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Full PubMed List of Publications by V.K. Pathak


Selected Publications

Rawson, J.M.O., Nikolaitchik, O.A., Keele, B.F., Pathak, V.K., and Hu, W.-S.  (2018)  Recombination is required for efficient HIV-1 replication and the maintenance of viral genome integrity.  Nucleic Acids Res. 46: 10535-10545.
Abstract     Full-text PDF from publisher     Supplementary data     PMID 30307534

Comas-Garcia, M., Kroupa, T., Datta, S.A.K., Harvin, D.P., Hu, W.-S., and Rein, A.  (2018)  Efficient support of virus-like particle assembly by the HIV-1 packaging signal.  eLife 7: e38438.
Abstract     Full-text PDF from publisher     PMID 30070634

Maiti, A., Myint, W., Kanai, T., Delviks-Frankenberry, K., Sierra Rodriguez, C., Pathak, V.K., Schiffer, C.A., and Matsuo, H.  (2018)  Crystal structure of the catalytic domain of HIV-1 restriction factor APOBEC3G in complex with ssDNA.  Nat. Commun. 9: 2460.
Abstract     Full-text PDF from publisher     PMID 29941968

Ziegler, S.J., Liu, C., Landau, M., Buzovetsky, O., Desimmie, B.A., Zhao, Q., Sasaki, T., Burdick, R.C., Pathak, V.K., Anderson, K.S., and Xiong, Y.  (2018)  Insights into DNA substrate selection by APOBEC3G from structural, biochemical, and functional studies.  PLoS ONE 13(3): e0195048.
Abstract     Full-text PDF from publisher     Supporting information
PMID 29596531

Liu, Y., Chen, J., Nikolaitchik, O.A., Desimmie, B.A., Busan, S., Pathak, V.K., Weeks, K.M., and Hu, W.-S.  (2018)  The roles of five conserved lentiviral RNA structures in HIV-1 replication.  Virology 514: 1-8.
Abstract     Full-text PDF from publisher     Supplementary material
PMID 29128752

Burdick, R.C., Delviks-Frankenberry, K.A., Chen, J., Janaka, S.K., Sastri, J., Hu, W.-S., and Pathak, V.K.  (2017)  Dynamics and regulation of nuclear import and nuclear movements of HIV-1 complexes.  PLoS Pathog. 13(8): e1006570.
[Abstract]     [Full-text PDF (3077 K) from publisher]     [Supporting information]
[PMID: 28827840]

Liu, Y., Nikolaitchik, O.A., Rahman, S.A., Chen, J., Pathak, V.K., and Hu, W.-S.  (2017)  HIV-1 sequence necessary and sufficient to package non-viral RNAs into HIV-1 particles.  J. Mol. Biol. 429: 2542-2555.
[Abstract]     [Full-text PDF (1591 K) from publisher]     [PMID: 28673553]

Dilley, K.A., Nikolaitchik, O.A., Galli, A., Burdick, R.C., Levine, L., Li, K., Rein, A., Pathak, V.K., and Hu, W.-S.  (2017)  Interactions between HIV-1 Gag and viral RNA genome enhance virion assembly.  J. Virol. 91(16): e02319-16.
[Abstract]      [Full-text PDF (581 K) from publisher]     [PMID: 28539452]

Desimmie, B.A., Smith, J.L., Matsuo, H., Hu, W.-S., and Pathak, V.K.  (2017)  Identification of a tripartite interaction between the N-terminus of HIV-1 Vif and CBFß that is critical for Vif function.  Retrovirology 14: 19.
[Abstract]      [Full-text PDF (1664 K) from NIH Public Access]
[PMID: 28302150]; PMCID: PMC5356271]

Desimmie, B.A., Burdick, R.C., Izumi, T., Doi, H., Shao, W., Alvord, W.G., Sato, K., Koyanagi, Y., Jones, S., Wilson, E., Hill, S., Maldarelli, F., Hu, W.-S., and Pathak, V.K.  (2016)  APOBEC3 proteins can copackage and comutate HIV-1 genomes.  Nucleic Acids Res. 44: 7848-7865.
[Abstract]      [Full-text PDF (1734 K) from NIH Public Access]
[Supplementary data]     [PMID: 27439715; PMCID: PMC5027510 ]

Delviks-Frankenberry, K.A., Nikolaitchik, O.A., Burdick, R.C., Gorelick, R.J., Keele, B.F., Hu, W.-S., and Pathak, V.K.  (2016)  Minimal contribution of APOBEC3-induced G-to-A hypermutation to HIV-1 recombination and genetic variation.  PLoS Pathog. 12(5): e1005646.
[Abstract]     [Full-text PDF (1866 K) from publisher]     [Supporting information]
[PMID: 27186986]

Chen, J., Rahman, S.A., Nikolaitchik, O.A., Grunwald, D., Sardo, L., Burdick, R.C., Plisov, S., Liang, E., Tai, S., Pathak, V.K., and Hu, W.-S.  (2016)  HIV-1 RNA genome dimerizes on the plasma membrane in the presence of Gag protein.  Proc. Natl. Acad. Sci. USA 113: E201-E208.     [Abstract]     [Full-text PDF (1633 K) from publisher]
[Supporting information]     [PMID: 26712001]

