Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Proteomic characterization of Cedratvirus particles

ABSTRACT: Giant viruses infecting amoebae display remarkable structural and genomic complexity. In this study, we performed a comprehensive proteomic characterization of Cedratvirus particles purified from Acanthamoeba castellanii cultures to uncover their protein composition and organization. Approximately 100 million viral particles were purified through two consecutive sucrose cushion centrifugations to achieve high purity and homogeneity. The structural proteome was analyzed using LC-MS/MS, enabling the identification and quantification of both viral and potential host-derived proteins associated with the virion. This dataset includes raw mass spectrometry data, identification files, and metadata associated with the proteomic analysis

INSTRUMENT(S):

ORGANISM(S): Cedratvirus Ce2-1

SUBMITTER: Talita Hanchuk

LAB HEAD: Talita Diniz Melo Hanchuk

PROVIDER: PXD069162 | Pride | 2025-11-10

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	27mar24_Talita_Cedrat_1_1ul.raw	Raw
	28mar24_Talita_Cedrat_2_1ul.raw	Raw
	28mar24_Talita_Cedrat_3_1ul.raw	Raw
	Acanthamoeba.txt	Txt
	SDFR.xlsx	Xlsx

Items per page:

1 - 5 of 8

Similar Datasets

Proteomic Characterization of Naiavirus

Project description:Giant viruses infecting amoebae are notable for their substantial particle sizes and expansive genomes. In this study, we collected water samples from 44 distinct locations along a river within Brazil's Pantanal biome. These samples were processed and subsequently inoculated into Vermamoeba vermiformis cultures. Observation of cytopathic effects led to the isolation of a novel virus, designated Naiavirus, distinguished by its unprecedented virion morphology and genomic organization. To elucidate the protein composition of Naiavirus particles, large-scale infections were conducted using 20 T175 flasks, each containing 10 million amoebae. Post-infection, viral particles were purified through two successive sucrose gradient centrifugations to achieve high purity. Proteomic analysis of these purified particles identified 254 associated viral proteins, a count exceeding those reported for all known giant viruses except for pandoraviruses. This dataset encompasses the raw mass spectrometry data, identification files, and associated metadata, offering valuable insights into the structural proteome of this unique giant virus.

2025-09-29 | PXD063493 | Pride

Reovirus low-density particles package viral and cellular RNA

Project description:Packaging of segmented, double-stranded RNA viral genomes requires coordination of multiple viral proteins and RNA segments. For mammalian orthoreovirus (reovirus), evidence suggests either all ten or zero viral RNA segments are simultaneously packaged in a highly coordinated process hypothesized to exclude host RNA. Accordingly, reovirus generates genome-containing virions and “genomeless” top component particles. However, despite ostensibly lacking the genome, top component particles maintain a low level of infectivity. Whether reovirus particles can package host RNA is unknown. To gain insight into reovirus packaging potential and mechanisms, we employed next-generation RNA-sequencing to define the viral and host RNA content of purified reovirus virions and top component particles. Reovirus top component particles contained double-stranded viral RNA segments in similar proportions but at reduced levels compared to virions. Top component particles also were enriched for numerous host RNAs, especially short, non-polyadenylated transcripts, that differed by reovirus strain, independent of the viral polymerase. In contrast, virions were enriched for very few host RNAs. Collectively, these findings indicate that genome packaging into reovirus virions is exquisitely selective, while incorporation of host RNAs into top component particles is more promiscuous or differentially selective and may contribute to or result from inefficient viral RNA packaging.

2021-06-08 | GSE164270 | GEO

87f0a425-deb0-49ea-98b1-b47dba510c1a - samples

Project description:sequencing of libraires enriched for viral particles

| EGAD00001007638 | EGA

Proteomics characterization of purified SARS-CoV-2 viral particles.

Project description:Shotgun proteomics characterization of purified SARS-CoV-2 viral particles.

2021-05-31 | PXD025131 | Pride

Proteomics characterization of purified SARS-CoV-2 viral particles for search of mutations.

Project description:Shotgun proteomics characterization of purified SARS-CoV-2 viral particles and interpretation in error-tolerant mode.

2021-05-31 | PXD025130 | Pride

Proteomic characterization of Zamilon vitis virions produced in various contexts

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

Simultaneous Membrane and RNA Binding by Tick-Borne Encephalitis Virus Capsid Protein

Project description:<p>Tick-borne encephalitis virus is an enveloped, pathogenic, RNA virus in the family Flaviviridae, genus Flavivirus. Viral particles are formed when the nucleocapsid, consisting of an RNA genome and multiple copies of the capsid protein, buds through the endoplasmic reticulum membrane and acquires the viral envelope and the associated proteins. The coordination of the nucleocapsid components to the sites of assembly and budding are poorly understood. Here, we investigate nucleocapsid assembly by characterizing the interactions of the wild-type and truncated capsid proteins with membranes by using biophysical methods and model membrane systems. We show that capsid protein initially binds membranes via electrostatic interactions with negatively-charged lipids which is followed by membrane insertion. Additionally, we show that membrane-bound capsid protein can recruit viral genomic RNA. We confirm the biological relevance of the biophysical findings by using mass spectrometry to show that purified virions contain negatively-charged lipids. Our results suggest that nucleocapsid assembly is coordinated by negatively-charged membrane patches on the endoplasmic reticulum and that the capsid protein mediates direct contacts between the nucleocapsid and the membrane.</p>

2023-01-06 | MTBLS6076 | MetaboLights

Transcriptome analysis of Escherichia coli O157:H7 EDL933 inside Acanthamoeba using microarrays

Project description:The transcriptome of Escherichia coli K-12 has been widely studied over a variety of conditions for the past decade while such studies involving E. coli O157:H7, its pathogenic cousin, are just now being conducted. To better understand the impact of intracellular life within a ruminant and environmental protozoan on E. coli O157:H7, global transcript levels of strain EDL933 cells inside Acanthamoeba were compared to cell grown in the protozoan media (ATCC PYG712) by microarray. Nine independent RNA samples from cell from within Acanthamoeba were paired with seven independent RNA samples from control cultures for hybridization to nine two-color microarrays. For four arrays, the control RNA sample was labeled with Cy3 dye and the experimental RNA sample was labeled with Cy5 dye, the dyes were reversed for the other five arrays to overcome dye bias.

2010-12-01 | E-GEOD-16762 | biostudies-arrayexpress

Mimivirus Replication Factories

Project description:Proteomic analysis of isolated viral factories along a timeline after infection of the amoeba Acanthamoeba polyphaga by the giant Mimivirus

2018-10-26 | PXD004203 | Pride

Project description:RNASeq of purified HBV particles from HepAD38 cells

| PRJNA906647 | ENA