Binding of NF-κB to nucleosomes: effect of translational positioning, nucleosome remodeling and linker histone H1.
NF-κB is a key transcription factor regulating the expression of inflammatory responsive genes. How NF-κB binds to naked DNA templates is well documented, but how it interacts with chromatin is far from being clear. Here we used a combination of UV laser footprinting, hydroxyl footprinting and elect...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Public Library of Science (PLoS)
2013-01-01
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| Series: | PLoS Genetics |
| Online Access: | http://europepmc.org/articles/PMC3784511?pdf=render |
| _version_ | 1818692083282608128 |
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| author | Imtiaz Nisar Lone Manu Shubhdarshan Shukla John Lalith Charles Richard Zahary Yordanov Peshev Stefan Dimitrov Dimitar Angelov |
| author_facet | Imtiaz Nisar Lone Manu Shubhdarshan Shukla John Lalith Charles Richard Zahary Yordanov Peshev Stefan Dimitrov Dimitar Angelov |
| author_sort | Imtiaz Nisar Lone |
| collection | DOAJ |
| description | NF-κB is a key transcription factor regulating the expression of inflammatory responsive genes. How NF-κB binds to naked DNA templates is well documented, but how it interacts with chromatin is far from being clear. Here we used a combination of UV laser footprinting, hydroxyl footprinting and electrophoretic mobility shift assay to investigate the binding of NF-κB to nucleosomal templates. We show that NF-κB p50 homodimer is able to bind to its recognition sequence, when it is localized at the edge of the core particle, but not when the recognition sequence is at the interior of the nucleosome. Remodeling of the nucleosome by the chromatin remodeling machine RSC was not sufficient to allow binding of NF-κB to its recognition sequence located in the vicinity of the nucleosome dyad, but RSC-induced histone octamer sliding allowed clearly detectable binding of NF-κB with the slid particle. Importantly, nucleosome dilution-driven removal of H2A-H2B dimer led to complete accessibility of the site located close to the dyad to NF-κB. Finally, we found that NF-κB was able to displace histone H1 and prevent its binding to nucleosome. These data provide important insight on the role of chromatin structure in the regulation of transcription of NF-κB dependent genes. |
| first_indexed | 2024-12-17T12:52:09Z |
| format | Article |
| id | doaj.art-3c4f0931f9b04a1ca872f1dd9c86d0eb |
| institution | Directory Open Access Journal |
| issn | 1553-7390 1553-7404 |
| language | English |
| last_indexed | 2024-12-17T12:52:09Z |
| publishDate | 2013-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS Genetics |
| spelling | doaj.art-3c4f0931f9b04a1ca872f1dd9c86d0eb2022-12-21T21:47:35ZengPublic Library of Science (PLoS)PLoS Genetics1553-73901553-74042013-01-0199e100383010.1371/journal.pgen.1003830Binding of NF-κB to nucleosomes: effect of translational positioning, nucleosome remodeling and linker histone H1.Imtiaz Nisar LoneManu Shubhdarshan ShuklaJohn Lalith Charles RichardZahary Yordanov PeshevStefan DimitrovDimitar AngelovNF-κB is a key transcription factor regulating the expression of inflammatory responsive genes. How NF-κB binds to naked DNA templates is well documented, but how it interacts with chromatin is far from being clear. Here we used a combination of UV laser footprinting, hydroxyl footprinting and electrophoretic mobility shift assay to investigate the binding of NF-κB to nucleosomal templates. We show that NF-κB p50 homodimer is able to bind to its recognition sequence, when it is localized at the edge of the core particle, but not when the recognition sequence is at the interior of the nucleosome. Remodeling of the nucleosome by the chromatin remodeling machine RSC was not sufficient to allow binding of NF-κB to its recognition sequence located in the vicinity of the nucleosome dyad, but RSC-induced histone octamer sliding allowed clearly detectable binding of NF-κB with the slid particle. Importantly, nucleosome dilution-driven removal of H2A-H2B dimer led to complete accessibility of the site located close to the dyad to NF-κB. Finally, we found that NF-κB was able to displace histone H1 and prevent its binding to nucleosome. These data provide important insight on the role of chromatin structure in the regulation of transcription of NF-κB dependent genes.http://europepmc.org/articles/PMC3784511?pdf=render |
| spellingShingle | Imtiaz Nisar Lone Manu Shubhdarshan Shukla John Lalith Charles Richard Zahary Yordanov Peshev Stefan Dimitrov Dimitar Angelov Binding of NF-κB to nucleosomes: effect of translational positioning, nucleosome remodeling and linker histone H1. PLoS Genetics |
| title | Binding of NF-κB to nucleosomes: effect of translational positioning, nucleosome remodeling and linker histone H1. |
| title_full | Binding of NF-κB to nucleosomes: effect of translational positioning, nucleosome remodeling and linker histone H1. |
| title_fullStr | Binding of NF-κB to nucleosomes: effect of translational positioning, nucleosome remodeling and linker histone H1. |
| title_full_unstemmed | Binding of NF-κB to nucleosomes: effect of translational positioning, nucleosome remodeling and linker histone H1. |
| title_short | Binding of NF-κB to nucleosomes: effect of translational positioning, nucleosome remodeling and linker histone H1. |
| title_sort | binding of nf κb to nucleosomes effect of translational positioning nucleosome remodeling and linker histone h1 |
| url | http://europepmc.org/articles/PMC3784511?pdf=render |
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