The HIV Nef protein modulates cellular and exosomal miRNA profiles in human monocytic cells

References

• Das SR, Jameel S. Biology of the HIV Nef protein. Indian J Med Res. 2005; 121: 315–32.
   PubMed Web of Science ®Google Scholar
• Landi A, Iannucci V, Nuffel AV, Meuwissen P, Verhasselt B. One protein to rule them all: modulation of cell surface receptors and molecules by HIV Nef. Curr HIV Res. 2011; 9: 496–504.
   PubMed Web of Science ®Google Scholar
• Campbell TD, Khan M, Huang MB, Bond VC, Powell MD. HIV-1 Nef protein is secreted into vesicles that can fuse with target cells and virions. Ethn Dis. 2008; 18: S2–14-9.
   Google Scholar
• Lenassi M, Cagney G, Liao M, Vaupotic T, Bartholomeeusen K, Cheng Y et al. HIV Nef is secreted in exosomes and triggers apoptosis in bystander CD4+ T cells. Traffic. 2010; 11: 110–22.
   PubMed Web of Science ®Google Scholar
• Raymond AD, Campbell-Sims TC, Khan M, Lang M, Huang MB, Bond VC et al. HIV type 1 Nef is released from infected cells in CD45(+) microvesicles and is present in the plasma of HIV-infected individuals. AIDS Res Hum Retroviruses. 2011; 27: 167–78.
   PubMed Web of Science ®Google Scholar
• Fujii Y, Otake K, Tashiro M, Adachi A. Soluble Nef antigen of HIV-1 is cytotoxic for human CD4+ T cells. FEBS Lett. 1996; 393: 93–6.
   PubMed Web of Science ®Google Scholar
• Campbell PE, Isayev O, Ali SA, Roth WW, Huang MB, Powell MD et al. Validation of a novel secretion modification region (SMR) of HIV-1 Nef using cohort sequence analysis and molecular modeling. J Mol Model. 2012; 18: 4603–13.
   Web of Science ®Google Scholar
• Zomer A, Vendrig T, Hopmans ES, van Eijndhoven M, Middeldorp JM, Pegtel DM. Exosomes: fit to deliver small RNA. Commun Integr Biol. 2010; 3: 447–50.
   PubMedGoogle Scholar
• de Jong OG, Verhaar MC, Chen Y, Vader P, Gremmels H, Posthuma G et al. Cellular stress conditions are reflected in the protein and RNA content of endothelial cell-derived exosomes. J Extracell Vesicles. 2012; 1 18396, doi: http://dx.doi.org/10.3402/jev.v1i0.18396.
   PubMedGoogle Scholar
• Ekström K, Valadi H, Sjöstrand M, Malmhäll C, Bossios A, Eldh M et al. Characterization of mRNA and microRNA in human mast cell-derived exosomes and their transfer to other mast cells and blood CD34 progenitor cells. J Extracell Vesicles. 2012; 1 18389, doi: http://dx.doi.org/10.3402/jev.v1i0.18389.
   Google Scholar
• Ameisen JC, Guy B, Chamaret S, Loche M, Mach B, Tartar A et al. Persistent antibody response to the HIV-1-negative regulatory factor in HIV-1-infected seronegative persons. N Engl J Med. 1989; 320: 251–2.
   Web of Science ®Google Scholar
• Svensson KJ, Christianson HC, Wittrup A, Bourseau-Guilmain E, Lindqvist E, Svensson LM et al. Exosome uptake depends on ERK1/2-heat shock protein 27 signaling and lipid Raft-mediated endocytosis negatively regulated by caveolin-1. J Biol Chem. 2013; 288: 17713–24.
   PubMed Web of Science ®Google Scholar
• Song L, Gao S, Jiang W, Chen S, Liu Y, Zhou L et al. Silencing suppressors: viral weapons for countering host cell defenses. Protein Cell. 2011; 2: 273–81.
   Web of Science ®Google Scholar
• Wang X, Ye L, Hou W, Zhou Y, Wang YJ, Metzger DS et al. Cellular microRNA expression correlates with susceptibility of monocytes/macrophages to HIV-1 infection. Blood. 2009; 113: 671–4.
   PubMed Web of Science ®Google Scholar
• Yeung ML, Bennasser Y, Watashi K, Le SY, Houzet L, Jeang KT. Pyrosequencing of small non-coding RNAs in HIV-1 infected cells: evidence for the processing of a viral-cellular double-stranded RNA hybrid. Nucleic Acids Res. 2009; 37: 6575–86.
   PubMed Web of Science ®Google Scholar
• Sun G, Li H, Wu X, Covarrubias M, Scherer L, Meinking K et al. Interplay between HIV-1 infection and host microRNAs. Nucleic Acids Res. 2012; 40: 2181–96.
   Web of Science ®Google Scholar
• Aqil M, Naqvi AR, Bano AS, Jameel S. The HIV-1 Nef protein binds argonaute-2 and functions as a viral suppressor of RNA interference. PLoS One. 2013; 8: e74472.
