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| Status |
Public on Jul 01, 2024 |
| Title |
ParBF DNA binding profiles over various supercoiling level and on linear DNA |
| Organisms |
Escherichia coli; Salmonella enterica subsp. enterica serovar Typhimurium str. LT2 |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
We report the genome-wide analysis from chromatin immunoprecipitated DNA (ChIP-sequencing) of the DNA binding pattern of ParBF (SopB) of plasmid F. This study, performed in E. coli and Salmonella typhimurium, investigates the impact of DNA supercoiling on ParBF DNA binding profiles in vivo. We found that variation in DNA supercoiling does not significantly affect the ParB DNA binding profiles even on linear DNA.
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| Overall design |
Chromatin immunoprecipitation DNA-sequencing for ParB of plasmid F (ParBF) in bacterial strains exhibiting various DNA supercoiling level, and on linearized plasmid F at several positions relative to the centromere parSF. Biological replicates are labelled IP1 and IP2. Anti ParBF antibody is affinity purified before used.
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| Web link |
https://onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1111%2Fmmi.15297&file=mmi15297-sup-0001-Supinfo.pdf
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| Contributor(s) |
Bouet J, Sekkouri Alaoui H, Rech J, Labourdette D |
| Citation(s) |
39109686 |
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| Submission date |
Feb 22, 2024 |
| Last update date |
Sep 30, 2024 |
| Contact name |
Jean-Yves Bouet |
| E-mail(s) |
jean-yves.bouet@univ-tlse3.fr
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| Phone |
(+33) 561 33 59 06
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| Organization name |
CNRS
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| Lab |
Universite Toulouse III - Paul Sabatier, Centre de Biologie Integrative, CBI-LMGM
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| Street address |
169 avenue Marianne Grunberg-Manago
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| City |
Toulouse |
| ZIP/Postal code |
31062 |
| Country |
France |
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| Platforms (2) |
| GPL25140 |
Ion Torrent S5 (Escherichia coli) |
| GPL34219 |
Ion Torrent S5 (Salmonella enterica subsp. enterica serovar Typhimurium str. LT2) |
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| Samples (18)
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| GSM8095994 |
ParBF, S.typhi LT2 gyrB, F, input |
| GSM8095995 |
ParBF, S.typhi LT2 gyrB, F, IP1 |
| GSM8095996 |
ParBF, S.typhi LT2 gyrB, F, IP2 |
| GSM8095997 |
ParBF, S.typhi LT2, F, input |
| GSM8095998 |
ParBF, S.typhi LT2, F, IP1 |
| GSM8095999 |
ParBF, E.coli WT, F, input |
| GSM8096000 |
ParBF, E.coli WT, F, IP1 |
| GSM8096001 |
ParBF, E.coli WT, F_telRL47, input |
| GSM8096002 |
ParBF, E.coli WT, F_telRL47, IP1 |
| GSM8096003 |
ParBF, E.coli WT, F_telRL13, input |
| GSM8096004 |
ParBF, E.coli WT, F_telRL13, IP1 |
| GSM8096005 |
ParBF, E.coli WT, F_telRL13, IP2 |
| GSM8096006 |
ParBF, E.coli WT, F_telRL3.5, input |
| GSM8096007 |
ParBF, E.coli WT, F_telRL3.5, IP1 |
| GSM8096008 |
ParBF, E.coli WT, F_telRL3.5, IP2 |
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| Relations |
| BioProject |
PRJNA1079266 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE256357_RAW.tar |
390.0 Kb |
(http)(custom) |
TAR (of TXT) |
SRA Run Selector |
| Raw data are available in SRA |
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