We report the proteomic datasets on the mouse macrophage cell line PMJ2R infected with tick-borne encephalitis virus (TBEV) for two and six days. Data were acquired using shotgun ultra-high resolution mass spectrometry. Peptide identifications were done using the Mascot version 2.4 (Matrix Science), and quantification was performed by a label-free approach. Protein profiles of early (two days) and late (six days) stages of infection were compared between each other and the respective control samples. Protein profiles of infected and control samples differed in the number of identified proteins and their relative abundances. Proteins detected in the TBEV-infected cells were involved in various processes related to the infection, including defense response against the virus, regulation of viral process, negative regulation of viral genome replication, RNA binding, or innate immune response. Also, proteins specific for the early and late stages of infection were identified.

5 N Orehovich Institute of Biomedical Chemistry Russian Federation

Faculty of Science University of South Bohemia Branišovská 1760 37005 České Budějovice Czech Republic

Institute of Parasitology Biology Centre of the Czech Academy of Sciences Branišovská 31 37005 České Budějovice Czech Republic

Zobrazit více v PubMed

Wessel D., Flügge U.I. A method for the quantitative recovery of protein in dilute solution in the presence of detergents and lipids. Anal. Biochem. 1984;138:141–143. PubMed

Rappsilber J., Mann M., Ishihama Y. Protocol for micro-purification, enrichment, pre-fractionation and storage of peptides for proteomics using StageTips. Nat. Protoc. 2007;2(8):1896–1906. PubMed

Kaysheva A.L., Kopylov A.T., Kushlinskii N.E., Gershtein E.S., Alferov A.A. Comparative analysis of blood plasma Proteome in patients with renal cell carcinoma. Bull. Exp. Biol. Med. 2019;167(1):91–96. PubMed

Kaysheva A.L., Kopylov A.T., Ponomarenko E.A., Kiseleva O.I., Teryaeva N.B. Relative abundance of proteins in blood plasma samples from patients with chronic cerebral ischemia. J. Mol. Neurosci. 2018;64(3):440–448. PubMed

Perez-Riverol Y., Csordas A., Bai J., Bernal-Llinares M., Hewapathirana S. The PRIDE database and related tools and resources in 2019: improving support for quantification data. Nucleic Acids Res. 2019;47(D1):D442–D450. PubMed PMC

Conway J.R., Lex A., Gehlenborg N. UpSetR: an R package for the visualization of intersecting sets and their properties. Bioinformatics. 2017;33(18):2938–2940. PubMed PMC

Ishihama Y., Oda Y., Tabata T., Sato T., Nagasu T., Rappsilber J., Mann M. Exponentially modified protein abundance index (emPAI) for estimation of absolute protein amount in proteomics by the number of sequenced peptides per protein. Mol. Cell. Proteom. 2005;4(9):1265–1272. PubMed

Genotype-driven sensitivity of mice to tick-borne encephalitis virus correlates with differential host responses in peripheral macrophages and brain

Proteome Profiling of PMJ2-R and Primary Peritoneal Macrophages