Sardo, L., Hatch, S.C., Chen, J., Nikolaitchik, O., Burdick, R.C., Chen, D., Westlake, C.J., Lockett, S., Pathak, V.K., and Hu, W.-S.  (2015)  Dynamics of HIV-1 RNA near the plasma membrane during virus assembly.  J. Virol. 89: 10832-10840.     [Abstract]
[Full-text PDF (486 K) from publisher]     [PMID: 26292321]

Nikolaitchik, O., Keele, B., Gorelick, R., Alvord, W.G., Mazurov, D., Pathak, V.K., and Hu, W.-S.  (2015)  High recombination potential of subtype A HIV-1.  Virology 484: 334-340.
[Abstract]    [Full-text PDF (535 K) from publisher]    [PMID: 26164392]

Chikaev, A.N., Bakulina, A.Y., Burdick, R.C., Karpenko, L.I., Pathak, V.K., and Ilyichev, A.A.  (2015)  Selection of peptide mimics of HIV-1 epitope recognized by neutralizing antibody VRC01.  PLoS One 10(3): e0120847.     [Abstract]
[Full-text PDF (660 K) from publisher]     [PMID: 25785734]

Chen, J., Grunwald, D., Sardo, L., Galli, A., Plisov, S., Nikolaitchik, O.A., Chen, D., Lockett, S., Larson, D.R., Pathak, V.K., and Hu, W.-S.  (2014)  Cytoplasmic HIV-1 RNA is mainly transported by diffusion in the presence or absence of Gag protein.  Proc. Natl. Acad. Sci. USA Plus 111: E5205–E5213.     [Abstract]     [Full-text PDF (1728 K) from publisher]
[Supporting information (1410 K)]     [PMID: 25404326]

Sato, K., Takeuchi, J.S., Misawa, N., Izumi, T., Kobayashi, T., Kimura, Y., Iwami, S., Takaori-Kondo, A., Hu, W.-S., Aihara, K., Ito, M., An, D.S., Pathak, V.K., and Koyanagi, Y.  (2014)  APOBEC3D and APOBEC3F potently promote HIV-1 diversification and evolution in humanized mouse model.  PLoS Pathog. 10(10): e1004453.     [Abstract]
[Full-text PDF (3032 K) from NIH Public Access]     [PMID: 25330146; PMCID: PMC4199767]

Smith, J.L., Izumi, T., Borbet, T.C., Hagedorn, A.N., and Pathak, V.K.  (2014)  HIV-1 and HIV-2 Vif interact with human APOBEC3 proteins using completely different determinants.  J. Virol. 88: 9893-9908.     [Abstract]     [Full-text PDF (1818 K) from publisher]     [PMID: 24942576]

Desimmie, B.A., Delviks-Frankenberry, K.A., Burdick, R.C., Qi, D., Izumi, T., and Pathak, V.K.  (2014)  Multiple APOBEC3 restriction factors for HIV-1 and one Vif to rule them all.  J. Mol. Biol. 426: 1220-1245.     [Abstract]     [Full-text PDF (1753 K) from publisher]
[PMID: 24189052]

Burdick, R.C., Hu, W.-S., and Pathak, V.K.  (2013)  Nuclear import of APOBEC3F-labeled HIV-1 preintegration complexes.  Proc. Natl. Acad. Sci. USA Plus 110: E4780-E4789.     [Abstract]
[Full-text PDF (1291 K) from NIH Public Access]     [PMID: 24248339; PMCID: PMC3856795]

Delviks-Frankenberry, K., Paprotka, T., Cingöz, O., Wildt, S., Hu, W.-S., Coffin, J.M., and Pathak, V.K.  (2013)  Generation of multiple replication-competent retroviruses through recombination between PreXMRV-1 and PreXMRV-2.  J. Virol. 87: 11525-11537.
[Abstract]     [Full-text PDF (638 K) from publisher]     [PMID: 23966380]

Hatch, S.C., Sardo, L., Chen, J., Burdick, R., Gorelick, R., Fivash, M.J., Jr., Pathak, V.K., and Hu, W.-S.  (2013)  Gag-dependent enrichment of HIV-1 RNA near the uropod membrane of polarized T cells.  J. Virol. 87: 11912-11915.     [Abstract]     [PMID: 23966405]
[Full-text PDF (411 K) from publisher]

Izumi, T., Burdick, R., Shigemi, M., Plisov, S., Hu, W.-S., and Pathak, V.K.  (2013)  Mov10 and APOBEC3G localization to processing bodies is not required for virion incorporation and antiviral activity.  J. Virol. 87: 11047-11062.     [Abstract]     [PMID: 23926332]
[Full-text PDF (2722 K) from publisher]

