Open Access Research article

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

Onguma Natalang13, Emmanuel Bischoff2, Guillaume Deplaine1, Caroline Proux2, Marie-Agnès Dillies2, Odile Sismeiro2, Ghislaine Guigon2, Serge Bonnefoy1, Jintana Patarapotikul3, Odile Mercereau-Puijalon1, Jean-Yves Coppée2 and Peter H David1*

Author Affiliations

1 Institut Pasteur, Unité d'Immunologie Moléculaire des Parasites; CNRS URA 2581, 28 Rue du Docteur Roux, F-75724, Paris, Cedex 15, France

2 Institut Pasteur, Plate-Forme 2 – Puces à ADN, 28 Rue du Docteur Roux, F-75724, Paris, Cedex 15, France

3 Faculty of Tropical Medicine, Mahidol University, 420/6 Rajvithi Road, Bangkok, 10400, Thailand

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BMC Genomics 2008, 9:388  doi:10.1186/1471-2164-9-388

Published: 18 August 2008

Additional files

Additional File 1:

Distribution of log ratios for statistically significant genes. Distribution of log ratios for genes differentially expressed upon 3 hour incubation with artesunate. Grey bars: genes selected (log ratio cut-off: +/- 0.8).

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Additional File 2:

Mean log ratio of gene expression in presence/absence of artesunate at 90 minutes and 3 hours. List is made-up of genes displaying significant changes at 3 hour incubation time, across 5 experiments performed at time points staggered between 20–30 h of parasite development. Values shown express the mean log ratios calculated from all experiments; when for a given gene significant log ratios were obtained for several oligos, the retained log ratio was one with the maximum absolute value. In the 3 hour column, only values significant at 3 hours as defined by ANOVA are shown, with a mean log-ratio cut-off of +/- 0.8. Values in bold: log ratios of controls (0 hours vs 3 hours in absence of artesunate) have been substracted from the log ratios obtained after 3 hours in artesunate. Red cell-background: over-expression. Green cell-background: under-expression. Gene ID and description: from PlasmoDB.

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Additional File 3:

Confirmation by real-time quantitative rt-PCR of differential gene expression induced by 3 hour incubation with artesunate. Transcripts abundances were compared by ΔΔCt values calculated using PFI0425w (putative transporter) as endogenous control. Values for microarray and qPCR are expression fold changes between parasites in presence and in absence of artesunate (Pearson correlation coefficient between the two techniques: 0.81).

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Additional File 4:

Genes related to cell cycle regulation. Cell cycle associated genes were defined according to the GO biological process G0:0007049 (cell cycle). Red cell-background: over-expression. Green cell-background: under-expression.

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Additional File 5:

Sequences of primers used for q RT-PCR validation.

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