Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1144910 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR30146849_1.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 1 of 1 |
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Project description:Acanthamoeba-infecting Mimiviridae belong to three clades: Mimiviruses (A), Moumouviruses (B) and Megaviruses (C). The uniquely complex mobilome of these giant viruses includes virophages and linear 7 kb-DNA molecules called “transpovirons”. We recently isolated a new virophage (Zamilon vitis) and two new transpovirons (maBtv and mvCtv) respectively associated to B-clade and C-clade Mimiviridae. We used the capacity of the Zamilon virophage to replicate both on B-clade and C-clade host viruses to investigate the three partite interaction network governing the propagation of transpovirons. We notably performed proteomic comparisons of host viruses and virophage particles carrying or cleared of transpovirons in search of proteins involved in this adaptation process. These experiments revealed that transpoviron-encoded proteins are synthetized during the combined Mimiviridae/virophage/transpoviron replication process and are specifically incorporated into the virophage and Mimiviridae virions together with the cognate transpoviron DNA. This is a unique example of intricate commensalism in the viral world, where the Zamilon virophage and the transpoviron depend on their host giant virus to replicate, and the transpoviron depends on the virophage to propagate from one host virus to another.
2020-04-14 | PXD009037 | Pride
Project description:Nested parasitic chains are common schemes in nature, not limited to cellular organisms. Some giant viruses infecting protists are hyperparasitized by smaller viruses named virophages. Both can carry episomal plasmid-like DNA molecules known as transpovirons in their particles. They all share common transcriptional regulatory elements dictating the expression of their genes, which are transcribed within viral factories built by giant viruses in the host cytoplasm. This suggests close but as yet undetermined interactions between their respective transcriptional networks. Here, we studied the protein content of Megavirus chilensis virions produced in Acanthamoeba castellanii cells co-infected or not with the virophage Zamilon vitis.
2024-09-03 | PXD052049 | Pride
Project description:Metatranscriptome of Acanthamoeba castellanii Neff infected with Megavirus chilensis and Zamilon vitis virophage carrying the Mvtv transpoviron culture from CNRS, Aix-Marseille University, France -
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Project description:Metatranscriptome of Acanthamoeba castellanii Neff infected with Megavirus chilensis and Zamilon vitis virophage carrying the Mvtv transpoviron culture from CNRS, Aix-Marseille University, France -
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Project description:Metatranscriptome of Acanthamoeba castellanii Neff infected with Megavirus chilensis and Zamilon vitis virophage carrying the Mvtv transpoviron culture from CNRS, Aix-Marseille University, France -
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Project description:Metatranscriptome of Acanthamoeba castellanii Neff infected with Megavirus chilensis and Zamilon vitis virophage carrying the Mvtv transpoviron culture from CNRS, Aix-Marseille University, France -
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Project description:Metatranscriptome of Acanthamoeba castellanii Neff infected with Megavirus chilensis and Zamilon vitis virophage carrying the Mvtv transpoviron culture from CNRS, Aix-Marseille University, France -
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Project description:Metatranscriptome of Acanthamoeba castellanii Neff infected with Megavirus chilensis and Zamilon vitis virophage carrying the Mvtv transpoviron culture from CNRS, Aix-Marseille University, France -
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Project description:a chromosome-level nuclear genome and organelle genomes of the alpine snow alga Chloromonas typhlos were sequenced and assembled by integrating short- and long-read sequencing and proteogenomic strategy
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Project description:Objectives: To perform long-read transcriptome and proteome profiling of pathogen-stimulated peripheral blood mononuclear cells (PBMCs) from healthy donors. We aim to discover new transcripts and protein isoforms expressed during immune responses to diverse pathogens. Methods: PBMCs were exposed to four microbial stimuli for 24 hours: the TLR4 ligand lipopolysaccharide (LPS), the TLR3 ligand Poly(I:C), heat-inactivated Staphylococcus aureus, Candida albicans, and RPMI medium as negative controls. Long-read sequencing (PacBio) of one donor and secretome proteomics and short-read sequencing of five donors were performed. IsoQuant was used for transcriptome construction, Metamorpheus/FlashLFQ for proteome analysis, and Illumina short-read 3’-end mRNA sequencing for transcript quantification. Results: Long-read transcriptome profiling reveals the expression of novel sequences and isoform switching induced upon pathogen stimulation, including transcripts that are difficult to detect using traditional short-read sequencing. We observe widespread loss of intron retention as a common result of all pathogen stimulations. We highlight novel transcripts of NFKB1 and CASP1 that may indicate novel immunological mechanisms. In general, RNA expression differences did not result in differences in the amounts of secreted proteins. Interindividual differences in the proteome were larger than the differences between stimulated and unstimulated PBMCs. Clustering analysis of secreted proteins revealed a correlation between chemokine (receptor) expression on the RNA and protein levels in C. albicans- and Poly(I:C)-stimulated PBMCs. Conclusion: Isoform aware long-read sequencing of pathogen-stimulated immune cells highlights the potential of these methods to identify novel transcripts, revealing a more complex transcriptome landscape than previously appreciated.
2023-09-16 | PXD045237 | Pride