S. R. Adams and R. E. Campbell, New biarsenical ligands and tetracysteine motifs for protein labeling in vitro and in vivo: synthesis and biological applications, J Am Chem Soc, vol.124, issue.21, pp.6063-6076, 2002.

N. Arhel, Revisiting HIV-1 uncoating, Retrovirology, vol.7, p.96, 2010.
URL : https://hal.archives-ouvertes.fr/hal-02142365

N. Arhel and A. Genovesio, Quantitative four-dimensional tracking of cytoplasmic and nuclear HIV-1 complexes, Nat Methods, vol.3, issue.10, pp.817-824, 2006.
URL : https://hal.archives-ouvertes.fr/pasteur-00163778

N. J. Arhel and S. Souquere-besse, Wild-type and central DNA flap defective HIV-1 lentiviral vector genomes: intracellular visualization at ultrastructural resolution levels, Retrovirology, vol.3, p.38, 2006.
URL : https://hal.archives-ouvertes.fr/hal-02142329

A. Bhattacharya and S. L. Alam, Structural basis of HIV-1 capsid recognition by PF74 and CPSF6, Proc Natl Acad Sci U S A, vol.111, issue.52, pp.18625-18630, 2014.

K. Bichel and A. J. Price, HIV-1 capsid undergoes coupled binding and isomerization by the nuclear pore protein NUP358, Retrovirology, vol.10, p.81, 2013.

J. A. Briggs and K. Grunewald, The mechanism of HIV-1 core assembly: insights from threedimensional reconstructions of authentic virions, Structure, vol.14, issue.1, pp.15-20, 2006.

E. M. Campbell and T. J. Hope, HIV-1 capsid: the multifaceted key player in HIV-1 infection, Nat Rev Microbiol, vol.13, issue.8, pp.471-483, 2015.

P. Y. Chen and D. Pearce, Membrane water and solute permeability determined quantitatively by self-quenching of an entrapped fluorophore, Biochemistry, vol.27, issue.15, pp.5713-5718, 1988.

R. F. Chen and J. R. Knutson, Mechanism of fluorescence concentration quenching of carboxyfluorescein in liposomes: energy transfer to nonfluorescent dimers, Anal Biochem, vol.172, issue.1, pp.61-77, 1988.

C. R. Chin and J. M. Perreira, Direct Visualization of HIV-1 Replication Intermediates Shows that Capsid and CPSF6 Modulate HIV-1 Intra-nuclear Invasion and Integration, Cell Rep, vol.13, issue.8, pp.1717-1731, 2015.

J. L. Darlix and J. Godet, Flexible nature and specific functions of the HIV-1 nucleocapsid protein, J Mol Biol, vol.410, issue.4, pp.565-581, 2011.
URL : https://hal.archives-ouvertes.fr/hal-00666974

D. Nunzio, F. , and T. Fricke, Nup153 and Nup98 bind the HIV-1 core and contribute to the early steps of HIV-1 replication, Virology, vol.440, issue.1, pp.8-18, 2013.
URL : https://hal.archives-ouvertes.fr/pasteur-01536160

D. Gao and J. Wu, Cyclic GMP-AMP synthase is an innate immune sensor of HIV and other retroviruses, Science, vol.341, issue.6148, pp.903-906, 2013.

B. A. Griffin and S. R. Adams, Specific covalent labeling of recombinant protein molecules inside live cells, Science, vol.281, issue.5374, pp.269-272, 1998.

A. E. Hulme and Z. Kelley, Complementary Assays Reveal a Low Level of CA Associated with Viral Complexes in the Nuclei of HIV-1-Infected Cells, J Virol, vol.89, issue.10, pp.5350-5361, 2015.

A. E. Hulme and O. Perez, Complementary assays reveal a relationship between HIV-1 uncoating and reverse transcription, Proc Natl Acad Sci U S A, vol.108, issue.24, pp.9975-9980, 2011.

X. Lahaye and T. Satoh, The capsids of HIV-1 and HIV-2 determine immune detection of the viral cDNA by the innate sensor cGAS in dendritic cells, Immunity, vol.39, issue.6, pp.1132-1142, 2013.
URL : https://hal.archives-ouvertes.fr/inserm-00959028

M. Lelek and F. D. Nunzio, Superresolution imaging of HIV in infected cells with FlAsH-PALM, Proc Natl Acad Sci U S A, vol.109, issue.22, pp.8564-8569, 2012.
URL : https://hal.archives-ouvertes.fr/pasteur-01536166

S. Lyonnais and R. J. Gorelick, A protein ballet around the viral genome orchestrated by HIV-1 reverse transcriptase leads to an architectural switch: from nucleocapsid-condensed RNA to Vpr-bridged DNA, Virus Res, vol.171, issue.2, pp.287-303, 2013.
URL : https://hal.archives-ouvertes.fr/hal-02122408

K. A. Matreyek and A. Engelman, The requirement for nucleoporin NUP153 during human immunodeficiency virus type 1 infection is determined by the viral capsid, J Virol, vol.85, issue.15, pp.7818-7827, 2011.

K. A. Matreyek and S. S. Yucel, Nucleoporin NUP153 phenylalanine-glycine motifs engage a common binding pocket within the HIV-1 capsid protein to mediate lentiviral infectivity, PLoS Pathog, vol.9, issue.10, p.1003693, 2013.

G. Mirambeau and S. Lyonnais, HIV-1 protease and reverse transcriptase control the architecture of their nucleocapsid partner, PLoS One, vol.2, issue.7, p.669, 2007.

G. Mirambeau and S. Lyonnais, Transmission electron microscopy reveals an optimal HIV-1 nucleocapsid aggregation with single-stranded nucleic acids and the mature HIV-1 nucleocapsid protein, J Mol Biol, vol.364, issue.3, pp.496-511, 2006.

H. Mojzisova and S. Bonneau, Photosensitizing properties of chlorins in solution and in membrane-mimicking systems, Photochem Photobiol Sci, vol.8, issue.6, pp.778-787, 2009.
URL : https://hal.archives-ouvertes.fr/hal-00394568

K. Peng and W. Muranyi, Quantitative microscopy of functional HIV post-entry complexes reveals association of replication with the viral capsid, Elife, vol.3, p.4114, 2014.

C. F. Pereira and P. C. Ellenberg, Labeling of multiple HIV-1 proteins with the biarsenicaltetracysteine system, PLoS One, vol.6, issue.2, p.17016, 2011.

P. J. Racine and C. Chamontin, Requirements for nucleocapsid-mediated regulation of reverse transcription during the late steps of HIV-1 assembly, Sci Rep, vol.6, p.27536, 2016.
URL : https://hal.archives-ouvertes.fr/hal-01923812

J. Rasaiyaah and C. P. Tan, HIV-1 evades innate immune recognition through specific cofactor recruitment, Nature, vol.503, issue.7476, pp.402-405, 2013.

T. Schaller and K. E. Ocwieja, HIV-1 capsid-cyclophilin interactions determine nuclear import pathway, integration targeting and replication efficiency, PLoS Pathog, vol.7, issue.12, p.1002439, 2011.

C. A. Schneider and W. S. Rasband, NIH Image to ImageJ: 25 years of image analysis, Nat Methods, vol.9, issue.7, pp.671-675, 2012.

B. Walter, Ann.Phys (Leipzig), vol.34, pp.518-533, 1988.

B. Walter, Ann.Phys (Leipzig), vol.34, pp.502-517, 1988.

B. Walter, Ann.Phys (Leipzig), vol.34, pp.316-326, 1988.

Y. X. Wang and L. B. Shi, Functional water channels and proton pumps are in separate populations of endocytic vesicles in toad bladder granular cells, Biochemistry, vol.30, issue.11, pp.2888-2894, 1991.

J. N. Weinstein and S. Yoshikami, Liposome-cell interaction: transfer and intracellular release of a trapped fluorescent marker, Science, vol.195, issue.4277, pp.489-492, 1977.

Y. Yang and T. Fricke, Inhibition of reverse transcriptase activity increases stability of the HIV-1 core, J Virol, vol.87, issue.1, pp.683-687, 2013.

R. G. Ye and L. B. Shi, Functional colocalization of water channels and proton pumps in endosomes from kidney proximal tubule, J Gen Physiol, vol.93, issue.5, pp.885-902, 1989.

K. Zhu and C. Dobard, Requirement for integrase during reverse transcription of human immunodeficiency virus type 1 and the effect of cysteine mutations of integrase on its interactions with reverse transcriptase, J Virol, vol.78, issue.10, pp.5045-5055, 2004.

V. Ptatschek, T. Schmidt, M. Lerch, G. Müller, L. Spanhel et al., , 1998.

, Quantized aggregation phenomena in II-VI-semiconductor colloids Ber, Bunsenges. Phys. Chem, vol.102, pp.85-94

V. Romanyuk, I. Dmitruk, Y. Barnakov, R. Belosludov, and A. Kasuya, Ultra-stable nanoparticles in A(II)B(VI) (A(II) = Cd, Zn; B(VI) = S, Te) compounds J. Nanosci. Nanotechnol, vol.9, pp.2111-2119, 2009.

A. Kasuya, Ultra-stable nanoparticles of CdSe revealed from mass spectrometry, Nat. Mater, vol.3, pp.99-102, 2004.

Y. Park, Aqueous phase synthesized CdSe nanoparticles with well-defined numbers of constituent atoms, J. Phys. Chem. C, vol.114, pp.18834-18874, 2010.

Y. Bacherikov, M. Davydenko, A. Dmytruk, I. Dmitruk, P. Lytvyn et al., CdSe nanoparticles grown with different I Lysova et al chelates Semicond, Phys. Quantum Electron. Optoelectron, vol.9, pp.75-84, 2006.

S. Kudera, Sequential growth of magic-size CdSe nanocrystals, Adv. Mater, vol.19, pp.548-52, 2007.

S. Dolai, Isolation of bright blue light-emitting CdSe nanocrystals with 6.5 kDa core in gram scale: high photoluminescence efficiency controlled by surface ligand chemistry, Chem. Mater, vol.26, pp.1278-85, 2014.

M. Schreuder, J. Mcbride, A. Dukes, J. Sammons, and S. Rosenthal, Control of surface state emission via phosphonic acid modulation in ultrasmall CdSe nanocrystals: the role of ligand electronegativity, J. Phys. Chem. C, vol.113, pp.8169-76, 2009.

T. Kippeny, Effects of surface passivation on the exciton dynamics of CdSe nanocrystals as observed by ultrafast fluorescence upconversion spectroscopy, J. Chem. Phys, vol.128, pp.84711-84718, 2008.

K. Lawrence, S. Dolai, Y. Lin, D. A. Sardar, and R. , Enhancing the physicochemical and photophysical properties of small (<2.0 nm) CdSe nanoclusters for intracellular imaging applications RSC Adv, vol.4, pp.30742-53, 2014.

P. Yang, S. Tretiak, and S. Ivanov, Influence of surfactants and charges on CdSe quantum dots, J. Cluster Sci, vol.22, pp.405-436, 2011.

C. Landes, M. Braun, and M. El-sayed, On the nanoparticle to molecular size transition: fluorescence quenching studies, J. Phys. Chem. B, vol.105, pp.10554-10562, 2001.

B. Cossairt and J. Owen, CdSe clusters: at the interface of small molecules and quantum dots, Chem. Mater, vol.23, pp.3114-3123, 2011.

A. Chatterjee and D. Seth, Photophysical properties of 7-(diethylamino)coumarin-3-carboxylic acid in the nanocage of cyclodextrins and in different solvents and solvent mixtures Photochem. Photobiol, vol.89, pp.280-93, 2013.

A. Dukes, J. Mcbride, and S. Rosenthal, Synthesis of magic-sized CdSe and CdTe nanocrystals with diisooctylphosphinic acid, Chem. Mater, vol.22, pp.6402-6410, 2010.

J. Joo, J. Son, S. Kwon, J. Yu, and T. Hyeon, Lowtemperature solution-phase synthesis of quantum well structured CdSe nanoribbons, J. Am. Chem. Soc, vol.128, pp.5632-5635, 2006.

Y. Wang, The magic-size nanocluster (CdSe) (34) as a low-temperature nucleant for cadmium selenide nanocrystals; room-temperature growth of crystalline quantum platelets, Chem. Mater, vol.26, p.6318, 2014.

C. Murray, D. Norris, and M. Bawendi, Synthesis and characterization of nearly monodisperse CdE (E = sulfur, selenium, tellurium) semiconductor nanocrystallites, J. Am. Chem. Soc, vol.115, pp.8706-8721, 1993.

Z. Jiang and D. Kelley, Role of magic-sized clusters in the synthesis of CdSe nanorods, ACS Nano, vol.4, pp.1561-72, 2010.

A. Morris-cohen, M. Frederick, G. Lilly, E. Mcarthur, and E. Weiss, Organic surfactant-controlled composition of the surfaces of CdSe quantum dots, J. Phys. Chem. Lett, vol.1, pp.1078-81, 2010.

J. Newton, Low-temperature synthesis of magicsized CdSe nanoclusters: influence of ligands on nanocluster growth and photophysical properties, J. Phys. Chem. C, vol.116, pp.4380-4389, 2012.

Z. Peng and X. Peng, Formation of high-quality CdTe, CdSe, and CdS nanocrystals using CdO as precursor, J. Am. Chem. Soc, vol.123, pp.183-187, 2001.

D. Talapin, A. Rogach, A. Kornowski, M. Haase, and H. Weller, Highly luminescent monodisperse CdSe and CdSe/ZnS nanocrystals synthesized in a hexadecylaminetrioctylphosphine oxide-trioctylphospine mixture, Nano Lett, vol.1, pp.207-218, 2001.

M. Zanella, A. Abbasi, A. Schaper, and W. Parak, Discontinuous growth of II-VI semiconductor nanocrystals from different materials, J. Phys. Chem. C, vol.114, pp.6205-6220, 2010.

Y. Liu, F. Wang, Y. Wang, P. Gibbons, and W. Buhro, Lamellar assembly of cadmium selenide nanoclusters into quantum belts, J. Am. Chem. Soc, vol.133, pp.17005-17018, 2011.

S. Ithurria and B. Dubertret, Quasi 2D colloidal CdSe platelets with thicknesses controlled at the atomic level, J. Am. Chem. Soc, vol.130, pp.16504-16509, 2008.

V. Amin, Dependence of the band gap of CdSe quantum dots on the surface coverage and binding mode of an exciton-delocalizing ligand, methylthiophenolate, J. Phys. Chem. C, vol.119, pp.19423-19432, 2015.

