PXD027434

PXD027434 is an original dataset announced via ProteomeXchange.

Title	Cloning and Decoding of Chimpanzee Cytomegalovirus - A Resource for Comparative Functional Genomics
Description	The chimpanzee cytomegalovirus (CCMV) is the closest relative of human CMV (HCMV). Because of the high conservation between these two species and the ability of human cells to fully support CCMV replication, CCMV holds great potential as a model system for HCMV. To make the CCMV genome available for precise and rapid gene manipulation techniques, we captured the genomic DNA of CCMV strain Heberling as a bacterial artificial chromosome(BAC). Selected BAC clones were reconstituted to infectious viruses, growing to similar high titers as parental CCMV. DNA sequencing confirmed the integrity of our clones and led to the identification of two polymorphic loci within the CCMV genome. To re-evaluate the CCMV coding potential, we analyzed the transcriptome and proteome of infected cells and identified several novel ORFs, splice variants, and regulatory RNAs. We further characterized the dynamics of viral gene expression and found that in strong parallel to HCMV, CCMV proteins cluster into five distinct temporal classes. In addition, our datasets revealed that the host response to CCMV infection and the de-regulation of cellular pathways are in line with known hallmarks of HCMV infection. In a first functional experiment, we investigated a proposed frameshift mutation in UL128 that was suspected to restrict CCMV’s cell tropism. In fact, repair of this frameshift re-established productive CCMV infection in endothelial and epithelial cells, expanding the options of CCMV as an infection model. Thus, BAC-cloned CCMV can serve as a powerful tool for systematic approaches in comparative functional genomics, exploiting the close phylogenetic relationship between CCMV and HCMV.
HostingRepository	PRIDE
AnnounceDate	2021-12-20
AnnouncementXML	Submission_2021-12-20_08:24:56.246.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Boris Bogdanow
SpeciesList	scientific name: Panine betaherpesvirus 2; NCBI TaxID: 188763; scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	acetylated residue; monohydroxylated residue; deamidated residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2021-07-20 04:56:18	ID requested
⏵ 1	2021-12-20 08:24:56	announced

Dataset with its publication pending

submitter keyword: Cytomegalovirus, Chimpanzee, Decoding, Evolution

Fan Liu
contact affiliation	Department of Structural Biology, Leibniz-Forschungsinstitut für Molekulare Pharmakologie (FMP), Robert-Rössle-Straße 10, 13125 Berlin, Germany
contact email	Fliu@fmp-berlin.de
lab head
Boris Bogdanow
contact affiliation	MDC Berlin
contact email	boris.bogdanow@mdc-berlin.de
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD027434
     1. Label: PRIDE project
     2. Name: Cloning and Decoding of Chimpanzee Cytomegalovirus - A Resource for Comparative Functional Genomics