Dynamic RNA profiling in Plasmodium falciparum synchronized blood stages exposed to lethal doses of artesunate

Natalang, Onguma; Bischoff, Emmanuel; Deplaine, Guillaume; Proux, Caroline; Dillies, Marie-Agnès; Sismeiro, Odile; Guigon, Ghislaine; Bonnefoy, Serge; Patarapotikul, Jintana; Mercereau-Puijalon, Odile; Coppée, Jean-Yves; David, Peter H

doi:10.1186/1471-2164-9-388

BMC Genomics

Table 8 Differentially expressed genes encoding transcription-associated proteins in artesunate-treated cells

From: Dynamic RNA profiling in Plasmodium falciparum synchronized blood stages exposed to lethal doses of artesunate

Gene ID	Description	Pfam	annotation	ART 90 min	ART 3 h	HS	CQ
PF11_0053	PfSNF2L	TAP clustering	Nucleosome remodeling::SNF2L		0,82
PF11_0264	DNA-dependent RNA polymerase	TAP clustering	MITOCHONDRIAL RNA POLYMERASE		1,02
PFL0560c	minichromosome maintenance protein, putative	TAP clustering	Minichromosome maintenance protein		0,85
PFE0090w	hypothetical protein, conserved	TAP clustering	Histone trancription regulator		0,82
PF11_0297	hypothetical protein	TAP clustering	CCR4-NOT complex::NOT2		0,86	+
PFE1245w	hypothetical protein, conserved	PF00642	Zinc finger C-x8-C-x5-C-x3-H type (and similar)(PF00642)	1,28	0,91	+	+
PF14_0236	hypothetical protein	PF00642	Zinc finger C-x8-C-x5-C-x3-H type (and similar)(PF00642)		0,89	+
PFC0680w	hypothetical protein, conserved	PF00642	Zinc finger C-x8-C-x5-C-x3-H type (and similar)(PF00642)		1,55	+
PF10_0186	hypothetical protein	PF00642	Zinc finger C-x8-C-x5-C-x3-H type (and similar)(PF00642)		0,98
MAL13P1.122	hypothetical protein, conserved	PF00856	SET domain (PF00856)		0,81
PFI0470w	FHA domain protein, putative	PF00097	C3HC4 type (RING finger) (PF00097)	0,89	1,05
PF10_0046	hypothetical protein	PF00097	C3HC4 type (RING finger) (PF00097)		1,17
PFF0165c	hypothetical protein, conserved	PF00097	C3HC4 type (RING finger) (PF00097)		0,94
PFL0440c	hypothetical protein, conserved	PF00097	C3HC4 type (RING finger) (PF00097)		0,95
PF11_0315	hypothetical protein	TAP clustering	APICOPLAST RNA beta, beta, & beta subunits		1,64
PFL0145c	high mobility group protein	PF00505	HMG (high mobility group) box (PF00505)		-0,97
MAL13P1.76	TFIIH basal transcription factor subunit	TAP clustering	TFIIH::p44		-0,83
PF14_0718	hypothetical protein, conserved	TAP clustering	RNA polymerase II-associated factor SOH1		-0,86

Gene ID: identifier as found in PlasmoDB.
Art columns: log ratios of gene expression under artesunate exposure at 90 minutes and 3 hours.
HS and CQ columns: over (+) expression.
Results were compared with transcriptome modifications induced by heat-shock (HS) [12] and chloroquine (CQ) [8].
Genes encoding transcription-associated proteins (TAPs) were selected from the TAP clustering of Coulson et al. [17] and completed with an update of genes fitting the following HMM profiles defined by Coulson and colleagues [16] : PF00097, PF00642, PF00096, PF00856, PF00249, PF00439, PF00505, PF00628, PF00098, PF00808, PF01753, PF00313, PF00569, PF00643, PF08523, PF02146, PF03366.

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ISSN: 1471-2164

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