M. Teunis, D. S. Sardar, and R. , Effects of surfacepassivating ligands and ultrasmall CdSe nanocrystal size on the delocalization of exciton confinement Langmuir, vol.30, pp.7851-7859, 2014.

M. Bowers, J. Mcbride, and S. Rosenthal, White-light emission from magic-sized cadmium selenide nanocrystals, MMWR Morb Mortal Wkly Rep, vol.127, issue.21, pp.250-252, 1981.

A. El-wahab, E. W. , and R. P. Smyth, Specific recognition of the HIV-1 genomic RNA by the Gag precursor, Nat Commun, vol.5, p.4304, 2014.

S. R. Adams and R. E. Campbell, New biarsenical ligands and tetracysteine motifs for protein labeling in vitro and in vivo: synthesis and biological applications, J Am Chem Soc, vol.124, issue.21, pp.6063-6076, 2002.

R. Aduri and K. T. Briggs, Molecular determinants of HIV-1 NCp7 chaperone activity in maturation of the HIV-1 dimerization initiation site, Nucleic Acids Res, vol.41, issue.4, pp.2565-2580, 2013.

C. Aiken, Pseudotyping human immunodeficiency virus type 1 (HIV-1) by the glycoprotein of vesicular stomatitis virus targets HIV-1 entry to an endocytic pathway and suppresses both the requirement for Nef and the sensitivity to cyclosporin A, J Virol, vol.71, issue.8, pp.5871-5877, 1997.

C. E. Aitken and R. A. Marshall, An oxygen scavenging system for improvement of dye stability in single-molecule fluorescence experiments, Biophys J, vol.94, issue.5, pp.1826-1835, 2008.

A. Albanese and D. Arosio, HIV-1 pre-integration complexes selectively target decondensed chromatin in the nuclear periphery, PLoS One, vol.3, issue.6, p.2413, 2008.

A. Aldovini and R. A. Young, Mutations of RNA and protein sequences involved in human immunodeficiency virus type 1 packaging result in production of noninfectious virus, J Virol, vol.64, issue.5, pp.1920-1926, 1990.

A. Alfadhli and T. C. Dhenub, Analysis of human immunodeficiency virus type 1 Gag dimerization-induced assembly, J Virol, vol.79, issue.23, pp.14498-14506, 2005.

O. Alvizo and S. Mittal, Structural, kinetic, and thermodynamic studies of specificity designed HIV-1 protease, Protein Sci, vol.21, issue.7, pp.1029-1041, 2012.

G. K. Amarasinghe and R. N. De-guzman, NMR structure of the HIV-1 nucleocapsid protein bound to stem-loop SL2 of the psi-RNA packaging signal. Implications for genome recognition, J Mol Biol, vol.301, issue.2, pp.491-511, 2000.

J. L. Anderson and T. J. Hope, Intracellular trafficking of retroviral vectors: obstacles and advances, Gene Ther, vol.12, issue.23, pp.1667-1678, 2005.

R. Ando and H. Mizuno, Regulated fast nucleocytoplasmic shuttling observed by reversible protein highlighting, Science, vol.306, issue.5700, pp.1370-1373, 2004.

H. Anton and N. Taha, Investigating the cellular distribution and interactions of HIV-1 nucleocapsid protein by quantitative fluorescence microscopy, PLoS One, vol.10, issue.2, p.116921, 2015.
URL : https://hal.archives-ouvertes.fr/inserm-02154965

Z. Ao and K. D. Jayappa, Contribution of host nucleoporin 62 in HIV-1 integrase chromatin association and viral DNA integration, J Biol Chem, vol.287, issue.13, pp.10544-10555, 2012.

S. Apostolski and T. Mcalarney, The gp120 glycoprotein of human immunodeficiency virus type 1 binds to sensory ganglion neurons, Ann Neurol, vol.34, issue.6, pp.855-863, 1993.

V. Arfi and J. Lienard, Characterization of the behavior of functional viral genomes during the early steps of human immunodeficiency virus type 1 infection, J Virol, vol.83, issue.15, pp.7524-7535, 2009.
URL : https://hal.archives-ouvertes.fr/hal-02322883

N. Arhel, Revisiting HIV-1 uncoating, Retrovirology, vol.7, p.96, 2010.
URL : https://hal.archives-ouvertes.fr/hal-02142365

N. Arhel and A. Genovesio, Quantitative four-dimensional tracking of cytoplasmic and nuclear HIV-1 complexes, Nat Methods, vol.3, issue.10, pp.817-824, 2006.
URL : https://hal.archives-ouvertes.fr/pasteur-00163778

N. Arhel and S. Munier, Nuclear import defect of human immunodeficiency virus type 1 DNA flap mutants is not dependent on the viral strain or target cell type, J Virol, vol.80, issue.20, pp.10262-10269, 2006.
URL : https://hal.archives-ouvertes.fr/hal-02142352

N. J. Arhel and S. Souquere-besse, Wild-type and central DNA flap defective HIV-1 lentiviral vector genomes: intracellular visualization at ultrastructural resolution levels, Retrovirology, vol.3, p.38, 2006.
URL : https://hal.archives-ouvertes.fr/hal-02142329

N. J. Arhel and S. Souquere-besse, HIV-1 DNA Flap formation promotes uncoating of the preintegration complex at the nuclear pore, EMBO J, vol.26, issue.12, pp.3025-3037, 2007.
URL : https://hal.archives-ouvertes.fr/hal-00167661

S. V. Avilov and C. Boudier, Characterization of the inhibition mechanism of HIV-1 nucleocapsid protein chaperone activities by methylated oligoribonucleotides, Antimicrob Agents Chemother, vol.56, issue.2, pp.1010-1018, 2012.
URL : https://hal.archives-ouvertes.fr/hal-00667403

D. Axelrod, Total internal reflection fluorescence microscopy in cell biology, Methods Enzymol, vol.361, pp.1-33, 2003.

E. Bacharach and J. Gonsky, The carboxy-terminal fragment of nucleolin interacts with the nucleocapsid domain of retroviral gag proteins and inhibits virion assembly, J Virol, vol.74, issue.23, pp.11027-11039, 2000.

J. W. Balliet and D. L. Kolson, Distinct effects in primary macrophages and lymphocytes of the human immunodeficiency virus type 1 accessory genes vpr, vpu, and nef: mutational analysis of a primary HIV-1 isolate, Virology, vol.200, issue.2, pp.623-631, 1994.

P. Barraud and J. C. Paillart, Advances in the structural understanding of Vif proteins, Curr HIV Res, vol.6, issue.2, pp.91-99, 2008.
URL : https://hal.archives-ouvertes.fr/hal-00381991

F. Barre-sinoussi and J. C. Chermann, Isolation of a T-lymphotropic retrovirus from a patient at risk for acquired immune deficiency syndrome (AIDS), Science, vol.220, issue.4599, pp.868-871, 1983.

J. Bartelmess and E. De-luca, Boron dipyrromethene (BODIPY) functionalized carbon nanoonions for high resolution cellular imaging, Nanoscale, vol.6, issue.22, pp.13761-13769, 2014.

A. Bartesaghi and A. Merk, Prefusion structure of trimeric HIV-1 envelope glycoprotein determined by cryo-electron microscopy, Nat Struct Mol Biol, vol.20, issue.12, pp.1352-1357, 2013.

S. Barth, The SNAP-tag technology -a versatile tool with many applications, Curr Pharm Des, vol.19, issue.30, pp.5404-5405, 2013.

S. R. Bartz and M. E. Rogel, Human immunodeficiency virus type 1 cell cycle control: Vpr is cytostatic and mediates G2 accumulation by a mechanism which differs from DNA damage checkpoint control, J Virol, vol.70, issue.4, pp.2324-2331, 1996.

G. Basanez and J. Zimmerberg, HIV and apoptosis death and the mitochondrion, J Exp Med, vol.193, issue.4, pp.11-14, 2001.

J. Batisse and S. Guerrero, The role of Vif oligomerization and RNA chaperone activity in HIV-1 replication, Virus Res, vol.169, issue.2, pp.361-376, 2012.
URL : https://hal.archives-ouvertes.fr/hal-00839154

W. Baumeister and R. Grimm, Electron tomography of molecules and cells, Trends Cell Biol, vol.9, issue.2, pp.81-85, 1999.

J. Benjamin and B. K. Ganser-pornillos, Three-dimensional structure of HIV-1 virus-like particles by electron cryotomography, J Mol Biol, vol.346, issue.2, pp.577-588, 2005.

J. M. Berg and Y. Shi, The galvanization of biology: a growing appreciation for the roles of zinc, Science, vol.271, issue.5252, pp.1081-1085, 1996.

J. A. Berglund and B. Charpentier, A high affinity binding site for the HIV-1 nucleocapsid protein, Nucleic Acids Res, vol.25, issue.5, pp.1042-1049, 1997.
URL : https://hal.archives-ouvertes.fr/hal-01662727

B. Berkhout, Structure and function of the human immunodeficiency virus leader RNA, Progress in nucleic acid research and molecular biology, vol.54, pp.1-34, 1996.

R. Berkowitz and J. Fisher, RNA packaging, Curr Top Microbiol Immunol, vol.214, pp.177-218, 1996.

E. Betzig and G. H. Patterson, Imaging intracellular fluorescent proteins at nanometer resolution, Science, vol.313, issue.5793, pp.1642-1645, 2006.

T. A. Bharat and L. R. Castillo-menendez, Cryo-electron microscopy of tubular arrays of HIV-1 Gag resolves structures essential for immature virus assembly, Proc Natl Acad Sci U S A, vol.111, issue.22, pp.8233-8238, 2014.

T. A. Bharat and N. E. Davey, Structure of the immature retroviral capsid at 8 A resolution by cryo-electron microscopy, Nature, vol.487, issue.7407, pp.385-389, 2012.

A. Bhattacharya and S. L. Alam, Structural basis of HIV-1 capsid recognition by PF74 and CPSF6, Proc Natl Acad Sci U S A, vol.111, issue.52, pp.18625-18630, 2014.

K. Bichel and A. J. Price, HIV-1 capsid undergoes coupled binding and isomerization by the nuclear pore protein NUP358, Retrovirology, vol.10, p.81, 2013.

E. Bieth and C. Gabus, A study of the dimer formation of Rous sarcoma virus RNA and of its effect on viral protein synthesis in vitro, Nucleic Acids Res, vol.18, issue.1, pp.119-127, 1990.

A. Bitler and N. Lev, Kinetics of interaction of HIV fusion protein (gp41) with lipid membranes studied by real-time AFM imaging, Ultramicroscopy, vol.110, issue.6, pp.694-700, 2010.

M. Bleck and M. S. Itano, Temporal and spatial organization of ESCRT protein recruitment during HIV-1 budding, Proc Natl Acad Sci U S A, vol.111, issue.33, pp.12211-12216, 2014.

S. Bourbigot and N. Ramalanjaona, How the HIV-1 nucleocapsid protein binds and destabilises the (-)primer binding site during reverse transcription, J Mol Biol, vol.383, issue.5, pp.1112-1128, 2008.
URL : https://hal.archives-ouvertes.fr/hal-00339367

M. Bouyac-bertoia and J. D. Dvorin, HIV-1 infection requires a functional integrase NLS, Mol Cell, vol.7, issue.5, pp.1025-1035, 2001.

D. Braaten and E. K. Franke, Cyclophilin A is required for an early step in the life cycle of human immunodeficiency virus type 1 before the initiation of reverse transcription, J Virol, vol.70, issue.6, pp.3551-3560, 1996.

A. L. Brass and D. M. Dykxhoorn, Identification of host proteins required for HIV infection through a functional genomic screen, Science, vol.319, issue.5865, pp.921-926, 2008.

J. A. Briggs and K. Grunewald, The mechanism of HIV-1 core assembly: insights from threedimensional reconstructions of authentic virions, Structure, vol.14, issue.1, pp.15-20, 2006.

J. A. Briggs and H. G. Krausslich, The molecular architecture of HIV, J Mol Biol, vol.410, issue.4, pp.491-500, 2011.

J. A. Briggs and J. D. Riches, Structure and assembly of immature HIV, Proc Natl Acad Sci U S A, vol.106, issue.27, pp.11090-11095, 2009.

J. A. Briggs and M. N. Simon, The stoichiometry of Gag protein in HIV-1, Nat Struct Mol Biol, vol.11, issue.7, pp.672-675, 2004.

I. Brook, Approval of zidovudine (AZT) for acquired immunodeficiency syndrome. A challenge to the medical and pharmaceutical communities, JAMA, vol.258, issue.11, p.1517, 1987.

J. S. Buckman and W. J. Bosche, Human immunodeficiency virus type 1 nucleocapsid zn(2+) fingers are required for efficient reverse transcription, initial integration processes, and protection of newly synthesized viral DNA, J Virol, vol.77, issue.2, pp.1469-1480, 2003.

A. Bukrinskaya and B. Brichacek, Establishment of a functional human immunodeficiency virus type 1 (HIV-1) reverse transcription complex involves the cytoskeleton, J Exp Med, vol.188, issue.11, pp.2113-2125, 1998.

A. G. Bukrinskaya and G. K. Vorkunova, HIV-1 matrix protein p17 resides in cell nuclei in association with genomic RNA, AIDS Res Hum Retroviruses, vol.8, issue.10, pp.1795-1801, 1992.

M. I. Bukrinsky and S. Haggerty, A nuclear localization signal within HIV-1 matrix protein that governs infection of non-dividing cells, Nature, vol.365, issue.6447, pp.666-669, 1993.

M. I. Bukrinsky and N. Sharova, Active nuclear import of human immunodeficiency virus type 1 preintegration complexes, Proc Natl Acad Sci, vol.89, issue.14, pp.6580-6584, 1992.

G. F. Burton and B. F. Keele, Follicular dendritic cell contributions to HIV pathogenesis, Semin Immunol, vol.14, issue.4, pp.275-284, 2002.

M. Caffrey and M. Cai, Three-dimensional solution structure of the 44 kDa ectodomain of SIV gp41, EMBO J, vol.17, issue.16, pp.4572-4584, 1998.

B. J. Calnan and S. Biancalana, Analysis of arginine-rich peptides from the HIV Tat protein reveals unusual features of RNA-protein recognition, Genes Dev, vol.5, issue.2, pp.201-210, 1991.

E. M. Campbell and T. J. Hope, HIV-1 capsid: the multifaceted key player in HIV-1 infection, Nat Rev Microbiol, vol.13, issue.8, pp.471-483, 2015.

