High-Throughput Mapping of Chromosomal Conformations in E. coli Under Physiological Conditions Using Massively Multiplexed Mu Transposition.

Autor:	Ho K; Department of Molecular Biosciences, University of Texas at Austin, Austin, TX, USA., Royzenblat SK; Cellular and Molecular Biology Program, University of Michigan, Ann Arbor, MI, USA., Wilkins B; Department of Molecular Biosciences, University of Texas at Austin, Austin, TX, USA., Harshey R; Department of Molecular Biosciences, University of Texas at Austin, Austin, TX, USA., Freddolino L; Department of Biological Chemistry, University of Michigan, Ann Arbor, MI, USA. lydsf@umich.edu.
Jazyk:	angličtina
Zdroj:	Methods in molecular biology (Clifton, N.J.) [Methods Mol Biol] 2024; Vol. 2819, pp. 125-146.
DOI:	10.1007/978-1-0716-3930-6_7
Abstrakt:	Many approaches for measuring three-dimensional chromosomal conformations rely upon formaldehyde crosslinking followed by subsequent proximity ligation, a family of methods exemplified by 3C, Hi-C, etc. Here we provide an alternative crosslinking-free procedure for high-throughput identification of long-range contacts in the chromosomes of enterobacteria, making use of contact-dependent transposition of phage Mu to identify distant loci in close contact. The procedure described here will suffice to provide a comprehensive map of transposition frequencies between tens of thousands of loci in a bacterial genome, with the resolution limited by the diversity of the insertion site library used and the sequencing depth applied. (© 2024. The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature.)
Databáze:	MEDLINE
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