Murgai, M., Thomas, J., Cherepanova, O., Delviks-Frankenberry, K., Deeble, P., Pathak, V.K., Rekosh, D., and Owens, G.  (2013)  Xenotropic MLV envelope proteins induce tumor cells to secrete factors that promote the formation of immature blood vessels.  Retrovirology 10: 34.      [Abstract]     [Full-text PDF (763 K) from publisher]     [PMID: 23537062]

Nikolaitchik, O.A., Dilley, K.A., Fu, W., Gorelick, R.J., Tai, S.-H.S., Soheilian, F., Ptak, R.G., Nagashima, K., Pathak, V.K., and Hu, W.-S.  (2013)  Dimeric RNA recognition regulates HIV-1 genome packaging.  PLoS Pathog. 9(3): e1003249.     [Abstract]
[Full-text PDF (1228 K) from NIH Public Access]     [PMID: 23555259; PMCID: PMC3605237]

Chaipan, C., Smith, J.L., Hu, W.-S., and Pathak, V.K.  (2013)  APOBEC3G restricts HIV-1 to a greater extent than APOBEC3F and APOBEC3DE in human primary CD4+ T cells and macrophages.  J. Virol. 87: 444-453.     [Abstract]
[Full-text PDF (1742 K) from publisher]     [PMID: 23097438; PMCID: PMC3536366]

Delviks-Frankenberry, K.A., Lengruber, R.B., Santos, A.F., Silveira, J.M., Soares, M.A., Kearney, M.F., Maldarelli, F., and Pathak, V.K.  (2013)  Connection subdomain mutations in HIV-1 subtype-C treatment-experienced patients enhance NRTI and NNRTI drug resistance.  Virology 435: 433-441.     [Abstract]     [Full-text PDF (549 K) from publisher]
[PMID: 23068886; PMCID: PMC3534945]

Delviks-Frankenberry, K., Cingoz, O., Coffin, J.M., and Pathak, V.K.  (2012)  Recombinant origin, contamination, and de-discovery of XMRV.  Curr. Opin. Virol. 2: 499-507.
[Abstract]     [Full-text PDF article - 633 K]

Del Prete, G.Q., Kearney, M.F., Spindler, J., Wiegand, A., Chertova, E., Roser, J.D., Estes, J.D., Hao, X.P., Trubey, C.M., Lara, A., Lee, K., Chaipan, C., Bess, J.W., Jr., Nagashima, K., Keele, B.F., Macallister, R., Smedley, J., Pathak, V.K., KewalRamani, V.N., Coffin, J.M., and Lifson, J.D.  (2012)  Restricted replication of xenotropic murine leukemia virus-related virus in pigtailed macaques.  J. Virol. 86: 3152-3166.
[Abstract]     [Full-text PDF article - 3133 K]     [Supplemental material]

Cingöz, O., Paprotka, T., Delviks-Frankenberry, K.A., Wildt, S., Hu, W.-S., Pathak, V.K., and Coffin, J.M.  (2012)  Characterization, mapping, and distribution of the two XMRV parental proviruses.  J. Virol. 86: 328-338.
[Abstract]     [Full-text PDF article - 1762 K]

Ndongwe, T., Adedeji, A., Michailidis, E., Ong, Y.-T., Hachiya, A., Marchand, B., Ryan, E., Rai, D.K., Kirby, K.A., Whatley, A., Burke, D.H., Johnson, M., Ding, S., Zheng, Y.-M., Liu, S.-L., Kodama, E.-I., Delviks-Frankenberry, K.A., Pathak, V.K., Mitsuya, H., Parniak, M.A., Singh, K., and Sarafianos, S.G.  (2012)  Biochemical, inhibition and resistance studies of xenotropic murine leukemia virus-related virus reverse transcriptase.  Nucleic Acids Res. 40: 345-359.
[Abstract]     [Full-text PDF article - 2677 K]     [Supplementary data - 481 K PDF]

Kearney, M.F., Lee, K., Bagni, R.K., Wiegand, A., Spindler, J., Maldarelli, F., Pinto, P.A., Linehan, W.M., Vocke, C.D., Delviks-Frankenberry, K.A., deVere White, R.W., Del Prete, G.Q., Mellors, J.W., Lifson, J.D., KewalRamani, V.N., Pathak, V.K., Coffin, J.M., and Le Grice, S.F.J.  (2011)  Nucleic acid, antibody, and virus culture methods to detect xenotropic MLV-related virus in human blood samples.  Adv. Virol. 2011: article ID 272193, 12 pages.
[Abstract]     [Full-text PDF article - 1428 K]

Delviks-Frankenberry, K.A., Chaipan, C., Bagni, R., Wyvill, K., Yarchoan, R., and Pathak, V.K.  (2011)  Lack of detection of xenotropic murine leukemia virus-related virus in HIV-1 lymphoma patients.  Adv. Virol., vol. 2011, article ID 797820, 4 pages.
[Abstract]     [Full-text PDF article - 873 K]