E. M. Campbell and O. Perez, Labeling HIV-1 virions with two fluorescent proteins allows identification of virions that have productively entered the target cell, Virology, vol.360, issue.2, pp.286-293, 2007.

H. Cao and B. Chen, CrAsH: a biarsenical multi-use affinity probe with low non-specific fluorescence, Chem Commun (Camb), issue.24, pp.2601-2603, 2006.

L. A. Carlson and J. A. Briggs, Three-dimensional analysis of budding sites and released virus suggests a revised model for HIV-1 morphogenesis, Cell Host Microbe, vol.4, issue.6, pp.592-599, 2008.

L. A. Carlson and A. Marco, Cryo electron tomography of native HIV-1 budding sites, PLoS Pathog, vol.6, issue.11, p.1001173, 2010.

J. G. Carlton and J. Martin-serrano, The ESCRT machinery: new functions in viral and cellular biology, Biochem Soc Trans, vol.37, pp.195-199, 2009.

F. A. Carneiro and M. L. Bianconi, Membrane recognition by vesicular stomatitis virus involves enthalpy-driven protein-lipid interactions, J Virol, vol.76, issue.8, pp.3756-3764, 2002.

S. Carteau and S. C. Batson, Human immunodeficiency virus type 1 nucleocapsid protein specifically stimulates Mg2+-dependent DNA integration in vitro, J Virol, vol.71, issue.8, pp.6225-6229, 1997.

C. Chamontin and P. Rassam, HIV-1 nucleocapsid and ESCRT-component Tsg101 interplay prevents HIV from turning into a DNA-containing virus, Nucleic Acids Res, vol.43, issue.1, pp.336-347, 2015.
URL : https://hal.archives-ouvertes.fr/hal-01923835

P. Charneau and M. Alizon, A second origin of DNA plus-strand synthesis is required for optimal human immunodeficiency virus replication, J Virol, vol.66, issue.5, pp.2814-2820, 1992.

J. Chassagne and P. Verrelle, A monoclonal antibody against LAV gag precursor: use for viral protein analysis and antigenic expression in infected cells, J Immunol, vol.136, issue.4, pp.1442-1445, 1986.

L. Chatel-chaix and L. Abrahamyan, The host protein Staufen1 participates in human immunodeficiency virus type 1 assembly in live cells by influencing pr55Gag multimerization, J Virol, vol.81, issue.12, pp.6216-6230, 2007.

L. Chatel-chaix and K. Boulay, The host protein Staufen1 interacts with the Pr55Gag zinc fingers and regulates HIV-1 assembly via its N-terminus, Retrovirology, vol.5, p.41, 2008.

L. Chatel-chaix and J. F. Clement, Identification of Staufen in the human immunodeficiency virus type 1 Gag ribonucleoprotein complex and a role in generating infectious viral particles, Mol Cell Biol, vol.24, issue.7, pp.2637-2648, 2004.

M. A. Checkley and B. G. Luttge, HIV-1 envelope glycoprotein biosynthesis, trafficking, and incorporation, J Mol Biol, vol.410, issue.4, pp.582-608, 2011.

P. Y. Chen and D. Pearce, Membrane water and solute permeability determined quantitatively by self-quenching of an entrapped fluorophore, Biochemistry, vol.27, issue.15, pp.5713-5718, 1988.

R. F. Chen and J. R. Knutson, Mechanism of fluorescence concentration quenching of carboxyfluorescein in liposomes: energy transfer to nonfluorescent dimers, Anal Biochem, vol.172, issue.1, pp.61-77, 1988.

E. Chertova and O. Chertov, Proteomic and biochemical analysis of purified human immunodeficiency virus type 1 produced from infected monocyte-derived macrophages, J Virol, vol.80, issue.18, pp.9039-9052, 2006.

C. R. Chin and J. M. Perreira, Direct Visualization of HIV-1 Replication Intermediates Shows that Capsid and CPSF6 Modulate HIV-1 Intra-nuclear Invasion and Integration, Cell Rep, vol.13, issue.8, pp.1717-1731, 2015.

J. Chojnacki and T. Staudt, Maturation-dependent HIV-1 surface protein redistribution revealed by fluorescence nanoscopy, Science, vol.338, issue.6106, pp.524-528, 2012.

I. L. Chrystie and J. D. Almeida, The morphology of human immunodeficiency virus (HIV) by negative staining, J Med Virol, vol.25, issue.3, pp.281-288, 1988.

D. M. Chudakov and S. Lukyanov, Using photoactivatable fluorescent protein Dendra2 to track protein movement, Biotechniques, vol.42, issue.5, p.555, 2007.

D. M. Chudakov and V. V. Verkhusha, Photoswitchable cyan fluorescent protein for protein tracking, Nat Biotechnol, vol.22, issue.11, pp.1435-1439, 2004.

J. Chung and A. Mujeeb, A small molecule, Lys-Ala-7-amido-4-methylcoumarin, facilitates RNA dimer maturation of a stem-loop 1 transcript in vitro: structure-activity relationship of the activator, Biochemistry, vol.47, issue.31, pp.8148-8156, 2008.

J. Chung and N. B. Ulyanov, Binding characteristics of small molecules that mimic nucleocapsid protein-induced maturation of stem-loop 1 of HIV-1 RNA, Biochemistry, vol.49, issue.30, pp.6341-6351, 2010.

A. Cimarelli and J. L. Darlix, Assembling the human immunodeficiency virus type 1, Cell Mol Life Sci, vol.59, issue.7, pp.1166-1184, 2002.
URL : https://hal.archives-ouvertes.fr/hal-02323054

A. Ciuffi and F. D. Bushman, Retroviral DNA integration: HIV and the role of LEDGF/p75, Trends Genet, vol.22, issue.7, pp.388-395, 2006.

A. W. Cochrane and M. T. Mcnally, The retrovirus RNA trafficking granule: from birth to maturity, Retrovirology, vol.3, p.18, 2006.

J. M. Coffin and S. H. Hughes, The Interactions of Retroviruses and their Hosts, 1997.

J. Courtial and K. O&apos;holleran, Experiments with twisted light, The European Physical Journal Special Topics, vol.145, issue.1, pp.35-47, 2007.

C. Cremer and T. Cremer, Considerations on a laser-scanning-microscope with high resolution and depth of field, Microsc Acta, vol.81, issue.1, pp.31-44, 1978.

J. M. Cronshaw and A. N. Krutchinsky, Proteomic analysis of the mammalian nuclear pore complex, J Cell Biol, vol.158, issue.5, pp.915-927, 2002.

B. Dale and G. P. Mcnerney, Visualizing cell-to-cell transfer of HIV using fluorescent clones of HIV and live confocal microscopy, J Vis Exp, vol.44, 2010.

J. L. Darlix and G. Cristofari, Nucleocapsid protein of human immunodeficiency virus as a model protein with chaperoning functions and as a target for antiviral drugs, Adv Pharmacol, vol.48, pp.345-372, 2000.

J. L. Darlix and J. Godet, Flexible nature and specific functions of the HIV-1 nucleocapsid protein, J Mol Biol, vol.410, issue.4, pp.565-581, 2011.
URL : https://hal.archives-ouvertes.fr/hal-00666974

S. A. Datta and L. G. Temeselew, On the role of the SP1 domain in HIV-1 particle assembly: a molecular switch?, J Virol, vol.85, issue.9, pp.4111-4121, 2011.

R. N. De-guzman and Z. R. Wu, Structure of the HIV-1 nucleocapsid protein bound to the SL3 psi-RNA recognition element, Science, vol.279, issue.5349, pp.384-388, 1998.

C. M. De-noronha and M. P. Sherman, Dynamic disruptions in nuclear envelope architecture and integrity induced by HIV-1 Vpr, Science, vol.294, issue.5544, pp.1105-1108, 2001.

H. De-rocquigny and S. E. El-meshri, Role of the nucleocapsid region in HIV-1 Gag assembly as investigated by quantitative fluorescence-based microscopy, Virus Res, vol.193, pp.78-88, 2014.
URL : https://hal.archives-ouvertes.fr/inserm-02154966

H. De-rocquigny and V. Shvadchak, Targeting the viral nucleocapsid protein in anti-HIV-1 therapy, Mini Rev Med Chem, vol.8, issue.1, pp.24-35, 2008.
URL : https://hal.archives-ouvertes.fr/hal-00246512

S. Debaisieux and F. Rayne, The ins and outs of HIV-1 Tat, Traffic, vol.13, issue.3, pp.355-363, 2012.
URL : https://hal.archives-ouvertes.fr/hal-00675738

T. J. Deerinck and M. E. Martone, Fluorescence photooxidation with eosin: a method for high resolution immunolocalization and in situ hybridization detection for light and electron microscopy, J Cell Biol, vol.126, issue.4, pp.901-910, 1994.

G. T. Dempsey and J. C. Vaughan, Evaluation of fluorophores for optimal performance in localization-based super-resolution imaging, Nat Methods, vol.8, issue.12, pp.1027-1036, 2011.

C. Depienne and P. Roques, Cellular distribution and karyophilic properties of matrix, integrase, and Vpr proteins from the human and simian immunodeficiency viruses, Exp Cell Res, vol.260, issue.2, pp.387-395, 2000.

D. Nunzio, F. , and A. Danckaert, Human nucleoporins promote HIV-1 docking at the nuclear pore, nuclear import and integration, PLoS One, vol.7, issue.9, p.46037, 2012.
URL : https://hal.archives-ouvertes.fr/pasteur-01536163

D. Nunzio, F. , and T. Fricke, Nup153 and Nup98 bind the HIV-1 core and contribute to the early steps of HIV-1 replication, Virology, vol.440, issue.1, pp.8-18, 2013.
URL : https://hal.archives-ouvertes.fr/pasteur-01536160

D. J. Dismuke and C. Aiken, Evidence for a functional link between uncoating of the human immunodeficiency virus type 1 core and nuclear import of the viral preintegration complex, J Virol, vol.80, issue.8, pp.3712-3720, 2006.

T. Do and G. Murphy, Three-dimensional imaging of HIV-1 virological synapses reveals membrane architectures involved in virus transmission, J Virol, vol.88, issue.18, pp.10327-10339, 2014.

C. W. Dobard and M. S. Briones, Molecular mechanisms by which human immunodeficiency virus type 1 integrase stimulates the early steps of reverse transcription, J Virol, vol.81, issue.18, pp.10037-10046, 2007.

T. Dorfman and J. Luban, Mapping of functionally important residues of a cysteine-histidine box in the human immunodeficiency virus type 1 nucleocapsid protein, J Virol, vol.67, issue.10, pp.6159-6169, 1993.

J. Dubochet and M. Adrian, Cryo-electron microscopy of vitrified specimens, Q Rev Biophys, vol.21, issue.2, pp.129-228, 1988.

M. Dundr and G. H. Leno, The roles of nucleolar structure and function in the subcellular location of the HIV-1 Rev protein, J Cell Sci, vol.108, pp.2811-2823, 1995.

V. Dussupt and M. P. Javid, The nucleocapsid region of HIV-1 Gag cooperates with the PTAP and LYPXnL late domains to recruit the cellular machinery necessary for viral budding, PLoS Pathog, vol.5, issue.3, p.1000339, 2009.

V. Dussupt and P. Sette, Basic residues in the nucleocapsid domain of Gag are critical for late events of HIV-1 budding, J Virol, vol.85, issue.5, pp.2304-2315, 2011.

M. Dutta and J. Liu, Visualization of retroviral envelope spikes in complex with the V3 loop antibody 447-52D on intact viruses by cryo-electron tomography, J Virol, vol.88, issue.21, pp.12265-12275, 2014.

M. Eckhardt and M. Anders, A SNAP-tagged derivative of HIV-1--a versatile tool to study virus-cell interactions, PLoS One, vol.6, issue.7, p.22007, 2011.

A. Egner and C. Geisler, Fluorescence nanoscopy in whole cells by asynchronous localization of photoswitching emitters, Biophys J, vol.93, issue.9, pp.3285-3290, 2007.

S. E. El-meshri and D. Dujardin, Role of the nucleocapsid domain in HIV-1 Gag oligomerization and trafficking to the plasma membrane: a fluorescence lifetime imaging microscopy investigation, J Mol Biol, vol.427, pp.1480-1494, 2015.
URL : https://hal.archives-ouvertes.fr/inserm-02154959

J. Ellenberg and E. D. Siggia, Nuclear membrane dynamics and reassembly in living cells: targeting of an inner nuclear membrane protein in interphase and mitosis, J Cell Biol, vol.138, issue.6, pp.1193-1206, 1997.

T. Endress and M. Lampe, HIV-1-cellular interactions analyzed by single virus tracing, Eur Biophys J, vol.37, issue.8, pp.1291-1301, 2008.

A. Engelman and K. Mizuuchi, HIV-1 DNA integration: mechanism of viral DNA cleavage and DNA strand transfer, Cell, vol.67, issue.6, pp.1211-1221, 1991.

S. W. Englander and D. B. Calhoun, Biochemistry without oxygen, Anal Biochem, vol.161, issue.2, pp.300-306, 1987.

S. Erickson-viitanen and J. Manfredi, Cleavage of HIV-1 gag polyprotein synthesized in vitro: sequential cleavage by the viral protease, AIDS Res Hum Retroviruses, vol.5, issue.6, pp.577-591, 1989.

B. Fahrenkrog and U. Aebi, The nuclear pore complex: nucleocytoplasmic transport and beyond, Nat Rev Mol Cell Biol, vol.4, issue.10, pp.757-766, 2003.

C. Faivre-moskalenko and J. Bernaud, RNA control of HIV-1 particle size polydispersity, PLoS One, vol.9, issue.1, p.83874, 2014.
URL : https://hal.archives-ouvertes.fr/ensl-00947571

J. N. Farahani and M. J. Schibler, Stimulated emission depletion (STED) microscopy: from theory to practice, p.1539, 2010.

G. Farjot and A. Sergeant, A new nucleoporin-like protein interacts with both HIV-1 Rev nuclear export signal and CRM-1, J Biol Chem, vol.274, issue.24, pp.17309-17317, 1999.

W. G. Farmerie and D. D. Loeb, Expression and processing of the AIDS virus reverse transcriptase in Escherichia coli, Science, vol.236, issue.4799, pp.305-308, 1987.

A. Fassati and S. P. Goff, Characterization of intracellular reverse transcription complexes of human immunodeficiency virus type 1, J Virol, vol.75, issue.8, pp.3626-3635, 2001.

