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Generation of gene-level resolution chromosome contact maps in bacteria and archaea
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-...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Elsevier
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8121701/ https://www.ncbi.nlm.nih.gov/pubmed/34027477 http://dx.doi.org/10.1016/j.xpro.2021.100512 |
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author | Cockram, Charlotte Thierry, Agnès Koszul, Romain |
author_facet | Cockram, Charlotte Thierry, Agnès Koszul, Romain |
author_sort | Cockram, Charlotte |
collection | PubMed |
description | 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). |
format | Online Article Text |
id | pubmed-8121701 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Elsevier |
record_format | MEDLINE/PubMed |
spelling | pubmed-81217012021-05-20 Generation of gene-level resolution chromosome contact maps in bacteria and archaea Cockram, Charlotte Thierry, Agnès Koszul, Romain STAR Protoc Protocol 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). Elsevier 2021-05-05 /pmc/articles/PMC8121701/ /pubmed/34027477 http://dx.doi.org/10.1016/j.xpro.2021.100512 Text en © 2021 The Author(s) https://creativecommons.org/licenses/by-nc-nd/4.0/This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/). |
spellingShingle | Protocol Cockram, Charlotte Thierry, Agnès Koszul, Romain Generation of gene-level resolution chromosome contact maps in bacteria and archaea |
title | Generation of gene-level resolution chromosome contact maps in bacteria and archaea |
title_full | Generation of gene-level resolution chromosome contact maps in bacteria and archaea |
title_fullStr | Generation of gene-level resolution chromosome contact maps in bacteria and archaea |
title_full_unstemmed | Generation of gene-level resolution chromosome contact maps in bacteria and archaea |
title_short | Generation of gene-level resolution chromosome contact maps in bacteria and archaea |
title_sort | generation of gene-level resolution chromosome contact maps in bacteria and archaea |
topic | Protocol |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8121701/ https://www.ncbi.nlm.nih.gov/pubmed/34027477 http://dx.doi.org/10.1016/j.xpro.2021.100512 |
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