Delviks-Frankenberry, K.A., Galli, A., Nikolaitchik, O., Mens, H., Pathak, V.K., and Hu, W.-S.  (2011)  Mechanisms and factors that influence high frequency retroviral recombination.  Viruses 3: 1650-1680.     [Abstract]     [Full-text PDF article - 4266 K]

Pak, V., Heidecker, G., Pathak, V.K., and Derse, D.  (2011)  The role of amino-terminal sequences in cellular localization and antiviral activity of APOBEC3B.  J. Virol. 85: 8538-8547.
[Abstract]     [Full-text PDF article - 1359 K]     [Supplemental Figure 1 - 2304 K PDF]

Paprotka, T., Delviks-Frankenberry, K.A., Cingöz, O., Martinez, A., Kung, H.-J., Tepper, C.G., Hu, W.-S., Fivash, M.J., Jr., Coffin, J.M., and Pathak, V.K.  (2011)  Recombinant origin of the retrovirus XMRV.  Science 333: 97-101.
[Abstract]     [Full-text PDF article - 336 K]     [Supporting material - 4041 K PDF file]

Science Watch Fast Breaking Paper Commentary, 2012: NCI’s Vinay K. Pathak on the “De-Discovery” of a Retrovirus-Disease Link

[Links to NCI press release and related articles]

Ni, N., Nikolaitchik, O.A., Dilley, K.A., Chen, J., Galli, A., Fu, W., Prasad, V.V.S.P., Ptak, R.G., Pathak, V.K., and Hu, W.-S.  (2011)  Mechanisms of human immunodeficiency virus type 2 RNA packaging: Efficient trans packaging and selection of RNA copackaging partners.  J. Virol. 85: 7603-7612.     [Abstract]     [Full-text PDF article - 685 K]

Chaipan, C., Dilley, K.A., Paprotka, T., Delviks-Frankenberry, K.A., Venkatachari, N.J., Hu, W.-S., and Pathak, V.K.  (2011)  Severe restriction of xenotropic murine leukemia virus-related virus replication and spread in cultured human peripheral blood mononuclear cells.  J. Virol. 85: 4888-4897.     [Abstract]     [Full-text PDF article - 654 K]

Lengruber, R.B., Delviks-Frankenberry, K.A., Nikolenko, G.N., Baumann, J., Santos, A.F., Pathak, V.K., and Soares, M.A.  (2011)  Phenotypic characterization of drug resistance-associated mutations in HIV-1 RT connection and RNase H domains and their correlation with thymidine analogue mutations.  J. Antimicrob. Chemother. 66: 702-708.
[Abstract]     [Full-text PDF article - 262 K]

Nikolaitchik, O.A., Galli, A., Moore, M.D., Pathak, V.K., and Hu, W.-S.  (2011)  Multiple barriers to recombination between divergent HIV-1 variants revealed by a dual-marker recombination assay.  J. Mol. Biol. 407: 521-531.
[Abstract]     [Full-text PDF article - 689 K]

Smith, J.L., and Pathak, V.K.  (2010)  Identification of specific determinants of human APOBEC3F, APOBEC3C, APOBEC3DE, and African green monkey APOBEC3F that interact with HIV-1 Vif.  J. Virol. 84: 12599-12608.     [Abstract]     [Full-text PDF article - 1867 K]

Delviks-Frankenberry, K.A., Nikolenko, G.N., and Pathak, V.K.  (2010)  The "connection" between HIV drug resistance and RNase H.  Viruses 2: 1476-1503.
[Abstract]     [Full-text PDF article - 481 K]

Burdick, R., Smith, J.L., Chaipan, C., Friew, Y., Chen, J., Venkatachari, N.J., Delviks-Frankenberry, K.A., Hu, W.-S., and Pathak, V.K.  (2010)  P body-associated protein Mov10 inhibits HIV-1 replication at multiple stages.  J. Virol. 84: 10241-10253.
[Abstract]     [Full-text PDF article - 3390 K]     [Supplemental material]

Galli, A., Kearney, M., Nikolaitchik, O.A., Yu, S., Chin, M.P.S., Maldarelli, F., Coffin, J.M., Pathak, V.K., and Hu, W.-S.  (2010)  Patterns of human immunodeficiency virus type 1 recombination ex vivo provide evidence for coadaptation of distant sites, resulting in purifying selection for intersubtype recombinants during replication.  J. Virol. 84: 7651-7661.
[Abstract]     [Full-text PDF article - 676 K]

Paprotka, T., Venkatachari, N.J., Chaipan, C., Burdick, R., Delviks-Frankenberry, K.A., Hu, W.-S., and Pathak, V.K.  (2010)  Inhibition of xenotropic murine leukemia virus-related virus by APOBEC3 proteins and antiviral drugs.  J. Virol. 84: 5719-5729.
[Abstract]     [Full-text PDF article - 1710 K]

Mbisa, J.L., Bu, W., and Pathak, V.K.  (2010)  APOBEC3F and APOBEC3G inhibit HIV-1 DNA integration by different mechanisms.  J. Virol. 84: 5250-5259.
[Abstract]     [Full-text PDF article - 1175 K]