Y. X. Feng and T. D. Copeland, HIV-1 nucleocapsid protein induces "maturation" of dimeric retroviral RNA in vitro, Proc Natl Acad Sci U S A, vol.93, issue.15, pp.7577-7581, 1996.

R. B. Ferns and R. S. Tedder, Characterization of monoclonal antibodies against the human immunodeficiency virus (HIV) gag products and their use in monitoring HIV isolate variation, J Gen Virol, vol.68, pp.1543-1551, 1987.

G. Filice and G. Carnevale, Human immunodeficiency virus (HIV): an ultrastructural study, Microbiologica, vol.10, issue.2, pp.209-216, 1987.

A. Finzi and A. Orthwein, Productive human immunodeficiency virus type 1 assembly takes place at the plasma membrane, J Virol, vol.81, issue.14, pp.7476-7490, 2007.

U. Fischer and S. Meyer, Evidence that HIV-1 Rev directly promotes the nuclear export of unspliced RNA, EMBO J, vol.13, issue.17, pp.4105-4112, 1994.

R. J. Fisher and M. J. Fivash, Complex interactions of HIV-1 nucleocapsid protein with oligonucleotides, Nucleic Acids Res, vol.34, issue.2, pp.472-484, 2006.

R. J. Fisher and A. Rein, Sequence-specific binding of human immunodeficiency virus type 1 nucleocapsid protein to short oligonucleotides, J Virol, vol.72, issue.3, pp.1902-1909, 1998.

J. Folling and M. Bossi, Fluorescence nanoscopy by ground-state depletion and singlemolecule return, Nat Methods, vol.5, issue.11, pp.943-945, 2008.

J. Fontana and K. A. Jurado, Distribution and Redistribution of HIV-1 Nucleocapsid Protein in Immature, Mature, and Integrase-Inhibited Virions: a Role for Integrase in Maturation, J Virol, vol.89, pp.9765-9780, 2015.

B. M. Forshey and U. Schwedler, Formation of a human immunodeficiency virus type 1 core of optimal stability is crucial for viral replication, J Virol, vol.76, issue.11, pp.5667-5677, 2002.

R. A. Fouchier and B. E. Meyer, Interaction of the human immunodeficiency virus type 1 Vpr protein with the nuclear pore complex, J Virol, vol.72, issue.7, pp.6004-6013, 1998.

A. C. Francis and C. D. Primio, Second generation imaging of nuclear/cytoplasmic HIV-1 complexes, AIDS Res Hum Retroviruses, vol.30, issue.7, pp.717-726, 2014.

A. D. Frankel and J. A. Young, HIV-1: fifteen proteins and an RNA, Somat Cell Mol Genet, vol.67, issue.1-6, pp.13-33, 1998.

E. O. Freed, HIV-1 assembly, release and maturation, Nat Rev Microbiol, vol.13, issue.8, pp.484-496, 2015.

E. O. Freed and G. Englund, Role of the basic domain of human immunodeficiency virus type 1 matrix in macrophage infection, J Virol, vol.69, issue.6, pp.3949-3954, 1995.

W. Fu and A. Rein, Maturation of dimeric viral RNA of Moloney murine leukemia virus, J Virol, vol.67, issue.9, pp.5443-5449, 1993.

T. Fujii, Nihon Naika Gakkai Zasshi, vol.98, issue.11, pp.2762-2766, 2009.

P. A. Furman and J. A. Fyfe, Phosphorylation of 3'-azido-3'-deoxythymidine and selective interaction of the 5'-triphosphate with human immunodeficiency virus reverse transcriptase, Proc Natl Acad Sci U S A, vol.83, issue.21, pp.8333-8337, 1986.

G. Gaietta and T. J. Deerinck, Multicolor and electron microscopic imaging of connexin trafficking, Science, vol.296, issue.5567, pp.503-507, 2002.

G. M. Gaietta and T. J. Deerinck, Fluorescence photoconversion of biarsenical-labeled cells for correlated electron microscopy (EM), Cold Spring Harb Protoc, vol.2011, issue.1, p.5548, 2011.

G. M. Gaietta and B. N. Giepmans, Golgi twins in late mitosis revealed by genetically encoded tags for live cell imaging and correlated electron microscopy, Proc Natl Acad Sci U S A, vol.103, issue.47, pp.17777-17782, 2006.

S. Galiani and B. Harke, Strategies to maximize the performance of a STED microscope, Opt Express, vol.20, issue.7, pp.7362-7374, 2012.

P. Gallay and T. Hope, HIV-1 infection of nondividing cells through the recognition of integrase by the importin/karyopherin pathway, Proc Natl Acad Sci U S A, vol.94, issue.18, pp.9825-9830, 1997.

P. Gallay and S. Swingler, HIV nuclear import is governed by the phosphotyrosine-mediated binding of matrix to the core domain of integrase, Cell, vol.83, issue.4, pp.569-576, 1995.

R. C. Gallo and S. Z. Salahuddin, Frequent detection and isolation of cytopathic retroviruses (HTLV-III) from patients with AIDS and at risk for AIDS, Science, vol.224, issue.4648, pp.500-503, 1984.

T. R. Gamble and S. Yoo, Structure of the carboxyl-terminal dimerization domain of the HIV-1 capsid protein, Science, vol.278, issue.5339, pp.849-853, 1997.

B. K. Ganser and S. Li, Assembly and analysis of conical models for the HIV-1 core, Science, vol.283, issue.5398, pp.80-83, 1999.

D. Gao and J. Wu, Cyclic GMP-AMP synthase is an innate immune sensor of HIV and other retroviruses, Science, vol.341, issue.6148, pp.903-906, 2013.

K. Gao and R. J. Gorelick, Cofactors for human immunodeficiency virus type 1 cDNA integration in vitro, J Virol, vol.77, issue.2, pp.1598-1603, 2003.

D. Garg and B. E. Torbett, Advances in targeting nucleocapsid-nucleic acid interactions in HIV-1 therapy, Virus Res, vol.193, pp.135-143, 2014.

H. Gelderblom and M. Özel, Fine structure of human immunodeficiency virus (HIV), immunolocalization of structural proteins and virus-cell relation, Micron and Microscopica Acta, vol.19, issue.1, pp.41-60, 1988.

H. R. Gelderblom and E. H. Hausmann, Fine structure of human immunodeficiency virus (HIV) and immunolocalization of structural proteins, Virology, vol.156, issue.1, pp.171-176, 1987.

G. Giannone and E. Hosy, Dynamic superresolution imaging of endogenous proteins on living cells at ultra-high density, Biophys J, vol.99, issue.4, pp.1303-1310, 2010.
URL : https://hal.archives-ouvertes.fr/hal-00661871

R. K. Gitti and B. M. Lee, Structure of the amino-terminal core domain of the HIV-1 capsid protein, Science, vol.273, issue.5272, pp.231-235, 1996.

M. Gladnikoff and E. Shimoni, Retroviral assembly and budding occur through an actin-driven mechanism, Biophys J, vol.97, issue.9, pp.2419-2428, 2009.

J. Godet and C. Boudier, Comparative nucleic acid chaperone properties of the nucleocapsid protein NCp7 and Tat protein of HIV-1, Virus Res, vol.169, issue.2, pp.349-360, 2012.
URL : https://hal.archives-ouvertes.fr/hal-00783447

V. Goldschmidt and L. M. Jenkins, The nucleocapsid protein of HIV-1 as a promising therapeutic target for antiviral drugs, 2010.
URL : https://hal.archives-ouvertes.fr/hal-00508157

M. A. Goldsmith and M. T. Warmerdam, Dissociation of the CD4 downregulation and viral infectivity enhancement functions of human immunodeficiency virus type 1 Nef, J Virol, vol.69, issue.7, pp.4112-4121, 1995.

R. J. Gorelick and D. J. Chabot, The two zinc fingers in the human immunodeficiency virus type 1 nucleocapsid protein are not functionally equivalent, J Virol, vol.67, issue.7, pp.4027-4036, 1993.

R. J. Gorelick and L. E. Henderson, Point mutants of Moloney murine leukemia virus that fail to package viral RNA: evidence for specific RNA recognition by a "zinc finger-like" protein sequence, Proc Natl Acad Sci U S A, vol.85, issue.22, pp.8420-8424, 1988.

D. Gorlich and U. Kutay, Transport between the cell nucleus and the cytoplasm, Annu Rev Cell Dev Biol, vol.15, pp.607-660, 1999.

C. Grewe and A. Beck, HIV: early virus-cell interactions, J Acquir Immune Defic Syndr, vol.3, issue.10, pp.965-974, 1990.

B. A. Griffin and S. R. Adams, Specific covalent labeling of recombinant protein molecules inside live cells, Science, vol.281, issue.5374, pp.269-272, 1998.

B. A. Griffin and S. R. Adams, Specific covalent labeling of recombinant protein molecules inside live cells, Science, vol.281, issue.5374, pp.269-272, 1998.

B. Grigorov and A. Bocquin, Identification of a methylated oligoribonucleotide as a potent inhibitor of HIV-1 reverse transcription complex, Nucleic Acids Res, vol.39, issue.13, pp.5586-5596, 2011.
URL : https://hal.archives-ouvertes.fr/hal-00649824

T. Grotjohann and I. Testa, Diffraction-unlimited all-optical imaging and writing with a photochromic GFP, Nature, vol.478, issue.7368, pp.204-208, 2011.

J. Gruenberg and F. R. Maxfield, Membrane transport in the endocytic pathway, Curr Opin Cell Biol, vol.7, issue.4, pp.552-563, 1995.

C. A. Guenzel and C. Herate, HIV-1 Vpr-a still "enigmatic multitasker, Front Microbiol, vol.5, p.127, 2014.
URL : https://hal.archives-ouvertes.fr/inserm-01078252

M. S. Gunewardene and F. V. Subach, Superresolution imaging of multiple fluorescent proteins with highly overlapping emission spectra in living cells, Biophys J, vol.101, issue.6, pp.1522-1528, 2011.

W. T. Gunning and E. P. Calomeni, A brief review of transmission electron microscopy and applications in pathology, Journal of Histotechnology, 2013.

J. Gunzenhauser and N. Olivier, Quantitative super-resolution imaging reveals protein stoichiometry and nanoscale morphology of assembling HIV-Gag virions, Nano Lett, vol.12, issue.9, pp.4705-4710, 2012.

N. G. Gurskaya and V. V. Verkhusha, Engineering of a monomeric green-to-red photoactivatable fluorescent protein induced by blue light, Nat Biotechnol, vol.24, issue.4, pp.461-465, 2006.

M. G. Gustafsson, Surpassing the lateral resolution limit by a factor of two using structured illumination microscopy, J Microsc, vol.198, issue.2, pp.82-87, 2000.

M. G. Gustafsson, Nonlinear structured-illumination microscopy: wide-field fluorescence imaging with theoretically unlimited resolution, Proc Natl Acad Sci U S A, vol.102, issue.37, pp.13081-13086, 2005.

P. E. Hänninen and M. Schrader, Two-photon excitation fluorescence microscopy using a semiconductor laser, Bioimaging, vol.3, issue.2, pp.70-75, 1995.

D. Harrich and C. Ulich, A critical role for the TAR element in promoting efficient human immunodeficiency virus type 1 reverse transcription, J Virol, vol.70, issue.6, pp.4017-4027, 1996.

M. J. Heath and S. S. Derebail, Differing roles of the N-and C-terminal zinc fingers in human immunodeficiency virus nucleocapsid protein-enhanced nucleic acid annealing, J Biol Chem, vol.278, issue.33, pp.30755-30763, 2003.

B. Hein and K. I. Willig, Stimulated emission depletion (STED) nanoscopy of a fluorescent protein-labeled organelle inside a living cell, Proc Natl Acad Sci U S A, vol.105, issue.38, pp.14271-14276, 2008.

S. Hell and E. H. Stelzer, Properties of a 4Pi confocal fluorescence microscope, JOSA A, vol.9, issue.12, pp.2159-2166, 1992.

S. W. Hell, Far-field optical nanoscopy, Science, vol.316, issue.5828, pp.1153-1158, 2007.

S. W. Hell and J. Wichmann, Breaking the diffraction resolution limit by stimulated emission: stimulated-emission-depletion fluorescence microscopy, Opt Lett, vol.19, issue.11, pp.780-782, 1994.

S. Henriet and D. Richer, Cooperative and specific binding of Vif to the 5' region of HIV-1 genomic RNA, J Mol Biol, vol.354, issue.1, pp.55-72, 2005.

L. Hermida-matsumoto and M. D. Resh, Localization of human immunodeficiency virus type 1 Gag and Env at the plasma membrane by confocal imaging, J Virol, vol.74, issue.18, pp.8670-8679, 2000.

J. A. Heymann and M. Hayles, Site-specific 3D imaging of cells and tissues with a dual beam microscope, J Struct Biol, vol.155, issue.1, pp.63-73, 2006.

J. A. Heymann and D. Shi, 3D imaging of mammalian cells with ion-abrasion scanning electron microscopy, J Struct Biol, vol.166, issue.1, pp.1-7, 2009.

V. M. Hirsch and R. A. Olmsted, An African primate lentivirus (SIVsm) closely related to HIV-2, Nature, vol.339, issue.6223, pp.389-392, 1989.

M. Hofmann and C. Eggeling, Breaking the diffraction barrier in fluorescence microscopy at low light intensities by using reversibly photoswitchable proteins, Proc Natl Acad Sci U S A, vol.102, issue.49, pp.17565-17569, 2005.

S. Hoglund and L. G. Ofverstedt, Spatial visualization of the maturing HIV-1 core and its linkage to the envelope, AIDS Res Hum Retroviruses, vol.8, issue.1, pp.1-7, 1992.

W. S. Hu and S. H. Hughes, HIV-1 reverse transcription, Cold Spring Harb Perspect Med, vol.2, issue.10, 2012.

B. Huang and M. Bates, Super-resolution fluorescence microscopy, Annu Rev Biochem, vol.78, pp.993-1016, 2009.

B. Huang and S. A. Jones, Whole-cell 3D STORM reveals interactions between cellular structures with nanometer-scale resolution, Nat Methods, vol.5, issue.12, pp.1047-1052, 2008.

M. Huang and J. M. Orenstein, p6Gag is required for particle production from full-length human immunodeficiency virus type 1 molecular clones expressing protease, J Virol, vol.69, issue.11, pp.6810-6818, 1995.

