Determination of the 3D genome organization of bacteria using Hi-C

Frédéric G. Crémazy, Fatema-Zahra M. Rashid, James R. Haycocks, Lisa E. Lamberte, David C. Grainger, Remus T. Dame

Research output: Chapter in Book / Report / Conference proceedingChapterAcademicpeer-review

Abstract

The spatial organization of genomes is based on their hierarchical compartmentalization in topological domains. There is growing evidence that bacterial genomes are organized into insulated domains similar to the Topologically Associating Domains (TADs) detected in eukaryotic cells. Chromosome conformation capture (3C) technologies are used to analyze in vivo DNA proximity based on ligation of distal DNA segments crossed-linked by bridging proteins. By combining 3C and high-throughput sequencing, the Hi-C method reveals genome-wide interactions within topological domains and global genome structure as a whole. This chapter provides detailed guidelines for the preparation of Hi-C sequencing libraries for bacteria.
Original languageEnglish
Title of host publicationMethods in Molecular Biology
PublisherHumana Press Inc.
Pages3-18
DOIs
Publication statusPublished - 2018
Externally publishedYes

Publication series

NameMethods in Molecular Biology
ISSN (Print)1064-3745

Funding

This work was supported by grants from the Netherlands Organization for Scientific Research [VICI 016.160.613] and the Human Frontier Science Program (HFSP) [RGP0014/2014].

FundersFunder number
Human Frontier Science Program
Human Frontier Science ProgramRGP0014/2014
Nederlandse Organisatie voor Wetenschappelijk OnderzoekVICI 016.160.613

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