Institute of Tropical Medicine Antwerp
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A comprehensive evaluation of rodent malaria parasite genomes and gene expression

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dc.contributor.author Otto, T. D.
dc.contributor.author Böhme, U.
dc.contributor.author Jackson, A. P.
dc.contributor.author Hunt, M.
dc.contributor.author Franke-Fayard, B.
dc.contributor.author Hoeijmakers, W. A.
dc.contributor.author Religa, A. A.
dc.contributor.author Robertson, L.
dc.contributor.author Sanders, M.
dc.contributor.author Ogun, S. A.
dc.contributor.author Cunningham, D.
dc.contributor.author Erhart, A.
dc.contributor.author Billker, O.
dc.contributor.author Khan, S. M.
dc.contributor.author Stunnenberg, H. G.
dc.contributor.author Langhorne, J.
dc.contributor.author Holder, A. A.
dc.contributor.author Waters, A. P.
dc.contributor.author Newbold, C. I.
dc.contributor.author Pain, A.
dc.contributor.author Berriman, M.
dc.contributor.author Janse, C. J.
dc.date.accessioned 2015-02-12T09:42:43Z
dc.date.available 2015-02-12T09:42:43Z
dc.date.issued 2014
dc.identifier.issn 1741-7007
dc.identifier.doi http://dx.doi.org/10.1186/s12915-014-0086-0
dc.identifier.other ITG-B12A
dc.identifier.other DBM
dc.identifier.other U-MALAR
dc.identifier.other JIF
dc.identifier.other DOI
dc.identifier.other URL
dc.identifier.other FTA
dc.identifier.other E-only
dc.identifier.other OAJ
dc.identifier.other Abstract
dc.identifier.other UPD57
dc.identifier.uri http://hdl.handle.net/10390/8270
dc.description.abstract Background: Rodent malaria parasites (RMP) are used extensively as models of human malaria. Draft RMP genomes have been published for Plasmodium yoelii, P. berghei ANKA (PbA) and P. chabaudi AS (PcAS). Although availability of these genomes made a significant impact on recent malaria research, these genomes were highly fragmented and were annotated with little manual curation. The fragmented nature of the genomes has hampered genome wide analysis of Plasmodium gene regulation and function. Results: We have greatly improved the genome assemblies of PbA and PcAS, newly sequenced the virulent parasite P. yoelii YM genome, sequenced additional RMP isolates/lines and have characterized genotypic diversity within RMP species. We have produced RNA-seq data and utilized it to improve gene-model prediction and to provide quantitative, genome-wide, data on gene expression. Comparison of the RMP genomes with the genome of the human malaria parasite P. falciparum and RNA-seq mapping permitted gene annotation at base-pair resolution. Full-length chromosomal annotation permitted a comprehensive classification of all subtelomeric multigene families including the `Plasmodium interspersed repeat genes inverted question mark (pir). Phylogenetic classification of the pir family, combined with pir expression patterns, indicates functional diversification within this family. Conclusions: Complete RMP genomes, RNA-seq and genotypic diversity data are excellent and important resources for gene-function and post-genomic analyses and to better interrogate Plasmodium biology. Genotypic diversity between P. chabaudi isolates makes this species an excellent parasite to study genotype-phenotype relationships. The improved classification of multigene families will enhance studies on the role of (variant) exported proteins in virulence and immune evasion/modulation. en_US
dc.language English en_US
dc.subject Protozoal diseases en_US
dc.subject Malaria en_US
dc.subject Plasmodium chabaudi en_US
dc.subject Plasmodium berghei en_US
dc.subject Plasmodium yoelii en_US
dc.subject Plasmodium falciparum en_US
dc.subject Vectors en_US
dc.subject Mosquitoes en_US
dc.subject Reservoirs en_US
dc.subject Rodents en_US
dc.subject Molecular epidemiology en_US
dc.subject Genome mapping en_US
dc.subject Diversity en_US
dc.subject Phylogenetics en_US
dc.subject Classification en_US
dc.subject Isolation en_US
dc.subject Review of the literature en_US
dc.title A comprehensive evaluation of rodent malaria parasite genomes and gene expression en_US
dc.type Article-E en_US
dc.citation.issue 1 en_US
dc.citation.jtitle BMC Biology en_US
dc.citation.volume 12 en_US
dc.citation.pages 86 en_US
dc.identifier.pmid http://www.ncbi.nlm.nih.gov/pubmed/25359557
dc.identifier.url http://www.biomedcentral.com/1741-7007/12/86
dc.citation.jabbreviation BMC Biol en_US


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