W. Hubner and G. P. Mcnerney, Quantitative 3D video microscopy of HIV transfer across T cell virological synapses, Science, vol.323, issue.5922, pp.1743-1747, 2009.

T. Huet and R. Cheynier, Genetic organization of a chimpanzee lentivirus related to HIV-1, Nature, vol.345, issue.6273, pp.356-359, 1990.

A. E. Hulme and Z. Kelley, Complementary Assays Reveal a Low Level of CA Associated with Viral Complexes in the Nuclei of HIV-1-Infected Cells, J Virol, vol.89, issue.10, pp.5350-5361, 2015.

A. E. Hulme and O. Perez, Complementary assays reveal a relationship between HIV-1 uncoating and reverse transcription, Proc Natl Acad Sci U S A, vol.108, issue.24, pp.9975-9980, 2011.

I. Huvent and S. S. Hong, Interaction and co-encapsidation of human immunodeficiency virus type 1 Gag and Vif recombinant proteins, J Gen Virol, vol.79, pp.1069-1081, 1998.

T. Igakura and J. C. Stinchcombe, Spread of HTLV-I between lymphocytes by virus-induced polarization of the cytoskeleton, Science, vol.299, issue.5613, pp.1713-1716, 2003.

S. Iordanskiy and R. Berro, Intracytoplasmic maturation of the human immunodeficiency virus type 1 reverse transcription complexes determines their capacity to integrate into chromatin, Retrovirology, vol.3, p.4, 2006.

S. Ivanchenko and W. J. Godinez, Dynamics of HIV-1 assembly and release, PLoS Pathog, vol.5, issue.11, p.1000652, 2009.

T. Jacks and M. D. Power, Characterization of ribosomal frameshifting in HIV-1 gag-pol expression, Nature, vol.331, issue.6153, pp.280-283, 1988.

D. T. Jacob and J. J. Destefano, A new role for HIV nucleocapsid protein in modulating the specificity of plus strand priming, Virology, vol.378, issue.2, pp.385-396, 2008.

M. Jalalirad and M. Laughrea, Formation of immature and mature genomic RNA dimers in wildtype and protease-inactive HIV-1: differential roles of the Gag polyprotein, nucleocapsid proteins NCp15, NCp9, NCp7, and the dimerization initiation site, Virology, vol.407, issue.2, pp.225-236, 2010.

K. D. Jayappa and Z. Ao, The HIV-1 passage from cytoplasm to nucleus: the process involving a complex exchange between the components of HIV-1 and cellular machinery to access nucleus and successful integration, Int J Biochem Mol Biol, vol.3, issue.1, pp.70-85, 2012.

K. T. Jeang and F. J. Rauscher, The XVIII Symposium of the International Association for Comparative Research on Leukemia & Related Diseases (IACRLRD): leukemia and lymphoma/pathogenesis and treatment/molecular aspects, Cancer Res, vol.56, issue.18, pp.4288-4292, 1996.

L. M. Jenkins and J. C. Byrd, Studies on the mechanism of inactivation of the HIV-1 nucleocapsid protein NCp7 with 2-mercaptobenzamide thioesters, J Med Chem, vol.48, issue.8, pp.2847-2858, 2005.

T. M. Jenkins and A. Engelman, A soluble active mutant of HIV-1 integrase: involvement of both the core and carboxyl-terminal domains in multimerization, J Biol Chem, vol.271, issue.13, pp.7712-7718, 1996.

Y. Jenkins and M. Mcentee, Characterization of HIV-1 vpr nuclear import: analysis of signals and pathways, J Cell Biol, vol.143, issue.4, pp.875-885, 1998.

N. Jimenez and E. G. Van-donselaar, Gridded Aclar: preparation methods and use for correlative light and electron microscopy of cell monolayers, by TEM and FIB-SEM, J Microsc, vol.237, issue.2, pp.208-220, 2010.

H. K. Johannsdottir and R. Mancini, Host cell factors and functions involved in vesicular stomatitis virus entry, J Virol, vol.83, issue.1, pp.440-453, 2009.

C. Jolly and K. Kashefi, HIV-1 cell to cell transfer across an Env-induced, actin-dependent synapse, J Exp Med, vol.199, issue.2, pp.283-293, 2004.

N. Jouvenet and P. D. Bieniasz, Imaging the biogenesis of individual HIV-1 virions in live cells, Nature, vol.454, issue.7201, pp.236-240, 2008.

N. Jouvenet and S. M. Simon, Imaging the interaction of HIV-1 genomes and Gag during assembly of individual viral particles, Proc Natl Acad Sci U S A, vol.106, issue.45, pp.19114-19119, 2009.

N. Jouvenet and M. Zhadina, Dynamics of ESCRT protein recruitment during retroviral assembly, Nat Cell Biol, vol.13, issue.4, pp.394-401, 2011.

M. F. Juette and T. J. Gould, Three-dimensional sub-100 nm resolution fluorescence microscopy of thick samples, Nat Methods, vol.5, issue.6, pp.527-529, 2008.

R. Jungmann and M. S. Avendano, Multiplexed 3D cellular super-resolution imaging with DNA-PAINT and Exchange-PAINT, Nat Methods, vol.11, issue.3, pp.313-318, 2014.

N. Kempf and V. Postupalenko, The HIV-1 nucleocapsid protein recruits negatively charged lipids to ensure its optimal binding to lipid membranes, J Virol, vol.89, issue.3, pp.1756-1767, 2015.
URL : https://hal.archives-ouvertes.fr/hal-01111676

N. Kienzle and M. Enders, Expression of the HIV-1 Nef protein in the baculovirus system: investigation of anti-Nef antibodies response in human sera and subcellular localization of Nef, Arch Virol, vol.126, issue.1-4, pp.293-301, 1992.

G. H. Kim and F. P. Garcia-de-arquer, High-Efficiency Colloidal Quantum Dot Photovoltaics via Robust Self-Assembled Monolayers, Nano Lett, vol.15, issue.11, pp.7691-7696, 2015.

N. D. Kirkpatrick and E. Chung, Video-rate resonant scanning multiphoton microscopy: An emerging technique for intravital imaging of the tumor microenvironment, Intravital, vol.1, issue.1, 2012.

T. Kiuchi and M. Higuchi, Multitarget super-resolution microscopy with high-density labeling by exchangeable probes, Nat Methods, vol.12, issue.8, pp.743-746, 2015.

B. I. Klasens and M. Thiesen, The ability of the HIV-1 AAUAAA signal to bind polyadenylation factors is controlled by local RNA structure, Nucleic Acids Res, vol.27, issue.2, pp.446-454, 1999.

L. Kleiman, tRNA(Lys3): the primer tRNA for reverse transcription in HIV-1, IUBMB Life, vol.53, issue.2, pp.107-114, 2002.

L. Kleiman and S. Cen, The tRNALys packaging complex in HIV-1, Int J Biochem Cell Biol, vol.36, issue.9, pp.1776-1786, 2004.

J. Kohl and J. Ng, Ultrafast tissue staining with chemical tags, Proc Natl Acad Sci U S A, vol.111, issue.36, pp.3805-3814, 2014.

N. Kol and Y. Shi, A stiffness switch in human immunodeficiency virus, Biophys J, vol.92, issue.5, pp.1777-1783, 2007.

R. Konig and Y. Zhou, Global analysis of host-pathogen interactions that regulate early-stage HIV-1 replication, Cell, vol.135, issue.1, pp.49-60, 2008.

U. Kubitscheck, Fluorescence microscopy: from principles to biological applications, 2013.

G. Kukolj and A. M. Skalka, Enhanced and coordinated processing of synapsed viral DNA ends by retroviral integrases in vitro, Genes Dev, vol.9, issue.20, pp.2556-2567, 1995.

Y. G. Kuznetsov and J. G. Victoria, Atomic force microscopy investigation of human immunodeficiency virus (HIV) and HIV-infected lymphocytes, J Virol, vol.77, issue.22, pp.11896-11909, 2003.

X. Lahaye and T. Satoh, The capsids of HIV-1 and HIV-2 determine immune detection of the viral cDNA by the innate sensor cGAS in dendritic cells, Immunity, vol.39, issue.6, pp.1132-1142, 2013.
URL : https://hal.archives-ouvertes.fr/inserm-00959028

M. Lampe and J. A. Briggs, Double-labelled HIV-1 particles for study of virus-cell interaction, Virology, vol.360, issue.1, pp.92-104, 2007.

M. F. Langhorst and S. Genisyuerek, Accumulation of FlAsH/Lumio Green in active mitochondria can be reversed by beta-mercaptoethanol for specific staining of tetracysteinetagged proteins, Histochem Cell Biol, vol.125, issue.6, pp.743-747, 2006.

M. Lapadat-tapolsky and C. Gabus, Possible roles of HIV-1 nucleocapsid protein in the specificity of proviral DNA synthesis and in its variability, J Mol Biol, vol.268, issue.2, pp.250-260, 1997.

D. R. Larson and M. C. Johnson, Visualization of retrovirus budding with correlated light and electron microscopy, Proc Natl Acad Sci U S A, vol.102, issue.43, pp.15453-15458, 2005.

L. Blanc, I. , and P. P. Luyet, Endosome-to-cytosol transport of viral nucleocapsids, Nat Cell Biol, vol.7, issue.7, pp.653-664, 2005.
URL : https://hal.archives-ouvertes.fr/inserm-00381829

E. Le-rouzic and A. Mousnier, Docking of HIV-1 Vpr to the nuclear envelope is mediated by the interaction with the nucleoporin hCG1, J Biol Chem, vol.277, issue.47, pp.45091-45098, 2002.

L. Sage, V. , and A. J. Mouland, Viral subversion of the nuclear pore complex, Viruses, vol.5, issue.8, pp.2019-2042, 2013.

B. M. Lee and R. N. De-guzman, Dynamical behavior of the HIV-1 nucleocapsid protein, J Mol Biol, vol.279, issue.3, pp.633-649, 1998.

C. A. Lee, Moire data interpretation by digital image processing, 1988.

J. H. Lee and G. Ozorowski, Cryo-EM structure of a native, fully glycosylated, cleaved HIV-1 envelope trimer, Science, vol.351, issue.6277, pp.1043-1048, 2016.

K. Lee and Z. Ambrose, Flexible use of nuclear import pathways by HIV-1, Cell Host Microbe, vol.7, issue.3, pp.221-233, 2010.

M. Lehmann and S. Rocha, Quantitative multicolor super-resolution microscopy reveals tetherin HIV-1 interaction, PLoS Pathog, vol.7, issue.12, p.1002456, 2011.
URL : https://hal.archives-ouvertes.fr/hal-02352337

M. Lelek and N. Casartelli, Chromatin organization at the nuclear pore favours HIV replication, Nat Commun, vol.6, p.6483, 2015.
URL : https://hal.archives-ouvertes.fr/pasteur-01536149

M. Lelek and F. D. Nunzio, Superresolution imaging of HIV in infected cells with FlAsH-PALM, Proc Natl Acad Sci U S A, vol.109, issue.22, pp.8564-8569, 2012.
URL : https://hal.archives-ouvertes.fr/pasteur-01536166

C. K. Leonard and M. W. Spellman, Assignment of intrachain disulfide bonds and characterization of potential glycosylation sites of the type 1 recombinant human immunodeficiency virus envelope glycoprotein (gp120) expressed in Chinese hamster ovary cells, J Biol Chem, vol.265, issue.18, pp.10373-10382, 1990.

B. O. Leung and K. C. Chou, Review of super-resolution fluorescence microscopy for biology, Appl Spectrosc, vol.65, issue.9, pp.967-980, 2011.

A. Lever and H. Gottlinger, Identification of a sequence required for efficient packaging of human immunodeficiency virus type 1 RNA into virions, J Virol, vol.63, issue.9, pp.4085-4087, 1989.

J. G. Levin and J. Guo, Nucleic acid chaperone activity of HIV-1 nucleocapsid protein: critical role in reverse transcription and molecular mechanism, Prog Nucleic Acid Res Mol Biol, vol.80, pp.217-286, 2005.

S. Li and C. P. Hill, Image reconstructions of helical assemblies of the HIV-1 CA protein, Nature, vol.407, issue.6802, pp.409-413, 2000.

J. R. Lingappa and J. E. Dooher, Basic residues in the nucleocapsid domain of Gag are required for interaction of HIV-1 gag with ABCE1 (HP68), a cellular protein important for HIV-1 capsid assembly, J Biol Chem, vol.281, issue.7, pp.3773-3784, 2006.

B. Liu and R. Dai, Interaction of the human immunodeficiency virus type 1 nucleocapsid with actin, J Virol, vol.73, issue.4, pp.2901-2908, 1999.

M. Llano and S. Delgado, Lens epithelium-derived growth factor/p75 prevents proteasomal degradation of HIV-1 integrase, J Biol Chem, vol.279, issue.53, pp.55570-55577, 2004.

T. L. Lochmann and D. V. Bann, NC-mediated nucleolar localization of retroviral gag proteins, Virus Res, vol.171, issue.2, pp.304-318, 2013.

S. Lyonnais and R. J. Gorelick, A protein ballet around the viral genome orchestrated by HIV-1 reverse transcriptase leads to an architectural switch: from nucleocapsid-condensed RNA to Vpr-bridged DNA, Virus Res, vol.171, issue.2, pp.287-303, 2013.
URL : https://hal.archives-ouvertes.fr/hal-02122408

Y. Ma and Z. He, Real-Time Imaging of Single HIV-1 Disassembly with Multicolor Viral Particles, ACS Nano, vol.10, issue.6, pp.6273-6282, 2016.

A. S. Madrid and K. Weis, Nuclear transport is becoming crystal clear, Chromosoma, vol.115, issue.2, pp.98-109, 2006.

J. Mak and L. Kleiman, Primer tRNAs for reverse transcription, J Virol, vol.71, issue.11, pp.8087-8095, 1997.

F. Maldarelli and M. Y. Chen, Human immunodeficiency virus type 1 Vpu protein is an oligomeric type I integral membrane protein, J Virol, vol.67, issue.8, pp.5056-5061, 1993.

S. Malkusch and W. Muranyi, Single-molecule coordinate-based analysis of the morphology of HIV-1 assembly sites with near-molecular spatial resolution, Histochem Cell Biol, vol.139, issue.1, pp.173-179, 2013.

S. Manley and J. M. Gillette, High-density mapping of single-molecule trajectories with photoactivated localization microscopy, Nat Methods, vol.5, issue.2, pp.155-157, 2008.

