Data supporting the paper "The environmentally-regulated interplay between local three-dimensional chromatin organisation and transcription of the osmoregulated proVWX operon in Escherichia coli"
doi: 10.4121/21065275
This is data supporting the paper titled, "The environmentally-regulated interplay between local three-dimensional chromatin organisation and transcription of the osmoregulated proVWX operon in Escherichia coli"
It consists of:
- NGS data of Hi-C libraries prepared for Escherichia coli showing the importance of methanol treatment prior to formaldehyde fixation, and of performing proximity ligation on the insoluble fraction of fixed, digested chromatin for increasing the signal-to-noise ratio of chromosome contact maps
- NGS data of Hi-C libraries prepared for Escherichia coli growing exponentially in low salt LB medium (0.08 M NaCl), and high salt LB (0.3 M NaCl), and of E. coli at exponential phase in low-salt LB medium (0.08 M NaCl) subjected to a hyperosmotic shock (from 0.08 M NaCl to 0.3 M NaCl) for 10 minutes. The data shows that the chromosome of E. coli undergoes global and local chromosome remodelling in response to osmolarity
- Raw data files of RT-qPCR experiments of the proVWX operon and its flanking regions performed in MG1655 ΔendA (NT331), MG1655 ΔendA carrying a mutated proVWX regulatory region (NT644), NT331 ΔstpA, and NT331 Δrnc
- Raw data files of 3C-qPCR experiments of the proVWX operon and its flanking regions performed using the σ70 transcription start site fragment (referred to as the proU3_NlaIII fragment in our studies) as the anchor fragment in NT331, NT644, and NT331 treated with rifampicin.
- 2023-09-26 first online, published, posted
- VICI 016.160.613/533
- Resolving the fundamental building principles of the genome (grant code OCENW.GROOT.2019.012) [more info...] Dutch Research Council
- HFSP RGP0014/2014
Laboratoire Infection et Inflammation, INSERM, UVSQ, Université Paris-Saclay
Statistical Physics and Theoretical Biophysics, Heidelberg University
School of Biosciences, University of Birmingham
DATA
- 11,121,754,415 bytesMD5:
9e4ba78b24c0aa113e60619b26e633f5
Hi-C_Sequencing.zip - 17,466 bytesMD5:
59689bdabed1a89b7689fd706614887a
Index.rtf - 51,978,366 bytesMD5:
2a83eda219434d05247d34572ea2f9e9
Supplementary files.zip -
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