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The Genome-Wide Impact of Nipblb Loss-of-Function on Zebrafish Gene Expression

Transcriptional changes normally occur during development but also underlie differences between healthy and pathological conditions. Transcription factors or chromatin modifiers are involved in orchestrating gene activity, such as the cohesin genes and their regulator NIPBL. In our previous studies,...

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Autores principales: Spreafico, Marco, Mangano, Eleonora, Mazzola, Mara, Consolandi, Clarissa, Bordoni, Roberta, Battaglia, Cristina, Bicciato, Silvio, Marozzi, Anna, Pistocchi, Anna
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7766774/
https://www.ncbi.nlm.nih.gov/pubmed/33352756
http://dx.doi.org/10.3390/ijms21249719
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author Spreafico, Marco
Mangano, Eleonora
Mazzola, Mara
Consolandi, Clarissa
Bordoni, Roberta
Battaglia, Cristina
Bicciato, Silvio
Marozzi, Anna
Pistocchi, Anna
author_facet Spreafico, Marco
Mangano, Eleonora
Mazzola, Mara
Consolandi, Clarissa
Bordoni, Roberta
Battaglia, Cristina
Bicciato, Silvio
Marozzi, Anna
Pistocchi, Anna
author_sort Spreafico, Marco
collection PubMed
description Transcriptional changes normally occur during development but also underlie differences between healthy and pathological conditions. Transcription factors or chromatin modifiers are involved in orchestrating gene activity, such as the cohesin genes and their regulator NIPBL. In our previous studies, using a zebrafish model for nipblb knockdown, we described the effect of nipblb loss-of-function in specific contexts, such as central nervous system development and hematopoiesis. However, the genome-wide transcriptional impact of nipblb loss-of-function in zebrafish embryos at diverse developmental stages remains under investigation. By RNA-seq analyses in zebrafish embryos at 24 h post-fertilization, we examined genome-wide effects of nipblb knockdown on transcriptional programs. Differential gene expression analysis revealed that nipblb loss-of-function has an impact on gene expression at 24 h post fertilization, mainly resulting in gene inactivation. A similar transcriptional effect has also been reported in other organisms, supporting the use of zebrafish as a model to understand the role of Nipbl in gene regulation during early vertebrate development. Moreover, we unraveled a connection between nipblb-dependent differential expression and gene expression patterns of hematological cell populations and AML subtypes, enforcing our previous evidence on the involvement of NIPBL-related transcriptional dysregulation in hematological malignancies.
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spelling pubmed-77667742020-12-28 The Genome-Wide Impact of Nipblb Loss-of-Function on Zebrafish Gene Expression Spreafico, Marco Mangano, Eleonora Mazzola, Mara Consolandi, Clarissa Bordoni, Roberta Battaglia, Cristina Bicciato, Silvio Marozzi, Anna Pistocchi, Anna Int J Mol Sci Article Transcriptional changes normally occur during development but also underlie differences between healthy and pathological conditions. Transcription factors or chromatin modifiers are involved in orchestrating gene activity, such as the cohesin genes and their regulator NIPBL. In our previous studies, using a zebrafish model for nipblb knockdown, we described the effect of nipblb loss-of-function in specific contexts, such as central nervous system development and hematopoiesis. However, the genome-wide transcriptional impact of nipblb loss-of-function in zebrafish embryos at diverse developmental stages remains under investigation. By RNA-seq analyses in zebrafish embryos at 24 h post-fertilization, we examined genome-wide effects of nipblb knockdown on transcriptional programs. Differential gene expression analysis revealed that nipblb loss-of-function has an impact on gene expression at 24 h post fertilization, mainly resulting in gene inactivation. A similar transcriptional effect has also been reported in other organisms, supporting the use of zebrafish as a model to understand the role of Nipbl in gene regulation during early vertebrate development. Moreover, we unraveled a connection between nipblb-dependent differential expression and gene expression patterns of hematological cell populations and AML subtypes, enforcing our previous evidence on the involvement of NIPBL-related transcriptional dysregulation in hematological malignancies. MDPI 2020-12-19 /pmc/articles/PMC7766774/ /pubmed/33352756 http://dx.doi.org/10.3390/ijms21249719 Text en © 2020 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Spreafico, Marco
Mangano, Eleonora
Mazzola, Mara
Consolandi, Clarissa
Bordoni, Roberta
Battaglia, Cristina
Bicciato, Silvio
Marozzi, Anna
Pistocchi, Anna
The Genome-Wide Impact of Nipblb Loss-of-Function on Zebrafish Gene Expression
title The Genome-Wide Impact of Nipblb Loss-of-Function on Zebrafish Gene Expression
title_full The Genome-Wide Impact of Nipblb Loss-of-Function on Zebrafish Gene Expression
title_fullStr The Genome-Wide Impact of Nipblb Loss-of-Function on Zebrafish Gene Expression
title_full_unstemmed The Genome-Wide Impact of Nipblb Loss-of-Function on Zebrafish Gene Expression
title_short The Genome-Wide Impact of Nipblb Loss-of-Function on Zebrafish Gene Expression
title_sort genome-wide impact of nipblb loss-of-function on zebrafish gene expression
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7766774/
https://www.ncbi.nlm.nih.gov/pubmed/33352756
http://dx.doi.org/10.3390/ijms21249719
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