Generation of gene-level resolution chromosome contact maps in bacteria and archaea

Charlotte Cockram; Agnès Thierry; Romain Koszul

doi:10.1016/j.xpro.2021.100512

Generation of gene-level resolution chromosome contact maps in bacteria and archaea

STAR Protoc. 2021 May 5;2(2):100512. doi: 10.1016/j.xpro.2021.100512. eCollection 2021 Jun 18.

Authors

Charlotte Cockram¹, Agnès Thierry¹, Romain Koszul¹

Affiliation

¹ Institut Pasteur, Unité Régulation Spatiale des Génomes, CNRS UMR 3525, 5015 Paris, France.

Abstract

Chromosome conformation capture (Hi-C) has become a routine method for probing the 3D organization of genomes. However, when applied to bacteria and archaea, current protocols are expensive and limited in their resolution. By dissecting the different steps of published eukaryotic and prokaryotic Hi-C protocols, we have developed a cost- and time-effective approach to generate high-resolution (down to 500 bp - 1 kb) contact matrices of both bacteria and archaea genomes. For complete details on the use and execution of this protocol, please refer to Cockram et al. (2020).

Keywords: Genetics; Genomics; Microbiology; Molecular Biology; Sequencing.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Archaea / genetics*
Bacteria / genetics*
Chromosome Mapping*
Chromosomes, Archaeal / genetics*
Chromosomes, Bacterial / genetics*
Genome, Archaeal
Genome, Bacterial