Dataset Information

Combined proteomics/genomics approach reveals proteomic changes of mature virions as a novel poxvirus adaption mechanism

ABSTRACT: DNA viruses, like poxviruses, possess a highly stable genome, suggesting adaption of virus particles to specific cell types is not restricted to genomic changes. Cowpox viruses (CPXV) are zoonotic poxviruses with an extraordinary broad host range, demonstrating their adaptive potential in vivo. To elucidate novel adaption mechanisms of poxviruses, we isolated CPXV particles from a rat and passaged them five times in a human (HEp-2) and a rat (Rat-2) cell line. Subsequently, we purified mature virions and compared the proteome of the non-passaged virions and each passage.

INSTRUMENT(S): LTQ Orbitrap Discovery

ORGANISM(S): Cowpox Virus (cpv)

SUBMITTER: Marica Grossegesse

LAB HEAD: Andreas Nitsche

PROVIDER: PXD007567 | Pride | 2017-11-14

REPOSITORIES: Pride

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Combined Proteomics/Genomics Approach Reveals Proteomic Changes of Mature Virions as a Novel Poxvirus Adaptation Mechanism.

Grossegesse Marica M Doellinger Joerg J Tyshaieva Alona A Schaade Lars L Nitsche Andreas A

Viruses 20171110 11

DNA viruses, like poxviruses, possess a highly stable genome, suggesting that adaptation of virus particles to specific cell types is not restricted to genomic changes. Cowpox viruses are zoonotic poxviruses with an extraordinarily broad host range, demonstrating their adaptive potential in vivo. To elucidate adaptation mechanisms of poxviruses, we isolated cowpox virus particles from a rat and passaged them five times in a human and a rat cell line. Subsequently, we analyzed the proteome and ge ...[more]

PMID: 29125539

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Project description:Marine viral concentrates (VCs) contains a substantial amount of non-cellular biological particles, e.g. viruses, gene transfer agents (GTAs) and membrane vesicles that are ecological significant. Metagenomic sequencing of VCs has been extensively applied to study the diversity and function potential of natural virions whereas information of nonn-viral components are often excluded for investigation. Here we apply a shotgun proteomic approach to characterize the origin and function of proteins in the VCs collected from the deep chlorophyll maximum (DCM) of the South China Sea. Using a custom database, we identified 636 non-redundant proteins represented by a total of 7220 spectra from the two VC samples. Cyanophages, pelagiphages, Phycodnaviridae and a group of uncultured viruses (previouly collected from DCM of Mediterranean Sea) contributed the most in the viral proteome. Seldom proteins related to RNA viruses and known GTAs were found despites of the presence of their sequences in the protein-searching database, suggested that these particles might be low abundant in the samples. Over 60% of identified spectra could not be assigned to viruses. The non-viral spectra were dominated by microbial groups of SAR324, SAR11, Actinobacteria and picoeukaryotic algae such as prasinophytes.Interestingly, we found that periplasmic proteins such as diverse ABC and TRAP transporters, and 56 kDa selenium-binding proteins, were enriched in this fraction.Together with other detected non-viral proteins,we could identify significant microbial functions, such as the utilization of glycine betaine, 3-dimethylsulphoniopropionate,and taurine by SAR11,and urea by prochlorococcus, nitrous oxide production by ammonia-oxidizing archaea and peroxide detoxification by unkonwn gammaproteobacteria. Our study of marine VCs demonstrates the potential application of metaproteomics to link the nano-size materials to the diversity of virions and interesting microbial functions in the ocean.

			Action	DRS
	CPXVcrustRatHei_DB_withisoforms.fasta	Fasta
	H1P1_I.RAW	Raw
	H1P2_I.RAW	Raw
	H1P3_I.RAW	Raw
	H1P4_I.RAW	Raw