Research
Transcriptome analysis of antigenic variation in Plasmodium falciparum - var silencing is not dependent on antisense RNA
-
* Corresponding author: Artur Scherf ascherf@pasteur.fr
- † Equal contributors
1 Institut Pasteur, Unit of Biology of Host-Parasite Interactions, Centre National de la Recherche Scientifique, Unité de Recherche Associée 2581, 25 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 Institut Pasteur, Unité d'Immunologie Moléculaire des Parasites, 28 Rue du Docteur Roux, F-75724 Paris Cedex 15, France
4 The Walter and Eliza Hall Institute of Medical Research, 1G Royal Parade, Parkville, Melbourne 3050, Victoria, Australia
5 Institut Pasteur, Plate-Forme 8 - CNR/Santé Publique, 28 Rue du Docteur Roux, F-75724 Paris Cedex 15, France
Genome Biology 2005, 6:R93 doi:10.1186/gb-2005-6-11-r93
Published: 31 October 2005Additional files
Additional data File 1:
A table showing normalized array data for all FCR3 and 3D7 sense and antisense oligos included in the analysis, with data from 12 hours (ring stage), 24 hours (trophozoite stage) and 36 hours (early schizont stage) timepoints. The table shows data from biological and dye repeats, in addition to dye swap replicates
Format: TXT Size: 3.9MB Download file
Additional data File 2:
A table with a subset of the microarray expression data showing normalized array data for the oligos corresponding to sense and antisense strands of var genes from 3D7 and FCR3
Format: XLS Size: 496KB Download file
This file can be viewed with: Microsoft Excel Viewer
Additional data File 3:
Histograms showing apparent absolute abundance of the varA4tres and varFCR3s1.2 transcript in CD36 (grey) and CSA (white) panned parasites. Different columns show the apparent absolute abundance for oligonucleotides at individual positions along the genes. Left panels show probes corresponding to sense transcript, right panels show probes corresponding to antisense transcripts. Separate histograms show data for ring, trophozoite and schizont stages. Standard deviation is shown. The antisense patterns for both genes show a pattern that is inconsistent with a var silencing role for antisense, with antisense just as high for all life stages in the active population as in the silenced populations. As in other genes, adjacent probes for antisense are much more variable than in the corresponding sense strand, suggesting antisense transcripts are small and interspersed
Format: PDF Size: 54KB Download file
This file can be viewed with: Adobe Acrobat Reader
Additional data File 4:
Agilent 2100 bioanalyzer analysis of total RNA used for microarrays. Virtual gel images and electrophereograms are shown for all timepoints for both treatments and replicates
Format: PDF Size: 670KB Download file
This file can be viewed with: Adobe Acrobat Reader