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Chromatin Accessibility-Based Characterization of the Gene Regulatory Network Underlying Plasmodium falciparum Blood-Stage Development

Underlying the development of malaria parasites within erythrocytes and the resulting pathogenicity is a hardwired program that secures proper timing of gene transcription and production of functionally relevant proteins. How stage-specific gene expression is orchestrated in vivo remains unclear. He...

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Autores principales: Toenhake, Christa Geeke, Fraschka, Sabine Anne-Kristin, Vijayabaskar, Mahalingam Shanmugiah, Westhead, David Robert, van Heeringen, Simon Jan, Bártfai, Richárd
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Cell Press 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5899830/
https://www.ncbi.nlm.nih.gov/pubmed/29649445
http://dx.doi.org/10.1016/j.chom.2018.03.007
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author Toenhake, Christa Geeke
Fraschka, Sabine Anne-Kristin
Vijayabaskar, Mahalingam Shanmugiah
Westhead, David Robert
van Heeringen, Simon Jan
Bártfai, Richárd
author_facet Toenhake, Christa Geeke
Fraschka, Sabine Anne-Kristin
Vijayabaskar, Mahalingam Shanmugiah
Westhead, David Robert
van Heeringen, Simon Jan
Bártfai, Richárd
author_sort Toenhake, Christa Geeke
collection PubMed
description Underlying the development of malaria parasites within erythrocytes and the resulting pathogenicity is a hardwired program that secures proper timing of gene transcription and production of functionally relevant proteins. How stage-specific gene expression is orchestrated in vivo remains unclear. Here, using the assay for transposase accessible chromatin sequencing (ATAC-seq), we identified ∼4,000 regulatory regions in P. falciparum intraerythrocytic stages. The vast majority of these sites are located within 2 kb upstream of transcribed genes and their chromatin accessibility pattern correlates positively with abundance of the respective mRNA transcript. Importantly, these regions are sufficient to drive stage-specific reporter gene expression and DNA motifs enriched in stage-specific sets of regulatory regions interact with members of the P. falciparum AP2 transcription factor family. Collectively, this study provides initial insights into the in vivo gene regulatory network of P. falciparum intraerythrocytic stages and should serve as a valuable resource for future studies.
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spelling pubmed-58998302018-04-16 Chromatin Accessibility-Based Characterization of the Gene Regulatory Network Underlying Plasmodium falciparum Blood-Stage Development Toenhake, Christa Geeke Fraschka, Sabine Anne-Kristin Vijayabaskar, Mahalingam Shanmugiah Westhead, David Robert van Heeringen, Simon Jan Bártfai, Richárd Cell Host Microbe Article Underlying the development of malaria parasites within erythrocytes and the resulting pathogenicity is a hardwired program that secures proper timing of gene transcription and production of functionally relevant proteins. How stage-specific gene expression is orchestrated in vivo remains unclear. Here, using the assay for transposase accessible chromatin sequencing (ATAC-seq), we identified ∼4,000 regulatory regions in P. falciparum intraerythrocytic stages. The vast majority of these sites are located within 2 kb upstream of transcribed genes and their chromatin accessibility pattern correlates positively with abundance of the respective mRNA transcript. Importantly, these regions are sufficient to drive stage-specific reporter gene expression and DNA motifs enriched in stage-specific sets of regulatory regions interact with members of the P. falciparum AP2 transcription factor family. Collectively, this study provides initial insights into the in vivo gene regulatory network of P. falciparum intraerythrocytic stages and should serve as a valuable resource for future studies. Cell Press 2018-04-11 /pmc/articles/PMC5899830/ /pubmed/29649445 http://dx.doi.org/10.1016/j.chom.2018.03.007 Text en © 2018 The Author(s) http://creativecommons.org/licenses/by/4.0/ This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Toenhake, Christa Geeke
Fraschka, Sabine Anne-Kristin
Vijayabaskar, Mahalingam Shanmugiah
Westhead, David Robert
van Heeringen, Simon Jan
Bártfai, Richárd
Chromatin Accessibility-Based Characterization of the Gene Regulatory Network Underlying Plasmodium falciparum Blood-Stage Development
title Chromatin Accessibility-Based Characterization of the Gene Regulatory Network Underlying Plasmodium falciparum Blood-Stage Development
title_full Chromatin Accessibility-Based Characterization of the Gene Regulatory Network Underlying Plasmodium falciparum Blood-Stage Development
title_fullStr Chromatin Accessibility-Based Characterization of the Gene Regulatory Network Underlying Plasmodium falciparum Blood-Stage Development
title_full_unstemmed Chromatin Accessibility-Based Characterization of the Gene Regulatory Network Underlying Plasmodium falciparum Blood-Stage Development
title_short Chromatin Accessibility-Based Characterization of the Gene Regulatory Network Underlying Plasmodium falciparum Blood-Stage Development
title_sort chromatin accessibility-based characterization of the gene regulatory network underlying plasmodium falciparum blood-stage development
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5899830/
https://www.ncbi.nlm.nih.gov/pubmed/29649445
http://dx.doi.org/10.1016/j.chom.2018.03.007
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