and possibilities. Nat. Methods (in the press) (2020).
Anderson, N. L. & Anderson, N. G. The human plasma proteome: history, character, and diagnostic prospects. Mol. Cell. Proteomics 1, 845–867 (2002).
Déjardin, J. & Kingston, R. E. Purification of proteins associated with specific genomic loci. Cell 136, 175–186 (2009).
Pourfarzad, F. et al. Locus-specific proteomics by TChP: targeted chromatin purification. Cell Rep. 4, 589–600 (2013).
Ide, S. & Dejardin, J. End-targeting proteomics of isolated chromatin segments of a mammalian ribosomal RNA gene promoter. Nat. Commun. 6, 6674 (2015).
Buxton, K. E. et al. Elucidating protein-DNA interactions in human alphoid chromatin via hybridization capture and mass spectrometry. J. Proteome Res. 16, 3433–3442 (2017).
Liu, X. et al. In situ capture of chromatin interactions by biotinylated dCas9. Cell 170, 1028–1043 (2017).
Tsui, C. et al. dCas9-targeted locus-specific protein isolation method identifies histone gene regulators. Proc. Natl Acad. Sci. USA 115, 201718844 (2018).
Acknowledgements
Work in the laboratory of J. Dejardin is supported by grants from ARC Equipe Labélisée 2016, the ERC CoG METACHROM, from INCA, from the Fondation Schlumberger pour l’Education et la Recherche and from Merck (MSD). The laboratory of M. Vermeulen is part of the Oncode Institute, which is partly funded by the Dutch Cancer Society.
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Vermeulen, M., Déjardin, J. Locus-specific chromatin isolation. Nat Rev Mol Cell Biol 21, 249–250 (2020). https://doi.org/10.1038/s41580-020-0217-0
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DOI: https://doi.org/10.1038/s41580-020-0217-0
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