Nikolenko, G.N., Delviks-Frankenberry, K.A., and Pathak, V.K.  (2010)  A novel molecular mechanism of dual resistance to nucleoside and nonnucleoside reverse transcriptase inhibitors.  J. Virol. 84: 5238-5249.     [Abstract]     [Full-text PDF article - 815 K]

Smith, J.L., Bu, W., Burdick, R.C., and Pathak, V.K.  (2009)  Multiple ways of targeting APOBEC3-virion infectivity factor interactions for anti-HIV-1 drug development.  Trends Pharmacol. Sci. 30: 638-646.     [Abstract]     [Full-text PDF article - 444 K]

Chen, J., Nikolaitchik, O., Singh, J., Wright, A., Bencsics, C.E., Coffin, J.M., Ni, N., Lockett, S., Pathak, V.K., and Hu, W.-S.  (2009)  High efficiency of HIV-1 genomic RNA packaging and heterozygote formation revealed by single virion analysis.  Proc. Natl. Acad. Sci. USA 106: 13535-13540.     [Abstract]     [Full-text PDF article - 574 K]

Delviks-Frankenberry, K.A., Nikolenko, G.N., Maldarelli, F., Hase, S., Takebe, Y., and Pathak, V.K.  (2009)  Subtype-specific differences in the human immunodeficiency virus type 1 reverse transcriptase connection subdomain of CRF01_AE are associated with higher levels of resistance to 3'-azido-3'-deoxythymidine.  J. Virol. 83: 8502-8513.
[Abstract]     [Full-text PDF article - 1260 K]

Friew, Y.N., Boyko, V., Hu, W.-S., and Pathak, V.K.  (2009)  Intracellular interactions between APOBEC3G, RNA, and HIV-1 Gag: APOBEC3G multimerization is dependent on its association with RNA.  Retrovirology 6: 56.     [Abstract]     [Full-text PDF article - 2125 K]

Jern, J., Russell, R.A., Pathak, V.K., and Coffin, J.M.  (2009)  Likely role of APOBEC3G-mediated G-to-A mutations in HIV-1 evolution and drug resistance.  PLoS Pathog. 5: e1000367.     [Abstract]     [Full-text PDF article - 928 K]

Russell, R.A., Moore, M.D., Hu, W.-S., and Pathak, V.K.  (2009)  APOBEC3G induces a hypermutation gradient: Purifying selection at multiple steps during HIV-1 replication results in levels of G-to-A mutations that are high in DNA, intermediate in cellular viral RNA, and low in virion RNA.  Retrovirology 6: 16.
[Abstract]     [Full-text PDF article - 369 K]

Perkovic, M., Schmidt, S., Marino, D., Russell, R.A., Stauch, B., Hofmann, H., Kopietz, F., Kloke, B.P., Zielonka, J., Ströver, H., Hermle, J., Lindemann, D., Pathak, V.K., Schneider, G., Löchelt, M., Cichutek, K., and Münk, C.  (2009)  Species-specific inhibition of APOBEC3C by the prototype foamy virus protein Bet.  J. Biol. Chem. 284: 5819-5826.
[Abstract]     [Full-text PDF article - 525 K]

Russell, R.A., Smith, J., Barr, R., Bhattacharyya, D., and Pathak, V.K.  (2009)  Distinct domains within APOBEC3G and APOBEC3F interact with separate regions of human immunodeficiency virus type 1 Vif.  J. Virol. 83: 1992-2003.
[Abstract]     [Full-text PDF article - 1351 K]

LaRue, R.S., Andrésdóttir, V., Blanchard, Y., Conticello, S.G., Derse, D., Emerman, M., Greene, W.C., Jónsson, S.R., Landau, N.R., Löchelt, M., Malik, H.S., Malim, M.H., Münk, C., O'Brien, S.J., Pathak, V.K., Strebel, K., Wain-Hobson, S., Yu, X.F., Yuhki, N., and Harris, R.S.  (2009)  Guidelines for naming non-primate APOBEC3 genes and proteins.  J. Virol. 83: 494-497.     [PubMed citation]     [Full-text PDF article - 148 K]

Mbisa, J., Delviks-Frankenberry, K.A., Thomas, J.A., Gorelick, R.J., and Pathak, V.K.  (2009)  Real-time PCR analysis of HIV-1 replication post-entry events.  In Prasad, V.R., and Kalpana, G.V. (eds.), HIV Protocols, 2nd Ed., Methods in Molecular Biology, Vol. 485, Humana Press, pp. 55-72.     [Abstract]

Moore, M.D., Fu, W., Soheilian, F., Nagashima, K., Ptak, R.G., Pathak, V.K., and Hu, W.-S.  (2008)  Suboptimal inhibition of protease activity in human immunodeficiency virus type 1: Effects on virion morphogenesis and RNA maturation.  Virology 379: 152-160.
[Abstract]      [Full-text PDF article - 1204 K]