A. R. Maranto, Neuronal mapping: a photooxidation reaction makes Lucifer yellow useful for electron microscopy, Science, vol.217, issue.4563, pp.953-955, 1982.

J. B. Margolick and A. Munoz, Failure of T-cell homeostasis preceding AIDS in HIV-1 infection. The Multicenter AIDS Cohort Study, Nat Med, vol.1, issue.7, pp.674-680, 1995.

R. Mariani and D. Chen, Species-specific exclusion of APOBEC3G from HIV-1 virions by Vif, Cell, vol.114, issue.1, pp.21-31, 2003.

M. A. Massiah and M. R. Starich, Three-dimensional structure of the human immunodeficiency virus type 1 matrix protein, J Mol Biol, vol.244, issue.2, pp.198-223, 1994.

K. S. Matlin and H. Reggio, Pathway of vesicular stomatitis virus entry leading to infection, J Mol Biol, vol.156, issue.3, pp.609-631, 1982.

K. A. Matreyek and A. Engelman, The requirement for nucleoporin NUP153 during human immunodeficiency virus type 1 infection is determined by the viral capsid, J Virol, vol.85, issue.15, pp.7818-7827, 2011.

K. A. Matreyek and S. S. Yucel, Nucleoporin NUP153 phenylalanine-glycine motifs engage a common binding pocket within the HIV-1 capsid protein to mediate lentiviral infectivity, PLoS Pathog, vol.9, issue.10, p.1003693, 2013.

I. W. Mattaj and L. Englmeier, Nucleocytoplasmic transport: the soluble phase, Annu Rev Biochem, vol.67, pp.265-306, 1998.

S. Mattei and A. Flemming, RNA and Nucleocapsid Are Dispensable for Mature HIV-1 Capsid Assembly, J Virol, vol.89, pp.9739-9747, 2015.

S. Matthews and M. Mikhailov, The solution structure of the bovine leukaemia virus matrix protein and similarity with lentiviral matrix proteins, EMBO J, vol.15, issue.13, pp.3267-3274, 1996.

K. Mayo and D. Huseby, Retrovirus capsid protein assembly arrangements, J Mol Biol, vol.325, issue.1, pp.225-237, 2003.

D. Mcdonald and M. A. Vodicka, Visualization of the intracellular behavior of HIV in living cells, J Cell Biol, vol.159, issue.3, pp.441-452, 2002.

D. Mcdonald and L. Wu, Recruitment of HIV and its receptors to dendritic cell-T cell junctions, Science, vol.300, pp.1295-1297, 2003.

S. A. Mckinney and C. S. Murphy, A bright and photostable photoconvertible fluorescent protein, Nat Methods, vol.6, issue.2, pp.131-133, 2009.

H. E. Mekdad and E. Boutant, Characterization of the interaction between the HIV-1 Gag structural polyprotein and the cellular ribosomal protein L7 and its implication in viral nucleic acid remodeling, Retrovirology, vol.13, issue.1, p.54, 2016.
URL : https://hal.archives-ouvertes.fr/inserm-02154958

F. Melchior and T. Guan, GTP hydrolysis by Ran occurs at the nuclear pore complex in an early step of protein import, J Cell Biol, vol.131, issue.3, pp.571-581, 1995.

Y. Mely and H. De-rocquigny, Zinc binding to the HIV-1 nucleocapsid protein: a thermodynamic investigation by fluorescence spectroscopy, Biochemistry, vol.35, issue.16, pp.5175-5182, 1996.

Y. Mely and H. De-rocquigny, Binding of the HIV-1 nucleocapsid protein to the primer tRNA(3Lys), in vitro, is essentially not specific, J Biol Chem, vol.270, issue.4, pp.1650-1656, 1995.

Y. Mely and N. Jullian, Spatial proximity of the HIV-1 nucleocapsid protein zinc fingers investigated by time-resolved fluorescence and fluorescence resonance energy transfer, Biochemistry, vol.33, issue.40, pp.12085-12091, 1994.

X. Meng and G. Zhao, Structure of HIV-1 capsid assemblies by cryo-electron microscopy and iterative helical real-space reconstruction, J Vis Exp, vol.54, 2011.

B. E. Meyer and M. H. Malim, The HIV-1 Rev trans-activator shuttles between the nucleus and the cytoplasm, Genes Dev, vol.8, issue.13, pp.1538-1547, 1994.

J. R. Meyerson and T. A. White, Determination of molecular structures of HIV envelope glycoproteins using cryo-electron tomography and automated sub-tomogram averaging, J Vis Exp, vol.58, 2011.

X. Michalet and F. F. Pinaud, Quantum dots for live cells, in vivo imaging, and diagnostics, Science, vol.307, issue.5709, pp.538-544, 2005.

N. Michel and I. Allespach, The Nef protein of human immunodeficiency virus establishes superinfection immunity by a dual strategy to downregulate cell-surface CCR5 and CD4, Curr Biol, vol.15, issue.8, pp.714-723, 2005.

M. Miller and J. Schneider, Structure of complex of synthetic HIV-1 protease with a substratebased inhibitor at 2.3 A resolution, Science, vol.246, issue.4934, pp.1149-1152, 1989.

M. D. Miller and C. M. Farnet, Human immunodeficiency virus type 1 preintegration complexes: studies of organization and composition, J Virol, vol.71, issue.7, pp.5382-5390, 1997.

G. Mirambeau and S. Lyonnais, HIV-1 protease and reverse transcriptase control the architecture of their nucleocapsid partner, PLoS One, vol.2, issue.7, p.669, 2007.

G. Mirambeau and S. Lyonnais, Transmission electron microscopy reveals an optimal HIV-1 nucleocapsid aggregation with single-stranded nucleic acids and the mature HIV-1 nucleocapsid protein, J Mol Biol, vol.364, issue.3, pp.496-511, 2006.

C. E. Mire and J. M. White, A spatio-temporal analysis of matrix protein and nucleocapsid trafficking during vesicular stomatitis virus uncoating, PLoS Pathog, vol.6, issue.7, p.1000994, 2010.

K. Miyauchi and Y. Kim, HIV enters cells via endocytosis and dynamin-dependent fusion with endosomes, Cell, vol.137, issue.3, pp.433-444, 2009.

H. Mojzisova and S. Bonneau, Photosensitizing properties of chlorins in solution and in membrane-mimicking systems, Photochem Photobiol Sci, vol.8, issue.6, pp.778-787, 2009.
URL : https://hal.archives-ouvertes.fr/hal-00394568

A. Monette and N. Pante, Examining the requirements for nucleoporins by HIV-1, Future Microbiol, vol.6, issue.11, pp.1247-1250, 2011.

A. Monette and N. Pante, HIV-1 remodels the nuclear pore complex, J Cell Biol, vol.193, issue.4, pp.619-631, 2011.

N. Morellet and H. De-rocquigny, Conformational behaviour of the active and inactive forms of the nucleocapsid NCp7 of HIV-1 studied by 1H NMR, J Mol Biol, vol.235, issue.1, pp.287-301, 1994.

M. Mori and L. Kovalenko, Nucleocapsid Protein: A Desirable Target for Future Therapies Against HIV-1, Curr Top Microbiol Immunol, vol.389, pp.53-92, 2015.
URL : https://hal.archives-ouvertes.fr/hal-01186130

M. Mori and A. Nucci, Functional and structural characterization of 2-amino-4-phenylthiazole inhibitors of the HIV-1 nucleocapsid protein with antiviral activity, ACS Chem Biol, vol.9, issue.9, pp.1950-1955, 2014.

E. Morita and V. Sandrin, Identification of human MVB12 proteins as ESCRT-I subunits that function in HIV budding, Cell Host Microbe, vol.2, issue.1, pp.41-53, 2007.

E. Morita and V. Sandrin, ESCRT-III protein requirements for HIV-1 budding, Cell Host Microbe, vol.9, issue.3, pp.235-242, 2011.

A. J. Mouland and J. Mercier, The double-stranded RNA-binding protein Staufen is incorporated in human immunodeficiency virus type 1: evidence for a role in genomic RNA encapsidation, J Virol, vol.74, issue.12, pp.5441-5451, 2000.

B. Muller and J. Daecke, Construction and characterization of a fluorescently labeled infectious human immunodeficiency virus type 1 derivative, J Virol, vol.78, pp.10803-10813, 2004.

W. Muranyi and S. Malkusch, Super-resolution microscopy reveals specific recruitment of HIV-1 envelope proteins to viral assembly sites dependent on the envelope C-terminal tail, PLoS Pathog, vol.9, issue.2, p.1003198, 2013.

L. Naldini and U. Blomer, In vivo gene delivery and stable transduction of nondividing cells by a lentiviral vector, Science, vol.272, issue.5259, pp.263-267, 1996.

M. A. Navia and P. M. Fitzgerald, Three-dimensional structure of aspartyl protease from human immunodeficiency virus HIV-1, Nature, vol.337, issue.6208, pp.615-620, 1989.

S. J. Neil and T. Zang, Tetherin inhibits retrovirus release and is antagonized by HIV-1 Vpu, Nature, vol.451, issue.7177, pp.425-430, 2008.

M. V. Nermut and A. Fassati, Structural analyses of purified human immunodeficiency virus type 1 intracellular reverse transcription complexes, J Virol, vol.77, issue.15, pp.8196-8206, 2003.

M. V. Nermut and D. J. Hockley, Further evidence for hexagonal organization of HIV gag protein in prebudding assemblies and immature virus-like particles, J Struct Biol, vol.123, issue.2, pp.143-149, 1998.

M. Niedrig and J. P. Rabanus, Monoclonal antibodies directed against human immunodeficiency virus (HIV) gag proteins with specificity for conserved epitopes in HIV-1, HIV-2 and simian immunodeficiency virus, J Gen Virol, vol.69, pp.2109-2114, 1988.

H. S. Nottet and I. Janse, Infection of epithelial cell line HEp-2 with human immunodeficiency virus type 1 is CD4 dependent, J Med Virol, vol.40, issue.1, pp.39-43, 1993.

A. Ono and S. D. Ablan, Phosphatidylinositol (4,5) bisphosphate regulates HIV-1 Gag targeting to the plasma membrane, Proc Natl Acad Sci U S A, vol.101, issue.41, pp.14889-14894, 2004.

A. Ono and E. O. Freed, Plasma membrane rafts play a critical role in HIV-1 assembly and release, Proc Natl Acad Sci U S A, vol.98, issue.24, pp.13925-13930, 2001.

J. Orloff, High-resolution focused ion beams, Review of Scientific Instruments, vol.64, issue.5, pp.1105-1130, 1993.

D. E. Ott, Cellular proteins detected in HIV-1, Rev Med Virol, vol.18, issue.3, pp.159-175, 2008.

D. E. Ott and L. V. Coren, Elimination of protease activity restores efficient virion production to a human immunodeficiency virus type 1 nucleocapsid deletion mutant, J Virol, vol.77, issue.10, pp.5547-5556, 2003.

D. E. Ott and L. V. Coren, Redundant roles for nucleocapsid and matrix RNA-binding sequences in human immunodeficiency virus type 1 assembly, J Virol, vol.79, issue.22, pp.13839-13847, 2005.

M. Ovesny and P. Krizek, ThunderSTORM: a comprehensive ImageJ plug-in for PALM and STORM data analysis and super-resolution imaging, Bioinformatics, vol.30, issue.16, pp.2389-2390, 2014.

J. C. Paillart and M. Shehu-xhilaga, Dimerization of retroviral RNA genomes: an inseparable pair, Nat Rev Microbiol, vol.2, issue.6, pp.461-472, 2004.

M. Pancera and T. Zhou, Structure and immune recognition of trimeric pre-fusion HIV-1 Env, Nature, vol.514, issue.7523, pp.455-461, 2014.

C. Pannecouque and B. Szafarowicz, Inhibition of HIV-1 replication by a bisthiadiazolbenzene-1,2-diamine that chelates zinc ions from retroviral nucleocapsid zinc fingers, Antimicrob Agents Chemother, vol.54, issue.4, pp.1461-1468, 2010.
URL : https://hal.archives-ouvertes.fr/hal-00508236

G. Pantaleo and C. Graziosi, HIV infection is active and progressive in lymphoid tissue during the clinically latent stage of disease, Nature, vol.362, issue.6418, pp.355-358, 1993.

Y. I. Park and K. T. Lee, Upconverting nanoparticles: a versatile platform for wide-field twophoton microscopy and multi-modal in vivo imaging, Chem Soc Rev, vol.44, issue.6, pp.1302-1317, 2015.

L. C. Parr-brownlie and C. Bosch-bouju, Lentiviral vectors as tools to understand central nervous system biology in mammalian model organisms, Front Mol Neurosci, vol.8, p.14, 2015.
URL : https://hal.archives-ouvertes.fr/hal-02638796

G. H. Patterson and J. Lippincott-schwartz, A photoactivatable GFP for selective photolabeling of proteins and cells, Science, vol.297, issue.5588, pp.1873-1877, 2002.

G. Pauli and E. Hausmann, LAV/HTLV-III: fine-structure analysis, localization of structural proteins, and detection of envelope antigens by patient sera, Haematol Blood Transfus, vol.31, pp.407-409, 1987.

M. Peeters and C. Honore, Isolation and partial characterization of an HIV-related virus occurring naturally in chimpanzees in Gabon, AIDS, vol.3, issue.10, pp.625-630, 1989.

K. Peng and W. Muranyi, Quantitative microscopy of functional HIV post-entry complexes reveals association of replication with the viral capsid, Elife, vol.3, p.4114, 2014.

C. F. Pereira and P. C. Ellenberg, Labeling of multiple HIV-1 proteins with the biarsenicaltetracysteine system, PLoS One, vol.6, issue.2, p.17016, 2011.

C. F. Pereira and J. Rossy, HIV taken by STORM: super-resolution fluorescence microscopy of a viral infection, Virol J, vol.9, p.84, 2012.

C. Perrin-tricaud and J. Davoust, Tagging the human immunodeficiency virus gag protein with green fluorescent protein. Minimal evidence for colocalisation with actin, Virology, vol.255, issue.1, pp.20-25, 1999.

B. M. Peterlin and P. A. Luciw, Elevated levels of mRNA can account for the trans-activation of human immunodeficiency virus, Proc Natl Acad Sci U S A, vol.83, issue.24, pp.9734-9738, 1986.

