Browse
Submit Data
Databases
API
Help

Dataset Information

386 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Mollivirus sibericum particle characterization

ABSTRACT: We describe a fourth type of giant virus infecting Acanthamoeba, Mollivirus sibericum, isolated from the same permafrost sample than Pithovirus sibericum.

OTHER RELATED OMICS DATASETS IN: PRJNA288631

INSTRUMENT(S): LTQ Orbitrap Velos, Q Exactive

ORGANISM(S): Unidentified

SUBMITTER: Yohann Couté

LAB HEAD: Bruley

PROVIDER: PXD002375 | Pride | 2015-09-10

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	Mollivirus-Particle_R1_Velos.raw	Raw
	Mollivirus-Particle_R2_Q-Ex.raw	Raw
	Mollivirus-Particle_R3_Q-Ex.raw	Raw
	Mollivirus-Surfome_R1.raw	Raw
	Mollivirus-Surfome_R1_Ctrl.raw	Raw

Items per page:

1 - 5 of 15

Publications

In-depth study of Mollivirus sibericum, a new 30,000-y-old giant virus infecting Acanthamoeba.

Legendre Matthieu M Lartigue Audrey A Bertaux Lionel L Jeudy Sandra S Bartoli Julia J Lescot Magali M Alempic Jean-Marie JM Ramus Claire C Bruley Christophe C Labadie Karine K Shmakova Lyubov L Rivkina Elizaveta E Couté Yohann Y Abergel Chantal C Claverie Jean-Michel JM

Proceedings of the National Academy of Sciences of the United States of America 20150908 38

Acanthamoeba species are infected by the largest known DNA viruses. These include icosahedral Mimiviruses, amphora-shaped Pandoraviruses, and Pithovirus sibericum, the latter one isolated from 30,000-y-old permafrost. Mollivirus sibericum, a fourth type of giant virus, was isolated from the same permafrost sample. Its approximately spherical virion (0.6-µm diameter) encloses a 651-kb GC-rich genome encoding 523 proteins of which 64% are ORFans; 16% have their closest homolog in Pandoraviruses an ...[more]

PMID: 26351664

Similar Datasets

Mollivirus sibericum infection cycle characterization

Project description:We describe a fourth type of giant virus infecting Acanthamoeba, Mollivirus sibericum, isolated from the same permafrost sample than Pithovirus sibericum.

2017-12-08 | PXD002374 | Pride

MS-based proteomic characterization of Megavirus chilensis virions prepared from cells coinfected or not with Zamilon vitis

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

Proteomic analysis of virion and genomic fibre of Mimivirus reunion

Project description:Mimivirus is the prototype of the Mimiviridae family of giant dsDNA viruses, initially isolated in Acanthamoeba. Little is known about the organization of the viral genome inside the membrane limited nucleoid and whether unpacking or other rearrangements are required prior to early transcription and replication. Here we used Mimivirus reunion (an isolate from La Réunion Island) and showed that in vitro opening of its large icosahedral capsid leads to the release of electron dense, 30 nm diameter rod-shaped objects that appear to be expelled and unwinding from the particles. We developed a purification procedure and performed a mass spectrometry-based characterization of the protein content of the genomic fibre, as well as total virion.

2022-07-29 | PXD021585 | Pride

Proteomic analyses of Pandoravirions

Project description:With its 2.5 Mb DNA genome packed in amphora-shaped particles of bacterium-like dimension (1.2 µm in length, 0.5 µm in diameter), the Acanthamoeba-infecting Pandoravirus salinus remained the most spectacular and intriguing virus since its description in 2013. Following its isolation from shallow marine sediment off the coast of central Chile, that of its relative Pandoravirus dulcis from a fresh water pond near Melbourne, Australia, suggested that they were the first representatives of an emerging worldwide-distributed family of giant viruses. This was further suggested when P. inopinatum discovered in Germany, was sequenced in 2015. We now report the isolation and genome sequencing of three new strains (P. quercus, P.neocaledonia, P. macleodensis) from France, New Caledonia, and Australia. Using a combination of transcriptomic, proteomic, and bioinformatic analyses, we found that these six viruses share enough distinctive features to justify their classification in a new family, the Pandoraviridae, distinct from that of other large DNA viruses.