   PubMed Web of Science ®Google Scholar
• Thery C, Amigorena S, Raposo G, Clayton A. Isolation and characterization of exosomes from cell culture supernatants and biological fluids. Curr Protoc Cell Biol. 2006; Chapter 3 Unit 3 22.
   Google Scholar
• Dweep H, Sticht C, Pandey P, Gretz N. miRWalk – database: prediction of possible miRNA binding sites by “walking” the genes of three genomes. J Biomed Inform. 2011; 44: 839–47.
   PubMed Web of Science ®Google Scholar
• Huang da W, Sherman BT, Lempicki RA. Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists. Nucleic Acids Res. 2009; 37: 1–13.
   PubMed Web of Science ®Google Scholar
• Huang da W, Sherman BT, Lempicki RA. Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat Protoc. 2009; 4: 44–57.
   PubMed Web of Science ®Google Scholar
• Rusinov V, Baev V, Minkov IN, Tabler M. MicroInspector: a web tool for detection of miRNA binding sites in an RNA sequence. Nucleic Acids Res. 2005; 33: W696–700.
   PubMed Web of Science ®Google Scholar
• Rehmsmeier M, Steffen P, Hochsmann M, Giegerich R. Fast and effective prediction of microRNA/target duplexes. RNA. 2004; 10: 1507–17.
   PubMed Web of Science ®Google Scholar
• Olivetta E, Percario Z, Fiorucci G, Mattia G, Schiavoni I, Dennis C et al. HIV-1 Nef induces the release of inflammatory factors from human monocyte/macrophages: involvement of Nef endocytotic signals and NF-kappa B activation. J Immunol. 2003; 170: 1716–27.
   PubMed Web of Science ®Google Scholar
• Lindsay MA. microRNAs and the immune response. Trends Immunol. 2008; 29: 343–51.
   PubMed Web of Science ®Google Scholar
• Stumptner-Cuvelette P, Jouve M, Helft J, Dugast M, Glouzman AS, Jooss K et al. Human immunodeficiency virus-1 Nef expression induces intracellular accumulation of multivesicular bodies and major histocompatibility complex class II complexes: potential role of phosphatidylinositol 3-kinase. Mol Biol Cell. 2003; 14: 4857–70.
   Web of Science ®Google Scholar
• Muratori C, Cavallin LE, Kratzel K, Tinari A, De Milito A, Fais S et al. Massive secretion by T cells is caused by HIV Nef in infected cells and by Nef transfer to bystander cells. Cell Host Microbe. 2009; 6: 218–30.
   Web of Science ®Google Scholar
• Costa LJ, Chen N, Lopes A, Aguiar RS, Tanuri A, Plemenitas A et al. Interactions between Nef and AIP1 proliferate multivesicular bodies and facilitate egress of HIV-1. Retrovirology. 2006; 3: 33.
   Web of Science ®Google Scholar
• Turchinovich A, Samatov TR, Tonevitsky AG, Burwinkel B. Circulating miRNAs: cell–cell communication function?. Front Genet. 2013; 4: 119.
   PubMedGoogle Scholar
• Yao B, La LB, Chen YC, Chang LJ, Chan EK. Defining a new role of GW182 in maintaining miRNA stability. EMBO Rep. 2012; 13: 1102–8.
   PubMed Web of Science ®Google Scholar
• Witwer KW, Watson AK, Blankson JN, Clements JE. Relationships of PBMC microRNA expression, plasma viral load, and CD4+ T-cell count in HIV-1-infected elite suppressors and viremic patients. Retrovirology. 2012; 9: 5.
   PubMed Web of Science ®Google Scholar
• Chan EK, Ceribelli A, Satoh M. MicroRNA-146a in autoimmunity and innate immune responses. Ann Rheum Dis. 2013; 72: ii90–5.
   PubMed Web of Science ®Google Scholar
• Nahid MA, Pauley KM, Satoh M, Chan EK. miR-146a is critical for endotoxin-induced tolerance: implication in innate immunity. J Biol Chem. 2009; 284: 34590–9.
   PubMed Web of Science ®Google Scholar
• Pauley KM, Satoh M, Pauley BA, Dominguez-Gutierrez PR, Wallet SM, Holliday LS et al. Formation of GW/P bodies as marker for microRNA-mediated regulation of innate immune signaling in THP-1 cells. Immunol Cell Biol. 2010; 88: 205–12.
   Web of Science ®Google Scholar
• Tan Gana NH, Onuki T, Victoriano AF, Okamoto T. MicroRNAs in HIV-1 infection: an integration of viral and cellular interaction at the genomic level. Front Microbiol. 2012; 3: 306.
   Web of Science ®Google Scholar
• Gibbings DJ, Ciaudo C, Erhardt M, Voinnet O. Multivesicular bodies associate with components of miRNA effector complexes and modulate miRNA activity. Nat Cell Biol. 2009; 11: 1143–9.
   PubMed Web of Science ®Google Scholar
• Lee YS, Pressman S, Andress AP, Kim K, White JL, Cassidy JJ et al. Silencing by small RNAs is linked to endosomal trafficking. Nat Cell Biol. 2009; 11: 1150–6.
   PubMed Web of Science ®Google Scholar