Chen, J., Pathak, V.K., Peng, W., and Hu, W.-S.  (2008)  Capsid proteins from human immunodeficiency virus type 1 and simian immunodeficiency virus SIVmac can coassemble into mature cores of infectious viruses.  J. Virol. 82: 8253-8261.
[Abstract]     [Full-text PDF article - 472 K]

Delviks-Frankenberry, K.A., Nikolenko, G.N., Boyer, P.L., Hughes, S.H., Coffin, J.M., Jere, A., and Pathak, V.K.  (2008)  HIV-1 reverse transcriptase connection subdomain mutations reduce template RNA degradation and enhance AZT excision.  Proc. Natl. Acad. Sci. USA 105: 10943-10948.     [Abstract]     [Full-text PDF article - 536 K]

Nikolaitchik, O.A., Gorelick, R.J., Leavitt, M.G., Pathak, V.K., and Hu, W.-S.  (2008)  Functional complementation of nucleocapsid and late domain PTAP mutants of human immunodeficiency virus type 1 during replication.  Virology 375: 539-549.
[Abstract]     [Full-text PDF article]

Santos, A.F., Lengruber, R.B., Soares, E.A., Jere, A., Sprinz, E., Martinez, A.M., Silveira, J., Sion, F.S., Pathak, V.K., and Soares, M.A.  (2008)  Conservation patterns of HIV-1 RT connection and RNase H domains: Identification of new mutations in NRTI-treated patients.  PLoS ONE 3: e1781.     [Abstract]     [Full-text PDF article]

Brehm, J.H., Koontz, D., Meteer, J.D., Pathak, V., Sluis-Cremer, N., and Mellors, J.W.  (2007)  Selection of mutations in the connection and RNase H domains of human immunodeficiency virus type 1 reverse transcriptase that increase resistance to 3'-azido-3'-dideoxythymidine.  J. Virol. 81: 7852-7859.     [Abstract]     [Full-text PDF article]

Russell, R.A., and Pathak, V.K.  (2007)  Identification of two distinct human immunodeficiency virus type 1 Vif determinants critical for interactions with human APOBEC3G and APOBEC3F.  J. Virol. 81: 8201-8210.     [Abstract]     [Full-text PDF article]

Mbisa, J.L., Barr, R., Thomas, J.A., Vandergraaff, N., Dorweiler, I.J., Svarovskaia, E.S., Brown, W.L., Mansky, L.M., Gorelick, R.J., Harris, R.S., Engelman, A., and Pathak, V.K.  (2007)  Human immunodeficiency virus type 1 cDNAs produced in the presence of APOBEC3G exhibit defects in plus-strand DNA transfer and integration.  J. Virol. 81: 7099-7110.
[Abstract]     [Full-text PDF article]

Delviks-Frankenberry, K.A., Nikolenko, G.N., Barr, R., and Pathak, V.K.  (2007)  Mutations in human immunodeficiency virus type 1 RNase H primer grip enhance 3'-azido-3'-deoxythymidine resistance.  J. Virol. 81: 6837-6845.     [Abstract]     [Full-text PDF article]

Thomas, D.C., Voronin, Y.A., Nikolenko, G.N., Chen, J., Hu, W.-S., and Pathak, V.K.  (2007)  Determination of the ex vivo rates of human immunodeficiency virus type 1 reverse transcription by using novel strand-specific amplification analysis.  J. Virol. 81: 4798-4807.
[Abstract]     [Full-text PDF article]

Xu, H., Chertova, E., Chen, J., Ott, D.E., Roser, J.D., Hu, W.-S., and Pathak, V.K.  (2007)  Stoichiometry of the antiviral protein APOBEC3G in HIV-1 virions.  Virology 360: 247-256.
[Abstract]     [Full-text PDF article]

Nikolenko, G.N., Delviks-Frankenberry, K.A., Palmer, S., Maldarelli, F., Fivash, M.J., Jr., Coffin, J.M., and Pathak, V.K.  (2007)  Mutations in the connection domain of HIV-1 reverse transcriptase increase 3'-azido-3'-deoxythymidine resistance.  Proc. Natl. Acad. Sci. USA 104: 317-322.      [Abstract]     [Full-text PDF article]

Voronin, Y.A., Sidorov, I.A., and Pathak, V.K.  (2006)  A probability model predicting initiation efficiency of retroviral vectors with two primer-binding sites.  J. Theoret. Biol. 242: 347-355.
[Abstract]     [Full-text PDF article]

Boyko, V., Leavitt, M., Gorelick, R., Fu, W., Nikolaitchik, O., Pathak, V., Nagashima, K., and Hu, W.-S.  (2006)  Coassembly and complementation of Gag proteins from HIV-1 and HIV-2, two distinct human pathogens.  Mol. Cell 23: 281-287.
[Abstract]     [Full-text PDF article]

Krajewski, K., Zhang, Y., Parrish, D., Deschamps, J., Roller, P.P., and Pathak, V.K.  (2006)  New HIV-1 reverse transcriptase inhibitors based on a tricyclic benzothiophene scaffold: Synthesis, resolution, and inhibitory activity.  Bioorg. Med. Chem. Lett. 16: 3034-3038.
[Abstract]     [Full-text PDF article]

