ArticleBMC genomics2013
Transcriptome analysis of the parasite Encephalitozoon cuniculi: an in-depth examination of pre-mRNA splicing in a reduced eukaryote.
Article in BMC genomics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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Who cites it
27 citing papers in PubMed, 54 citations in OpenAlex.
- The shortest animal introns: insights from parasitic cnidarians.Molecular biology and evolution · 2026Article
- Imaging the lifecycle ofmSphere · 2025Article
- scRNA-seq uncovers the transcriptional dynamics of Encephalitozoon intestinalis parasites in human macrophages.Nature communications · 2025Article
- Nematocida displodere mechanosensitive ion channel of small conductance 2 assembles into a unique 6-channel super-structure in vitro.PloS one · 2024Article
- Microsporidian spores contain hibernating dimeric ribosomes.Nature microbiology · 2023Article
- CryoEM reveals that ribosomes in microsporidian spores are locked in a dimeric hibernating state.Nature microbiology · 2023Article
- Near chromosome-level genome assembly of the microsporidium Hamiltosporidium tvaerminnensis.G3 (Bethesda, Md.) · 2023Article
- Article
- Spliceosome assembly and regulation: insights from analysis of highly reduced spliceosomes.RNA (New York, N.Y.) · 2023Review
- Impact of Genome Reduction in Microsporidia.Experientia supplementum (2012) · 2022Article
- Regulation of ribosomal protein genes: An ordered anarchy.Wiley interdisciplinary reviews. RNA · 2021Review
- Identification of Alternative Polyadenylation inFrontiers in genetics · 2021Article
- A new family of cell surface located purine transporters in Microsporidia and related fungal endoparasites.eLife · 2019Article
- Microsporidian Introns Retained against a Background of Genome Reduction: Characterization of an Unusual Set of Introns.Genome biology and evolution · 2019Article
- Evolution and Diversity of Pre-mRNA Splicing in Highly Reduced Nucleomorph Genomes.Genome biology and evolution · 2018Article
- Comparative genomics of microsporidian genomes reveals a minimal non-coding RNA set and new insights for transcription in minimal eukaryotic genomes.DNA research : an international journal for rapid publication of reports on genes and genomes · 2017Article
- Horizontally acquired genes in early-diverging pathogenic fungi enable the use of host nucleosides and nucleotides.Proceedings of the National Academy of Sciences of the United States of America · 2016Article
- Transcriptome sequencing and characterization of ungerminated and germinated spores of Nosema bombycis.Acta biochimica et biophysica Sinica · 2016Article
- Workflow for Genome-Wide Determination of Pre-mRNA Splicing Efficiency from Yeast RNA-seq Data.BioMed research international · 2016Article
- Quantitative Proteomic Analysis of Germination ofFrontiers in microbiology · 2016Article
Corrections and comments
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Authors and funding
4 authors at 2 institutions in 2 countries.
Funding
Abstract
backgroundThe microsporidian Encephalitozoon cuniculi possesses one of the most reduced and compacted eukaryotic genomes. Reduction in this intracellular parasite has affected major cellular machinery, including the loss of over fifty core spliceosomal components compared to S. cerevisiae. To identify expression changes throughout the parasite's life cycle and also to assess splicing in the context of this reduced system, we examined the transcriptome of E. cuniculi using Illumina RNA-seq.
resultsWe observed that nearly all genes are expressed at three post-infection time-points examined. A large fraction of genes are differentially expressed between the first and second (37.7%) and first and third (43.8%) time-points, while only four genes are differentially expressed between the latter two. Levels of intron splicing are very low, with 81% of junctions spliced at levels below 50%. This is dramatically lower than splicing levels found in two other fungal species examined. We also describe the first case of alternative splicing in a microsporidian, an unexpected complexity given the reduction in spliceosomal components.
conclusionsLow levels of splicing observed are likely the result of an inefficient spliceosome; however, at least in one case, splicing appears to be playing a functional role. Although several RNA decay genes are encoded in E. cuniculi, the lack of a few key players could be reducing decay levels and therefore increasing the proportion of unspliced transcripts. Significant proportions of genes are differentially expressed in the first forty-eight hours but not after, indicative of genetic changes that precede the intracellular to infective stage transition.
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