Changes in genome organization of parasite-specific gene families during the Plasmodium transmission stages

Nature Communications
Evelien M BunnikKarine G Le Roch

Abstract

The development of malaria parasites throughout their various life cycle stages is coordinated by changes in gene expression. We previously showed that the three-dimensional organization of the Plasmodium falciparum genome is strongly associated with gene expression during its replication cycle inside red blood cells. Here, we analyze genome organization in the P. falciparum and P. vivax transmission stages. Major changes occur in the localization and interactions of genes involved in pathogenesis and immune evasion, host cell invasion, sexual differentiation, and master regulation of gene expression. Furthermore, we observe reorganization of subtelomeric heterochromatin around genes involved in host cell remodeling. Depletion of heterochromatin protein 1 (PfHP1) resulted in loss of interactions between virulence genes, confirming that PfHP1 is essential for maintenance of the repressive center. Our results suggest that the three-dimensional genome structure of human malaria parasites is strongly connected with transcriptional activity of specific gene families throughout the life cycle.

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Citations

Jul 6, 2018·Annual Review of Microbiology·Gabrielle A JoslingManuel Llinás
Apr 15, 2020·Scientific Reports·Kathrin WitmerGeorge K Christophides
May 29, 2020·Proceedings of the National Academy of Sciences of the United States of America·Ayelen LizarragaNatalia de Miguel
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Apr 10, 2019·Pathogens·Myriam D JeningaMichaela Petter
May 7, 2019·Briefings in Functional Genomics·José L Ruiz, Elena Gómez-Díaz
Feb 7, 2019·Proceedings of the National Academy of Sciences of the United States of America·Evelien M BunnikKarine G Le Roch
Mar 22, 2020·Nature Communications·Gabrielle A JoslingManuel Llinás
Jun 21, 2019·Briefings in Functional Genomics·Steven Abel, Karine G Le Roch
Feb 6, 2020·Microbial Genomics·Gayani BatugedaraKarine G Le Roch
Oct 22, 2019·Epigenetics Insights·Todd Lenz, Karine G Le Roch
Dec 5, 2020·Journal of Genetics and Genomics = Yi Chuan Xue Bao·Chengqi WangRays H Y Jiang
Jan 12, 2021·Frontiers in Cellular and Infection Microbiology·Thomas Hollin, Karine G Le Roch
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Apr 30, 2021·Frontiers in Cellular and Infection Microbiology·Marc-Jan GubbelsKlemens Engelberg
Jul 15, 2021·Computational and Structural Biotechnology Journal·Jing LiMingzhou Li

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Datasets Mentioned

BETA
SRP091967

Methods Mentioned

BETA
Hi-C
ICE
ChIP-seq
PCR
transgenic
electrophoresis
RNA-seq

Software Mentioned

Pastis
Python
DESeq
hi
fit
ACCOST

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