Fu, W., Dang, Q., Nagashima, K., Freed, E.O., Pathak, V.K., and Hu, W.-S.  (2006)  Effects of Gag mutation and processing on retroviral dimeric RNA maturation.  J. Virol. 80: 1242-1249.
[Abstract]     [Full-text PDF article]

Chen, J., Dang, Q., Unutmaz, D., Pathak, V.K., Maldarelli, F., Powell, D., and Hu, W.-S.  (2005)  Mechanisms of nonrandom human immunodeficiency virus type 1 infection and double infection: Preference in virus entry is important but is not the sole factor.  J. Virol. 79: 4140-4149.     [Abstract]     [Full-text PDF article]

Nikolenko, G.N., Palmer, S., Maldarelli, F., Mellors, J.W., Coffin, J.M., and Pathak, V.K.  (2005)  Mechanism for nucleoside analog-mediated abrogation of HIV-1 replication: Balance between RNase H activity and nucleotide excision.  Proc. Natl. Acad. Sci. USA 102: 2093-2098.     [Abstract]     [Full-text PDF article]

Mbisa, J.L., Nikolenko, G.N., and Pathak, V.K.  (2005)  Mutations in RNase H primer grip domain of murine leukemia virus reverse transcriptase decrease efficiency and accuracy of plus-strand DNA transfer.  J. Virol. 79: 419-427.
[Abstract]     [Full-text PDF article]

Williams, K.L., Zhang, Y., Shkriabai, N., Karki, R.G., Nicklaus, M.C., Kotrikadze, N., Hess, S., Le Grice, S.F.J., Craigie, R., Pathak, V.K., and Kvaratskhelia, M.  (2005)  Mass spectrometric analysis of the HIV-1 integrase:pyridoxal-5'-phosphate complex reveals a new binding site for a nucleotide inhibitor.  J. Biol. Chem. 280: 7949-7955.
[Abstract]     [Full-text PDF article]

Nikolenko, G.N., Svarovskaia, E.S., Delviks, K.A., and Pathak, V.K.  (2004)  Antiretroviral drug resistance mutations in human immunodeficiency virus type 1 reverse transcriptase increase template switching frequency.  J. Virol. 78:8761-8770.
[Abstract]     [Full-text PDF article]

Svarovskaia, E.S., Xu, H., Mbisa, J.L., Barr, R., Gorelick, R.J., Ono, A., Freed, E.O., Hu, W.-S., and Pathak, V.K.  (2004)  Human apolipoprotein B mRNA-editing enzyme-catalytic polypeptide-like 3G (APOBEC3G) is incorporated into HIV-1 virions through interactions with viral and nonviral RNAs.  J. Biol. Chem. 279: 35822-35828.
[Abstract]     [Full-text PDF article]

Voronin, Y.A., and Pathak, V.K.  (2004)  Frequent dual initiation in human immunodeficiency virus-based vectors containing two primer-binding sites: A quantitative in vivo assay for function of initiation complexes.  J. Virol. 78: 5402-5413.     [Abstract]     [Full-text PDF article]

Xu, H., Svarovskaia, E.S., Barr, R., Zhang, Y., Khan, M.A., Strebel, K., and Pathak, V.K.  (2004)  A single amino acid substitution in human APOBEC3G antiretroviral enzyme confers resistance to HIV-1 virion infectivity factor-induced depletion.  Proc. Natl. Acad. Sci. USA 101: 5652-5657.     [Abstract]     [Full-text PDF article]

Svarovskaia, E.S., Barr, R., Zhang, X., Pais, G., Marchand, C., Pommier, Y., Burke, T.R., Jr., and Pathak, V.K.  (2004)  Azido-containing diketo acid derivatives inhibit human immunodeficiency virus type 1 integrase in vivo and influence the frequency of deletions at two-long-terminal-repeat-circle junctions.  J. Virol. 78: 3210-3222.
[Abstract]     [Full-text PDF article]

Dang, Q., Chen, J., Unutmaz, D., Coffin, J.M., Pathak, V.K., Powell, D., KewalRamani, V.N., Maldarelli, F., and Hu, W.-S.  (2004)  Nonrandom HIV-1 infection and double infection via direct and cell-mediated pathways.  Proc. Natl. Acad. Sci. USA 101: 632-637.
[Abstract]     [Full-text PDF article]     [Supporting text]

Voronin, Y.A., and Pathak, V.K..  (2003)  Frequent dual initiation of reverse transcription in murine leukemia virus-based vectors containing two primer-binding sites.  Virology 312: 281-294.     [Abstract]     [Full-text PDF article]

Zhang, X., Pais, G.C., Svarovskaia, E.S., Marchand, C., Johnson, A.A., Karki, R.G., Nicklaus, M.C., Pathak, V.K., Pommier, Y., and Burke, T.R.  (2003)  Azido-containing aryl beta-diketo acid HIV-1 integrase inhibitors.  Bioorg. Med. Chem. Lett. 13: 1215-1219.
[Abstract]     [Full-text PDF article]

