Cargando…

Systematized reporter assays reveal ZIC protein regulatory abilities are Subclass-specific and dependent upon transcription factor binding site context

The ZIC proteins are a family of transcription regulators with a well-defined zinc finger DNA-binding domain and there is evidence that they elicit functional DNA binding at a ZIC DNA binding site. Little is known, however, regarding domains within ZIC proteins that confer trans-activation or -repre...

Descripción completa

Detalles Bibliográficos
Autores principales: Ahmed, Jehangir N., Diamand, Koula E. M., Bellchambers, Helen M., Arkell, Ruth M.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7403390/
https://www.ncbi.nlm.nih.gov/pubmed/32753700
http://dx.doi.org/10.1038/s41598-020-69917-9
_version_ 1783566931102531584
author Ahmed, Jehangir N.
Diamand, Koula E. M.
Bellchambers, Helen M.
Arkell, Ruth M.
author_facet Ahmed, Jehangir N.
Diamand, Koula E. M.
Bellchambers, Helen M.
Arkell, Ruth M.
author_sort Ahmed, Jehangir N.
collection PubMed
description The ZIC proteins are a family of transcription regulators with a well-defined zinc finger DNA-binding domain and there is evidence that they elicit functional DNA binding at a ZIC DNA binding site. Little is known, however, regarding domains within ZIC proteins that confer trans-activation or -repression. To address this question, a new cell-based trans-activation assay system suitable for ZIC proteins in HEK293T cells was constructed. This identified two previously unannotated evolutionarily conserved regions of ZIC3 that are necessary for trans-activation. These domains are found in all Subclass A ZIC proteins, but not in the Subclass B proteins. Additionally, the Subclass B proteins fail to elicit functional binding at a multimerised ZIC DNA binding site. All ZIC proteins, however, exhibit functional binding when the ZIC DNA binding site is embedded in a multiple transcription factor locus derived from ZIC target genes in the mouse genome. This ability is due to several domains, some of which are found in all ZIC proteins, that exhibit context dependent trans-activation or -repression activity. This knowledge is valuable for assessing the likely pathogenicity of variant ZIC proteins associated with human disorders and for determining factors that influence functional transcription factor binding.
format Online
Article
Text
id pubmed-7403390
institution National Center for Biotechnology Information
language English
publishDate 2020
publisher Nature Publishing Group UK
record_format MEDLINE/PubMed
spelling pubmed-74033902020-08-07 Systematized reporter assays reveal ZIC protein regulatory abilities are Subclass-specific and dependent upon transcription factor binding site context Ahmed, Jehangir N. Diamand, Koula E. M. Bellchambers, Helen M. Arkell, Ruth M. Sci Rep Article The ZIC proteins are a family of transcription regulators with a well-defined zinc finger DNA-binding domain and there is evidence that they elicit functional DNA binding at a ZIC DNA binding site. Little is known, however, regarding domains within ZIC proteins that confer trans-activation or -repression. To address this question, a new cell-based trans-activation assay system suitable for ZIC proteins in HEK293T cells was constructed. This identified two previously unannotated evolutionarily conserved regions of ZIC3 that are necessary for trans-activation. These domains are found in all Subclass A ZIC proteins, but not in the Subclass B proteins. Additionally, the Subclass B proteins fail to elicit functional binding at a multimerised ZIC DNA binding site. All ZIC proteins, however, exhibit functional binding when the ZIC DNA binding site is embedded in a multiple transcription factor locus derived from ZIC target genes in the mouse genome. This ability is due to several domains, some of which are found in all ZIC proteins, that exhibit context dependent trans-activation or -repression activity. This knowledge is valuable for assessing the likely pathogenicity of variant ZIC proteins associated with human disorders and for determining factors that influence functional transcription factor binding. Nature Publishing Group UK 2020-08-04 /pmc/articles/PMC7403390/ /pubmed/32753700 http://dx.doi.org/10.1038/s41598-020-69917-9 Text en © The Author(s) 2020 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.
spellingShingle Article
Ahmed, Jehangir N.
Diamand, Koula E. M.
Bellchambers, Helen M.
Arkell, Ruth M.
Systematized reporter assays reveal ZIC protein regulatory abilities are Subclass-specific and dependent upon transcription factor binding site context
title Systematized reporter assays reveal ZIC protein regulatory abilities are Subclass-specific and dependent upon transcription factor binding site context
title_full Systematized reporter assays reveal ZIC protein regulatory abilities are Subclass-specific and dependent upon transcription factor binding site context
title_fullStr Systematized reporter assays reveal ZIC protein regulatory abilities are Subclass-specific and dependent upon transcription factor binding site context
title_full_unstemmed Systematized reporter assays reveal ZIC protein regulatory abilities are Subclass-specific and dependent upon transcription factor binding site context
title_short Systematized reporter assays reveal ZIC protein regulatory abilities are Subclass-specific and dependent upon transcription factor binding site context
title_sort systematized reporter assays reveal zic protein regulatory abilities are subclass-specific and dependent upon transcription factor binding site context
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7403390/
https://www.ncbi.nlm.nih.gov/pubmed/32753700
http://dx.doi.org/10.1038/s41598-020-69917-9
work_keys_str_mv AT ahmedjehangirn systematizedreporterassaysrevealzicproteinregulatoryabilitiesaresubclassspecificanddependentupontranscriptionfactorbindingsitecontext
AT diamandkoulaem systematizedreporterassaysrevealzicproteinregulatoryabilitiesaresubclassspecificanddependentupontranscriptionfactorbindingsitecontext
AT bellchambershelenm systematizedreporterassaysrevealzicproteinregulatoryabilitiesaresubclassspecificanddependentupontranscriptionfactorbindingsitecontext
AT arkellruthm systematizedreporterassaysrevealzicproteinregulatoryabilitiesaresubclassspecificanddependentupontranscriptionfactorbindingsitecontext