C. Petit and O. Schwartz, Oligomerization within virions and subcellular localization of human immunodeficiency virus type 1 integrase, J Virol, vol.73, issue.6, pp.5079-5088, 1999.
URL : https://hal.archives-ouvertes.fr/pasteur-01372744

S. C. Pettit and J. N. Lindquist, Processing sites in the human immunodeficiency virus type 1 (HIV-1) Gag-Pro-Pol precursor are cleaved by the viral protease at different rates, Retrovirology, vol.2, p.66, 2005.

S. C. Pettit and M. D. Moody, The p2 domain of human immunodeficiency virus type 1 Gag regulates sequential proteolytic processing and is required to produce fully infectious virions, J Virol, vol.68, issue.12, pp.8017-8027, 1994.

S. Pham and T. Tabarin, Cryo-electron microscopy and single molecule fluorescent microscopy detect CD4 receptor induced HIV size expansion prior to cell entry, Virology, vol.486, pp.121-133, 2015.

D. Piekna-przybylska and L. Dichiacchio, A sequence similar to tRNA 3 Lys gene is embedded in HIV-1 U3-R and promotes minus-strand transfer, Nat Struct Mol Biol, vol.17, issue.1, pp.83-89, 2010.

W. Pluymers and P. Cherepanov, Nuclear localization of human immunodeficiency virus type 1 integrase expressed as a fusion protein with green fluorescent protein, Virology, vol.258, issue.2, pp.327-332, 1999.

L. Poljak and S. M. Batson, Analysis of NCp7-dependent activation of HIV-1 cDNA integration and its conservation among retroviral nucleocapsid proteins, J Mol Biol, vol.329, issue.3, pp.411-421, 2003.
URL : https://hal.archives-ouvertes.fr/hal-00314255

S. Popov and E. Popova, Human immunodeficiency virus type 1 Gag engages the Bro1 domain of ALIX/AIP1 through the nucleocapsid, J Virol, vol.82, issue.3, pp.1389-1398, 2008.

S. Popov and E. Popova, Divergent Bro1 domains share the capacity to bind human immunodeficiency virus type 1 nucleocapsid and to enhance virus-like particle production, J Virol, vol.83, issue.14, pp.7185-7193, 2009.

S. Popov and M. Rexach, Viral protein R regulates nuclear import of the HIV-1 pre-integration complex, EMBO J, vol.17, issue.4, pp.909-917, 1998.

M. Popovic and E. Read-connole, T4 positive human neoplastic cell lines susceptible to and permissive for HTLV-III, Lancet, vol.2, pp.1472-1473, 1984.

S. J. Popper and A. D. Sarr, Low plasma human immunodeficiency virus type 2 viral load is independent of proviral load: low virus production in vivo, J Virol, vol.74, issue.3, pp.1554-1557, 2000.

O. Pornillos and B. K. Ganser-pornillos, Atomic-level modelling of the HIV capsid, Nature, vol.469, issue.7330, pp.424-427, 2011.

K. Post and B. Kankia, Fidelity of plus-strand priming requires the nucleic acid chaperone activity of HIV-1 nucleocapsid protein, Nucleic Acids Res, vol.37, issue.6, pp.1755-1766, 2009.

M. Prabu-jeyabalan and E. Nalivaika, Substrate shape determines specificity of recognition for HIV-1 protease: analysis of crystal structures of six substrate complexes, Structure, vol.10, issue.3, pp.369-381, 2002.

M. M. Pradeepa and H. G. Sutherland, Psip1/Ledgf p52 binds methylated histone H3K36 and splicing factors and contributes to the regulation of alternative splicing, PLoS Genet, vol.8, issue.5, p.1002717, 2012.

J. Prescher and V. Baumgartel, Super-resolution imaging of ESCRT-proteins at HIV-1 assembly sites, PLoS Pathog, vol.11, issue.2, p.1004677, 2015.

F. Quercioli, Fundamentals of optical microscopy, Optical Fluorescence Microscopy, pp.1-36, 2011.

V. Quercioli and C. D. Primio, Comparative Analysis of HIV-1 and Murine Leukemia Virus Three-Dimensional Nuclear Distributions, J Virol, vol.90, issue.10, pp.5205-5209, 2016.

P. J. Racine and C. Chamontin, Requirements for nucleocapsid-mediated regulation of reverse transcription during the late steps of HIV-1 assembly, Sci Rep, vol.6, p.27536, 2016.
URL : https://hal.archives-ouvertes.fr/hal-01923812

N. K. Raghavendra and N. Shkriabai, Identification of host proteins associated with HIV-1 preintegration complexes isolated from infected CD4+ cells, Retrovirology, vol.7, p.66, 2010.

S. Ramboarina and N. Morellet, Structural investigation on the requirement of CCHH zinc finger type in nucleocapsid protein of human immunodeficiency virus 1, Biochemistry, vol.38, issue.30, pp.9600-9607, 1999.

G. Raposo and M. Moore, Human macrophages accumulate HIV-1 particles in MHC II compartments, Traffic, vol.3, issue.10, pp.718-729, 2002.

J. Rasaiyaah and C. P. Tan, HIV-1 evades innate immune recognition through specific cofactor recruitment, Nature, vol.503, issue.7476, pp.402-405, 2013.

W. M. Reichert and G. A. Truskey, Total internal reflection fluorescence (TIRF) microscopy. I. Modelling cell contact region fluorescence, J Cell Sci, vol.96, issue.2, pp.219-230, 1990.

A. Rein and L. E. Henderson, Nucleic-acid-chaperone activity of retroviral nucleocapsid proteins: significance for viral replication, Trends Biochem Sci, vol.23, issue.8, pp.297-301, 1998.

A. Reisch and P. Didier, Collective fluorescence switching of counterion-assembled dyes in polymer nanoparticles, Nat Commun, vol.5, p.4089, 2014.
URL : https://hal.archives-ouvertes.fr/hal-01065081

J. Reiser and G. Harmison, Transduction of nondividing cells using pseudotyped defective high-titer HIV type 1 particles, Proc Natl Acad Sci U S A, vol.93, issue.26, pp.15266-15271, 1996.

K. Ribbeck and G. Lipowsky, NTF2 mediates nuclear import of Ran, EMBO J, vol.17, issue.22, pp.6587-6598, 1998.

W. G. Rice and C. A. Schaeffer, The site of antiviral action of 3-nitrosobenzamide on the infectivity process of human immunodeficiency virus in human lymphocytes, Proc Natl Acad Sci U S A, vol.90, issue.20, pp.9721-9724, 1993.

W. G. Rice and J. G. Supko, Inhibitors of HIV nucleocapsid protein zinc fingers as candidates for the treatment of AIDS, Science, vol.270, issue.5239, pp.1194-1197, 1995.

W. G. Rice and J. A. Turpin, Azodicarbonamide inhibits HIV-1 replication by targeting the nucleocapsid protein, Nat Med, vol.3, issue.3, pp.341-345, 1997.

W. D. Richardson and A. D. Mills, Nuclear protein migration involves two steps: rapid binding at the nuclear envelope followed by slower translocation through nuclear pores, Cell, vol.52, issue.5, pp.655-664, 1988.

L. Riviere and J. L. Darlix, Analysis of the viral elements required in the nuclear import of HIV-1 DNA, J Virol, vol.84, issue.2, pp.729-739, 2010.
URL : https://hal.archives-ouvertes.fr/hal-02322873

W. Rodgers, Making membranes green: construction and characterization of GFP-fusion proteins targeted to discrete plasma membrane domains, Biotechniques, vol.32, issue.5, pp.1050-1041, 2002.

M. P. Rout and J. D. Aitchison, Pore relations: nuclear pore complexes and nucleocytoplasmic exchange, Essays Biochem, vol.36, pp.75-88, 2000.

S. L. Rowland-jones and H. C. Whittle, Out of Africa: what can we learn from HIV-2 about protective immunity to HIV-1?, Nat Immunol, vol.8, issue.4, pp.329-331, 2007.

S. J. Rulli, C. S. Jr, and . Hibbert, Selective and nonselective packaging of cellular RNAs in retrovirus particles, J Virol, vol.81, issue.12, pp.6623-6631, 2007.

R. S. Russell and C. Liang, Is HIV-1 RNA dimerization a prerequisite for packaging? Yes, no, probably?, Retrovirology, vol.1, p.23, 2004.

J. S. Saad and E. Loeliger, Point mutations in the HIV-1 matrix protein turn off the myristyl switch, J Mol Biol, vol.366, issue.2, pp.574-585, 2007.

J. S. Saad and J. Miller, Structural basis for targeting HIV-1 Gag proteins to the plasma membrane for virus assembly, Proc Natl Acad Sci U S A, vol.103, issue.30, pp.11364-11369, 2006.

J. Saadatmand and L. Kleiman, Aspects of HIV-1 assembly that promote primer tRNA(Lys3) annealing to viral RNA, Virus Res, vol.169, issue.2, pp.340-348, 2012.

D. Sage and H. Kirshner, Quantitative evaluation of software packages for single-molecule localization microscopy, Nat Methods, vol.12, issue.8, pp.717-724, 2015.

A. Salic and T. J. Mitchison, A chemical method for fast and sensitive detection of DNA synthesis in vivo, Proc Natl Acad Sci U S A, vol.105, issue.7, pp.2415-2420, 2008.

R. Sanchez-pescador and M. D. Power, Nucleotide sequence and expression of an AIDSassociated retrovirus (ARV-2), Science, vol.227, issue.4686, pp.484-492, 1985.

T. Schaller and K. E. Ocwieja, HIV-1 capsid-cyclophilin interactions determine nuclear import pathway, integration targeting and replication efficiency, PLoS Pathog, vol.7, issue.12, p.1002439, 2011.

T. C. Schlichenmeyer and M. Wang, Video-rate structured illumination microscopy for highthroughput imaging of large tissue areas, Biomed Opt Express, vol.5, issue.2, pp.366-377, 2014.

C. A. Schneider and W. S. Rasband, NIH Image to ImageJ: 25 years of image analysis, Nat Methods, vol.9, issue.7, pp.671-675, 2012.

F. K. Schur and W. J. Hagen, Structure of the immature HIV-1 capsid in intact virus particles at 8.8 A resolution, Nature, vol.517, issue.7535, pp.505-508, 2015.

F. K. Schur and M. Obr, An atomic model of HIV-1 capsid-SP1 reveals structures regulating assembly and maturation, Science, vol.353, issue.6298, pp.506-508, 2016.

A. Sharonov and R. M. Hochstrasser, Wide-field subdiffraction imaging by accumulated binding of diffusing probes, Proc Natl Acad Sci U S A, vol.103, issue.50, pp.18911-18916, 2006.

M. Shehu-xhilaga and H. G. Kraeusslich, Proteolytic processing of the p2/nucleocapsid cleavage site is critical for human immunodeficiency virus type 1 RNA dimer maturation, J Virol, vol.75, pp.9156-9164, 2001.

N. Sheng and S. C. Pettit, Determinants of the human immunodeficiency virus type 1 p15NC-RNA interaction that affect enhanced cleavage by the viral protease, J Virol, vol.71, issue.8, pp.5723-5732, 1997.

S. H. Shim and C. Xia, Super-resolution fluorescence imaging of organelles in live cells with photoswitchable membrane probes, Proc Natl Acad Sci U S A, vol.109, issue.35, pp.13978-13983, 2012.

V. Shvadchak and S. Sanglier, Identification by high throughput screening of small compounds inhibiting the nucleic acid destabilization activity of the HIV-1 nucleocapsid protein, Biochimie, vol.91, issue.7, pp.916-923, 2009.
URL : https://hal.archives-ouvertes.fr/hal-00406367

R. F. Siliciano, W. C. Greene, G. Silvestri, and A. Fedanov, Divergent host responses during primary simian immunodeficiency virus SIVsm infection of natural sooty mangabey and nonnatural rhesus macaque hosts, Cold Spring Harb Perspect Med, vol.1, issue.1, pp.4043-4054, 2005.

E. Skripkin and J. C. Paillart, Identification of the primary site of the human immunodeficiency virus type 1 RNA dimerization in vitro, Proc Natl Acad Sci U S A, vol.91, issue.11, pp.4945-4949, 1994.

D. Sleiman and V. Goldschmidt, Initiation of HIV-1 reverse transcription and functional role of nucleocapsid-mediated tRNA/viral genome interactions, Virus Res, vol.169, issue.2, pp.324-339, 2012.

A. Sosic and F. Frecentese, Design, synthesis and biological evaluation of TAR and cTAR binders as HIV-1 nucleocapsid inhibitors, MedChemComm, vol.4, issue.10, pp.1388-1393, 2013.

G. E. Sosinsky and B. N. Giepmans, Markers for correlated light and electron microscopy, Methods Cell Biol, vol.79, pp.575-591, 2007.

R. Sougrat and A. Bartesaghi, Electron tomography of the contact between T cells and SIV/HIV-1: implications for viral entry, PLoS Pathog, vol.3, issue.5, p.63, 2007.

T. L. South and M. F. Summers, Zinc-and sequence-dependent binding to nucleic acids by the N-terminal zinc finger of the HIV-1 nucleocapsid protein: NMR structure of the complex with the Psi-site analog, dACGCC, Protein Sci, vol.2, issue.1, pp.3-19, 1993.

J. Spacek and A. R. Lieberman, Three dimensional reconstruction in electron microscopy of the central nervous system, Sb Ved Pr Lek Fak Karlovy Univerzity Hradci Kralove, vol.17, issue.3, pp.203-222, 1974.

C. Spiegelhalter and V. Tosch, From dynamic live cell imaging to 3D ultrastructure: novel integrated methods for high pressure freezing and correlative light-electron microscopy, PLoS One, vol.5, issue.2, p.9014, 2010.
URL : https://hal.archives-ouvertes.fr/hal-00452375

P. Srivastava and M. Schito, Optimization of unique, uncharged thioesters as inhibitors of HIV replication, Bioorg Med Chem, vol.12, issue.24, pp.6437-6450, 2004.

L. M. Stannard and F. D. Van-der-riet, The morphology of human immunodeficiency virus particles by negative staining electron microscopy, J Gen Virol, vol.68, pp.919-923, 1987.

S. Stauffer and S. A. Rahman, The nucleocapsid domain of Gag is dispensable for actin incorporation into HIV-1 and for association of viral budding sites with cortical F-actin, J Virol, vol.88, issue.14, pp.7893-7903, 2014.

A. G. Stephen and K. M. Worthy, Identification of HIV-1 nucleocapsid protein: nucleic acid antagonists with cellular anti-HIV activity, Biochem Biophys Res Commun, vol.296, issue.5, pp.1228-1237, 2002.