Hu, W.-S., Rhodes, T., Dang, Q., and Pathak, V.K.  (2003)  Retroviral recombination:  Review of genetic analyses.   Front. Biosci. 8: D143-D155.     [Abstract]     [Full-text HTML article]

Svarovskaia, E.S., Cheslock, S.R., Zhang, W.-H., Hu, W.-S., and Pathak, V.K.  (2003)  Retroviral mutation rates and reverse transcriptase fidelity.   Front. Biosci. 8: D117-D134.      [Abstract]     [Full-text HTML article]

Zhang, W.-H., Svarovskaia, E.S., Barr, R., and Pathak, V.K.  (2002)  Y586F mutation in murine leukemia virus reverse transcriptase decreases fidelity of DNA synthesis in regions associated with adenine--thymine tracts.  Proc. Natl. Acad. Sci. USA 99: 10090-10095.
[Abstract]     [Full-text PDF article]

Pais, G.C.G., Zhang, X., Marchand, C., Neamati, N., Cowansage, K., Svarovskaia, E.S., Pathak, V.K., Tang, Y., Nicklaus, M., Pommier, Y., and Burke, T.R., Jr.  (2002)  Structure activity of 3-aryl-1,3-diketo-containing compounds as HIV-1 integrase inhibitors.  J. Med. Chem. 45: 3184-3194.     [Abstract]     [Full-text PDF article]

Zhang, W.-H., Hwang, C.K., Hu, W.-S., Gorelick, R.J., and Pathak, V.K.  (2002)  Zinc finger domain of murine leukemia virus nucleocapsid protein enhances the rate of viral DNA synthesis in vivo.  J. Virol. 76: 7473-7484.     [Abstract]     [Full-text PDF article]

Hwang, C.K., Svarovskaia, E.S., and Pathak, V.K. (2001) Dynamic copy choice: Steady state between murine leukemia virus polymerase and polymerase-dependent RNase H activity determines frequency of in vivo template switching. Proc. Natl. Acad. Sci. USA 98:12209-12214.      [Abstract]     [Full-text PDF article]

Hu, W.-S., and Pathak, V.K. (2000) Design of retroviral vectors and helper cells for gene therapy. Pharmacol. Rev. 52: 493-511.      [Abstract]     [Full-text PDF article]

Halvas, E.K., Svarovskaia, E.S., and Pathak, V.K. (2000) Role of murine leukemia virus reverse transcriptase deoxyribonucleoside triphosphate-binding site in retroviral replication and in vivo fidelity. J. Virol. 74: 10349-10358.      [Abstract]     [Full-text PDF article]

Svarovskaia, E.S., Delviks, K.A., Hwang, C.K., and Pathak, V.K. (2000) Structural determinants of murine leukemia virus reverse transcriptase that affect the frequency of template switching. J. Virol. 74: 7171-7178.      [Abstract]     [Full-text PDF article]

Halvas, E.K., Svarovskaia, E.S., Freed, E.O., and Pathak, V.K. (2000) Wild-type and YMDD mutant murine leukemia virus reverse transcriptases are resistant to 2’,3’-dideoxy-3’-thiacytidine. J. Virol. 74: 6669-6674.      [Abstract]     [Full-text PDF article]

Halvas, E.K., Svarovskaia, E.S., and Pathak, V.K. (2000) Development of an in vivo assay to identify structural determinants in murine leukemia virus reverse transcriptase important for fidelity. J. Virol. 74: 312-319.      [Abstract]     [Full-text PDF article]

Delviks, K.D., and Pathak, V.K. (1999) Development of murine leukemia virus-based self-activating vectors that efficiently delete the selectable drug resistance gene during reverse transcription. J. Virol. 73: 8837-8842.      [Abstract]     [Full-text PDF article]

Delviks, K.D., and Pathak, V.K. (1999) Effect of distance between homologous sequences and 3' homology on the frequency of retroviral reverse transcriptase template switching. J. Virol. 73: 7923-7932.      [Abstract]     [Full-text PDF article]

Pathak, V.K., and Hu, W.-S. (1998) Mutation, recombination, and dynamics of HIV-1 in vivo. In: Human Immunodeficiency Viruses: Biology, Immunology, and Molecular Biology (Nitin Saksena, Ed.), Medical Systems SpA, pp. 299-330.

Julias, J.G., and Pathak, V.K. (1998) Deoxyribonucleoside triphosphate pool imbalances in vivo are associated with an increased retroviral mutation rate. J. Virol. 72: 7941-7949.
[Abstract]     [Full-text PDF article]

Hu, W.-S., Bowman, E.H., Delviks, K.A., and Pathak, V.K. (1997) Homologous recombination occurs in a distinct retroviral subpopulation and exhibits high negative interference. J. Virol. 71: 6028-6036.      [Abstract]     [Full-text PDF article]


Last modified: 16 November 2018


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