2018-06-15 | PXD008167 | 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

Transcription profiling of Acanthamoeba polyphaga mimivirus infecting Acanthamoeba castellanii for different lengths of time

Project description:A culture of Acanthamoeba castellanii cells was infected with mimivirus. At specified times after infection, infected cells aliquots were subjected to total RNA extraction. Cy3 labeled cDNA was hybridized on custom designed Agilent oligonucleotide tiling microarrays covering both strands of the mimivirus genome.

2010-03-18 | E-MTAB-187 | biostudies-arrayexpress

Virion proteome of Cafeteria roenbergensis virus strain BV-PW1

Project description:This project describes the protein composition of the Cafeteria roenbergensis virus (CroV, strain BV-PW1: TaxID 693272) particle, a giant marine DNA virus that infects the heterotrophic nanoflagellate microeukaryote C. roenbergensis. CroV is a member of the Nucleo-Cytoplasmic Large DNA Virus clade and related to Acanthamoeba polyphaga mimivirus. CroV possesses a DNA genome of ~730 kilobase pairs that encodes 544 predicted proteins. We analyzed the protein composition of purified CroV particles by liquid chromatography - tandem mass spectrometry (LC-MS/MS) and identified 141 virion-associated CroV proteins. Predicted functions could be assigned to 37% of these proteins, which include structural proteins as well as enzymes for transcription, DNA repair, redox reactions and protein modification. Homologs of 36 CroV virion proteins have previously been found in the virion of Acanthamoeba polyphaga mimivirus. This study shows that giant DNA virus particles contain more than one hundred viral proteins that include specific enzymatic functions.

2014-05-22 | PXD000993 | Pride

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

The functional potential of high Arctic permafrost

Project description:The fate of the carbon stocked in permafrost soils following global warming and permafrost thaw is of major concern in view of the potential for increased CH4 and CO2 emissions from these soils. Complex carbon compound degradation and greenhouse gas emissions are due to soil microbial communities, but their composition and functional potential in permafrost soils are largely unknown. Here, a 2 m deep permafrost and its overlying active layer soil were subjected to metagenome sequencing, quantitative PCR, and microarray analyses. The active layer soil and 2 m permafrost soil microbial community structures were very similar, with Actinobacteria being the dominant phylum. The two soils also possessed a highly similar spectrum of functional genes, especially when compared to other already published metagenomes. Key genes related to methane generation, methane oxidation and organic matter degradation were highly diverse for both soils in the metagenomic libraries and some (e.g. pmoA) showed relatively high abundance in qPCR assays. Genes related to nitrogen fixation and ammonia oxidation, which could have important roles following climatic change in these nitrogen-limited environments, showed low diversity but high abundance. The 2 m permafrost soil showed lower abundance and diversity for all the assessed genes and taxa. Experimental biases were also evaluated and showed that the whole community genome amplification technique used caused large representational biases in the metagenomic libraries. This study described for the first time the detailed functional potential of permafrost-affected soils and detected several genes and microorganisms that could have crucial importance following permafrost thaw. A 2m deep permafrost sample and it overlying active layer were sampled and their metagenome analysed. For microarray analyses, 8 other soil samples from the same region were used for comparison purposes.

2010-05-06 | E-GEOD-20073 | biostudies-arrayexpress

Proteomic analysis of Mason-Pfizer monkey virus virions

Project description:To accomplish their replication cycle, retroviruses rely heavily on a wide variety of cellular proteins and enzymes, such as helicases. Among these, the DExD-box and DEAH/RHA-box helicases were identified to play crucial roles in their nucleic acid metabolism. This study explores the Betaretrovirus Mason-Pfizer monkey virus (M-PMV), which uniquely encodes a G-patch motif - a feature shared with several endogenous retroviruses. Typically found in eukaryotic RNA-binding proteins, G-patch acts as cofactors for DEAH-box RNA helicases, guiding them to specific sub-cellular sites and activating them in diverse RNA metabolic pathways. Despite its established importance in the betaretrovirus replication cycle, the function of the G-patch still needs to be discovered. Using MS analysis, we identified DHX15, a cellular DEAH-box RNA helicase, as host cell protein macked into mature virions. Further research illuminates the complex interplay between retroviruses and host cellular machinery, highlighting the pivotal role of helicases in viral replication processes.

2024-09-13 | PXD046672 | Pride

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data