Digital gene expression analysis of two life cycle stages of the human-infective parasite, Trypanosoma brucei gambiense reveals differentially expressed clusters of co-regulated genes
| Autor: | Annette MacLeod, Nicola Veitch, Urmi Trivedi, Paul C. D. Johnson, Sandra Terry, David Wildridge |
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| Jazyk: | angličtina |
| Předmět: |
lcsh:QH426-470
lcsh:Biotechnology Trypanosoma brucei gambiense Genes Protozoan Spores Protozoan Biology Trypanosoma brucei Transcriptome 03 medical and health sciences lcsh:TP248.13-248.65 Gene expression Genetics Cluster Analysis Procyclin Gene 030304 developmental biology Oligonucleotide Array Sequence Analysis Regulation of gene expression 0303 health sciences 030306 microbiology Microarray analysis techniques Gene Expression Profiling Gene Expression Regulation Developmental Reproducibility of Results biology.organism_classification R1 Gene expression profiling lcsh:Genetics Genome Protozoan RNA Protozoan Research Article Biotechnology |
| Zdroj: | BMC Genomics Veitch, N J, Johnson, P C D, Trivedi, U, Terry, S, Wildridge, D & MacLeod, A 2010, ' Digital gene expression analysis of two life cycle stages of the human-infective parasite, Trypanosoma brucei gambiense reveals differentially expressed clusters of co-regulated genes ', BMC Genomics, vol. 11, 124, pp.-. https://doi.org/10.1186/1471-2164-11-124 BMC Genomics, Vol 11, Iss 1, p 124 (2010) |
| ISSN: | 1471-2164 1755-8794 |
| DOI: | 10.1186/1471-2164-11-124 |
| Popis: | Background The evolutionarily ancient parasite, Trypanosoma brucei, is unusual in that the majority of its genes are regulated post-transcriptionally, leading to the suggestion that transcript abundance of most genes does not vary significantly between different life cycle stages despite the fact that the parasite undergoes substantial cellular remodelling and metabolic changes throughout its complex life cycle. To investigate this in the clinically relevant sub-species, Trypanosoma brucei gambiense, which is the causative agent of the fatal human disease African sleeping sickness, we have compared the transcriptome of two different life cycle stages, the potentially human-infective bloodstream forms with the non-human-infective procyclic stage using digital gene expression (DGE) analysis. Results Over eleven million unique tags were generated, producing expression data for 7360 genes, covering 81% of the genes in the genome. Compared to microarray analysis of the related T. b. brucei parasite, approximately 10 times more genes with a 2.5-fold change in expression levels were detected. The transcriptome analysis revealed the existence of several differentially expressed gene clusters within the genome, indicating that contiguous genes, presumably from the same polycistronic unit, are co-regulated either at the level of transcription or transcript stability. Conclusions DGE analysis is extremely sensitive for detecting gene expression differences, revealing firstly that a far greater number of genes are stage-regulated than had previously been identified and secondly and more importantly, this analysis has revealed the existence of several differentially expressed clusters of genes present on what appears to be the same polycistronic units, a phenomenon which had not previously been observed in microarray studies. These differentially regulated clusters of genes are in addition to the previously identified RNA polymerase I polycistronic units of variant surface glycoproteins and procyclin expression sites, which encode the major surface proteins of the parasite. This raises a number of questions regarding the function and regulation of the gene clusters that clearly warrant further study. |
| Databáze: | OpenAIRE |
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