A. C. Stiel and M. Andresen, Generation of monomeric reversibly switchable red fluorescent proteins for far-field fluorescence nanoscopy, Biophys J, vol.95, issue.6, pp.2989-2997, 2008.

A. C. Stiel and S. Trowitzsch, 1.8 A bright-state structure of the reversibly switchable fluorescent protein Dronpa guides the generation of fast switching variants, Biochem J, vol.402, issue.1, pp.35-42, 2007.
URL : https://hal.archives-ouvertes.fr/hal-00478663

J. D. Strauss and J. E. Hammonds, Three-Dimensional Structural Characterization of HIV-1 Tethered to Human Cells, J Virol, vol.90, issue.3, pp.1507-1521, 2015.

X. Sun and V. K. Yau, Role of clathrin-mediated endocytosis during vesicular stomatitis virus entry into host cells, Virology, vol.338, issue.1, pp.53-60, 2005.

W. I. Sundquist and H. G. Krausslich, HIV-1 assembly, budding, and maturation, Cold Spring Harb Perspect Med, vol.2, issue.7, p.6924, 2012.

M. Suntharalingam and S. R. Wente, Peering through the pore: nuclear pore complex structure, assembly, and function, Dev Cell, vol.4, issue.6, pp.775-789, 2003.

Y. Suzuki and R. Craigie, The road to chromatin -nuclear entry of retroviruses, Nat Rev Microbiol, vol.5, issue.3, pp.187-196, 2007.

Y. Suzuki and Y. Suzuki, Gene regulatable lentiviral vector system, 2011.

T. H. Tahirov and N. D. Babayeva, Crystal structure of HIV-1 Tat complexed with human P-TEFb, Nature, vol.465, issue.7299, pp.747-751, 2010.

J. Tam and G. A. Cordier, Cross-talk-free multi-color STORM imaging using a single fluorophore, PLoS One, vol.9, issue.7, p.101772, 2014.

M. Tanaka and B. A. Robinson, Mutations of Conserved Residues in the Major Homology Region Arrest Assembling HIV-1 Gag as a Membrane-Targeted Intermediate Containing Genomic RNA and Cellular Proteins, J Virol, vol.90, issue.4, pp.1944-1963, 2015.

D. M. Tebit and E. , Tracking a century of global expansion and evolution of HIV to drive understanding and to combat disease, Lancet Infect Dis, vol.11, issue.1, pp.45-56, 2011.

S. S. Tekeste and T. A. Wilkinson, Interaction between Reverse Transcriptase and Integrase Is Required for Reverse Transcription during HIV-1 Replication, J Virol, vol.89, issue.23, pp.12058-12069, 2015.

L. J. Terry and S. R. Wente, Flexible gates: dynamic topologies and functions for FG nucleoporins in nucleocytoplasmic transport, Eukaryot Cell, vol.8, issue.12, pp.1814-1827, 2009.

J. A. Thomas and T. D. Gagliardi, Human immunodeficiency virus type 1 nucleocapsid zincfinger mutations cause defects in reverse transcription and integration, Virology, vol.353, issue.1, pp.41-51, 2006.

J. A. Thomas and R. J. Gorelick, Nucleocapsid protein function in early infection processes, Virus Res, vol.134, issue.1-2, pp.39-63, 2008.

P. Tompa and P. Csermely, The role of structural disorder in the function of RNA and protein chaperones, FASEB J, vol.18, issue.11, pp.1169-1175, 2004.

B. G. Turner and M. F. Summers, Structural biology of HIV, J Mol Biol, vol.285, issue.1, pp.1-32, 1999.

J. A. Turpin and M. L. Schito, Topical microbicides: a promising approach for controlling the AIDS pandemic via retroviral zinc finger inhibitors, Adv Pharmacol, vol.56, pp.229-256, 2008.

J. A. Turpin and Y. Song, Synthesis and biological properties of novel pyridinioalkanoyl thiolesters (PATE) as anti-HIV-1 agents that target the viral nucleocapsid protein zinc fingers, J Med Chem, vol.42, issue.1, pp.67-86, 1999.

J. A. Turpin and S. J. Terpening, Inhibitors of human immunodeficiency virus type 1 zinc fingers prevent normal processing of gag precursors and result in the release of noninfectious virus particles, J Virol, vol.70, issue.9, pp.6180-6189, 1996.

T. Ueno and K. Tokunaga, Nucleolin and the packaging signal, psi, promote the budding of human immunodeficiency virus type-1 (HIV-1), Microbiol Immunol, vol.48, issue.2, pp.111-118, 2004.

M. A. Urbaneja and B. P. Kane, Binding properties of the human immunodeficiency virus type 1 nucleocapsid protein p7 to a model RNA: elucidation of the structural determinants for function, J Mol Biol, vol.287, issue.1, pp.59-75, 1999.

S. Van-de-linde and I. Krstic, Photoinduced formation of reversible dye radicals and their impact on super-resolution imaging, Photochem Photobiol Sci, vol.10, issue.4, pp.499-506, 2011.

S. B. Van-engelenburg and G. Shtengel, Distribution of ESCRT machinery at HIV assembly sites reveals virus scaffolding of ESCRT subunits, Science, vol.343, issue.6171, pp.653-656, 2014.

F. Van-heuverswyn and Y. Li, Human immunodeficiency viruses: SIV infection in wild gorillas, Nature, vol.444, issue.7116, p.164, 2006.

J. C. Vaughan and S. Jia, Ultrabright photoactivatable fluorophores created by reductive caging, Nat Methods, vol.9, issue.12, pp.1181-1184, 2012.

T. Vercruysse and B. Basta, A phenyl-thiadiazolylidene-amine derivative ejects zinc from retroviral nucleocapsid zinc fingers and inactivates HIV virions, Retrovirology, vol.9, p.95, 2012.
URL : https://hal.archives-ouvertes.fr/hal-00783431

V. V. Verkhusha and A. Sorkin, Conversion of the monomeric red fluorescent protein into a photoactivatable probe, Chem Biol, vol.12, issue.3, pp.279-285, 2005.

G. Vicidomini and I. C. Hernandez, Gated CW-STED microscopy: a versatile tool for biological nanometer scale investigation, Methods, vol.66, issue.2, pp.124-130, 2014.

C. Vink and D. C. Van-gent, Human immunodeficiency virus integrase protein requires a subterminal position of its viral DNA recognition sequence for efficient cleavage, J Virol, vol.65, issue.9, pp.4636-4644, 1991.

C. Vink and E. Yeheskiely, Site-specific hydrolysis and alcoholysis of human immunodeficiency virus DNA termini mediated by the viral integrase protein, Nucleic Acids Res, vol.19, issue.24, pp.6691-6698, 1991.

M. A. Vodicka and D. M. Koepp, HIV-1 Vpr interacts with the nuclear transport pathway to promote macrophage infection, Genes Dev, vol.12, issue.2, pp.175-185, 1998.

U. Von-schwedler and R. S. Kornbluth, The nuclear localization signal of the matrix protein of human immunodeficiency virus type 1 allows the establishment of infection in macrophages and quiescent T lymphocytes, Proc Natl Acad Sci U S A, vol.91, issue.15, pp.6992-6996, 1994.

C. Vuilleumier and E. Bombarda, Nucleic acid sequence discrimination by the HIV-1 nucleocapsid protein NCp7: a fluorescence study, Biochemistry, vol.38, issue.51, pp.16816-16825, 1999.

S. Wain-hobson, More ado about HIV's origins, Nat Med, vol.4, issue.9, pp.1001-1002, 1998.

B. Walter, Ann.Phys (Leipzig), vol.34, pp.502-517, 1988.

B. Walter, Ann.Phys (Leipzig), vol.34, pp.316-326, 1988.

B. Walter, Ann.Phys (Leipzig), vol.34, pp.518-533, 1988.

Y. X. Wang and L. B. Shi, Functional water channels and proton pumps are in separate populations of endocytic vesicles in toad bladder granular cells, Biochemistry, vol.30, issue.11, pp.2888-2894, 1991.

D. Warrilow and G. Tachedjian, Maturation of the HIV reverse transcription complex: putting the jigsaw together, Rev Med Virol, vol.19, issue.6, pp.324-337, 2009.

D. M. Warui and A. M. Baranger, Identification of specific small molecule ligands for stem loop 3 ribonucleic acid of the packaging signal Psi of human immunodeficiency virus-1, J Med Chem, vol.52, issue.17, pp.5462-5473, 2009.

J. M. Watts and K. K. Dang, Architecture and secondary structure of an entire HIV-1 RNA genome, Nature, vol.460, issue.7256, pp.711-716, 2009.

J. N. Weinstein and S. Yoshikami, Liposome-cell interaction: transfer and intracellular release of a trapped fluorescent marker, Science, vol.195, issue.4277, pp.489-492, 1977.

R. Welker and H. Hohenberg, Biochemical and structural analysis of isolated mature cores of human immunodeficiency virus type 1, J Virol, vol.74, issue.3, pp.1168-1177, 2000.

V. Westphal and S. W. Hell, Nanoscale resolution in the focal plane of an optical microscope, Phys Rev Lett, vol.94, issue.14, p.143903, 2005.

J. White and K. Matlin, Cell fusion by Semliki Forest, influenza, and vesicular stomatitis viruses, J Cell Biol, vol.89, issue.3, pp.674-679, 1981.

J. Wiedenmann and B. Vallone, Red fluorescent protein eqFP611 and its genetically engineered dimeric variants, J Biomed Opt, vol.10, issue.1, p.14003, 2005.

D. Wildanger and R. Medda, A compact STED microscope providing 3D nanoscale resolution, J Microsc, vol.236, issue.1, pp.35-43, 2009.

T. Wilk and B. Gowen, Actin associates with the nucleocapsid domain of the human immunodeficiency virus Gag polyprotein, J Virol, vol.73, issue.3, pp.1931-1940, 1999.

R. L. Willey and F. Maldarelli, Human immunodeficiency virus type 1 Vpu protein induces rapid degradation of CD4, J Virol, vol.66, issue.12, pp.7193-7200, 1992.

K. I. Willig and B. Harke, STED microscopy with continuous wave beams, Nat Methods, vol.4, issue.11, pp.915-918, 2007.

R. W. Wong and J. I. Mamede, Impact of Nucleoporin-Mediated Chromatin Localization and Nuclear Architecture on HIV Integration Site Selection, J Virol, vol.89, pp.9702-9705, 2015.

C. L. Woodward and S. N. Cheng, Electron cryotomography studies of maturing HIV-1 particles reveal the assembly pathway of the viral core, J Virol, vol.89, issue.2, pp.1267-1277, 2015.

C. L. Woodward and S. A. Chow, The nuclear pore complex: a new dynamic in HIV-1 replication, Nucleus, vol.1, issue.1, pp.18-22, 2010.

E. R. Wright and J. B. Schooler, Electron cryotomography of immature HIV-1 virions reveals the structure of the CA and SP1 Gag shells, EMBO J, vol.26, issue.8, pp.2218-2226, 2007.

H. Wu and M. Mitra, Differential contribution of basic residues to HIV-1 nucleocapsid protein's nucleic acid chaperone function and retroviral replication, Nucleic Acids Res, vol.42, issue.4, pp.2525-2537, 2014.

J. Q. Wu and A. Ozarowski, Binding of the nucleocapsid protein of type 1 human immunodeficiency virus to nucleic acids studied using phosphorescence and optically detected magnetic resonance, Biochemistry, vol.36, issue.41, pp.12506-12518, 1997.

X. Wu and H. Liu, Human immunodeficiency virus type 1 integrase protein promotes reverse transcription through specific interactions with the nucleoprotein reverse transcription complex, J Virol, vol.73, issue.3, pp.2126-2135, 1999.

H. Xu and T. Franks, Evidence for biphasic uncoating during HIV-1 infection from a novel imaging assay, Retrovirology, vol.10, p.70, 2013.

M. Yamashita and M. Emerman, Capsid is a dominant determinant of retrovirus infectivity in nondividing cells, J Virol, vol.78, issue.11, pp.5670-5678, 2004.

Y. Yang and T. Fricke, Inhibition of reverse transcriptase activity increases stability of the HIV-1 core, J Virol, vol.87, issue.1, pp.683-687, 2013.

R. Yarchoan and R. W. Klecker, Administration of 3'-azido-3'-deoxythymidine, an inhibitor of HTLV-III/LAV replication, to patients with AIDS or AIDS-related complex, Lancet, vol.1, issue.8481, pp.575-580, 1986.

R. G. Ye and L. B. Shi, Functional colocalization of water channels and proton pumps in endosomes from kidney proximal tubule, J Gen Physiol, vol.93, issue.5, pp.885-902, 1989.

K. L. Yu and S. H. Lee, HIV-1 nucleocapsid protein localizes efficiently to the nucleus and nucleolus, Virology, vol.492, pp.204-212, 2016.

L. Zargarian and C. Tisne, Dynamics of linker residues modulate the nucleic acid binding properties of the HIV-1 nucleocapsid protein zinc fingers, PLoS One, vol.9, issue.7, p.102150, 2014.
URL : https://hal.archives-ouvertes.fr/hal-01110583

J. Zhang and C. S. Crumpacker, Human immunodeficiency virus type 1 nucleocapsid protein nuclear localization mediates early viral mRNA expression, J Virol, vol.76, issue.20, pp.10444-10454, 2002.

G. Zhao and J. R. Perilla, Mature HIV-1 capsid structure by cryo-electron microscopy and allatom molecular dynamics, Nature, vol.497, issue.7451, pp.643-646, 2013.

K. Zhu and C. Dobard, Requirement for integrase during reverse transcription of human immunodeficiency virus type 1 and the effect of cysteine mutations of integrase on its interactions with reverse transcriptase, J Virol, vol.78, issue.10, pp.5045-5055, 2004.

C. Zimmerman and K. C. Klein, Identification of a host protein essential for assembly of immature HIV-1 capsids, Nature, vol.415, issue.6867, pp.88-92, 2002.

, Version juillet, 2016.

, pseudovirus NCp7-TC ont ensuite été imagés en haute résolution par microscopie PALM

, Les images de distribution de la NCp7 marquée ont révélé la présence de la NCp7-TC à l'intérieur du noyau. Nous avons mis en evidence par microscopie électronique la presence de la NCp7-TC à proximité de pores nucléaires

, Mots clés: protéin de nucléocapside, transcription inverse, pseudovirus, étiquette tetracystéine