STAR Protocols
Volume 2, Issue 2, 18 June 2021, 100512
Journal home page for STAR Protocols

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

https://doi.org/10.1016/j.xpro.2021.100512Get rights and content
Under a Creative Commons license
open access

Highlights

  • Optimized Hi-C protocol for archaeal and bacterial genomes

  • Generation of genome-wide contact maps up to 1 kb resolution

  • Detailed description of steps from cell fixation to sequencing library preparation

  • A cost- and time-effective approach offering gene-level resolution contact maps

Summary

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).

Subject areas

Genetics
Genomics
Sequencing
Microbiology
Molecular Biology

Cited by (0)

2

Technical contact

3

Lead contact