Baek Kim

Summary

Affiliation: University of Rochester
Country: USA

Publications

  1. ncbi Thermal effects on reverse transcription: improvement of accuracy and processivity in cDNA synthesis
    C M Malboeuf
    University of Rochester Medical Center, Rochester, NY, USA
    Biotechniques 30:1074-8, 1080, 1082, passim. 2001
  2. pmc Restriction of diverse retroviruses by SAMHD1
    Thomas Gramberg
    Microbiology Department, New York University School of Medicine, New York, USA
    Retrovirology 10:26. 2013
  3. pmc Interferon block to HIV-1 transduction in macrophages despite SAMHD1 degradation and high deoxynucleoside triphosphates supply
    Loïc Dragin
    INSERM, U1016, Institut Cochin, 22 rue Mechain, Paris, 75014, France
    Retrovirology 10:30. 2013
  4. pmc Evidence for IFNα-induced, SAMHD1-independent inhibitors of early HIV-1 infection
    Caroline Goujon
    Department of Infectious Diseases, King s College London, 2nd Floor, Borough Wing, Guy s Hospital, London Bridge, London SE1 9RT, UK
    Retrovirology 10:23. 2013
  5. pmc SAMHD1 restricts HIV-1 infection in dendritic cells (DCs) by dNTP depletion, but its expression in DCs and primary CD4+ T-lymphocytes cannot be upregulated by interferons
    Corine St Gelais
    Center for Retrovirus Research, Department of Veterinary Biosciences, The Ohio State University, 1900 Coffey Road, Columbus, Ohio 43210, USA
    Retrovirology 9:105. 2012
  6. pmc Tight interplay among SAMHD1 protein level, cellular dNTP levels, and HIV-1 proviral DNA synthesis kinetics in human primary monocyte-derived macrophages
    Baek Kim
    Department of Microbiology and Immunology, University of Rochester Medical Center, Rochester, New York 14642, USA
    J Biol Chem 287:21570-4. 2012
  7. pmc Akt inhibitors as an HIV-1 infected macrophage-specific anti-viral therapy
    Pauline Chugh
    Department of Microbiology and Immunology, School of Medicine, University of Rochester Medical Center 601 Elmwood Avenue Box 672 Rochester, New York 14742 USA
    Retrovirology 5:11. 2008
  8. pmc Nef gene evolution from a single transmitted strain in acute SIV infection
    Benjamin N Bimber
    Department of Pathology and Laboratory Medicine, Wisconsin National Primate Research Center, University of Wisconsin Madison, Madison, Wisconsin 53706, USA
    Retrovirology 6:57. 2009
  9. ncbi New human immunodeficiency virus, type 1 reverse transcriptase (HIV-1 RT) mutants with increased fidelity of DNA synthesis. Accuracy, template binding, and processivity
    B Kim
    Department of Microbiology and Immunology, University of Rochester, Rochester, New York 14642, USA
    J Biol Chem 274:27666-73. 1999
  10. ncbi Reduced dNTP interaction of human immunodeficiency virus type 1 reverse transcriptase promotes strand transfer
    Darwin J Operario
    Departments of Microbiology and Immunology, University of Rochester Medical Center, 601 Elmwood Avenue, Rochester, NY 14642, USA
    J Biol Chem 281:32113-21. 2006

Collaborators

Detail Information

Publications58

  1. ncbi Thermal effects on reverse transcription: improvement of accuracy and processivity in cDNA synthesis
    C M Malboeuf
    University of Rochester Medical Center, Rochester, NY, USA
    Biotechniques 30:1074-8, 1080, 1082, passim. 2001
    ....
  2. pmc Restriction of diverse retroviruses by SAMHD1
    Thomas Gramberg
    Microbiology Department, New York University School of Medicine, New York, USA
    Retrovirology 10:26. 2013
    ..While SAMHD1 has been shown to restrict HIV-1 and SIV, the breadth of its restriction is not known and whether other viruses have a means to counteract the restriction has not been determined...
  3. pmc Interferon block to HIV-1 transduction in macrophages despite SAMHD1 degradation and high deoxynucleoside triphosphates supply
    Loïc Dragin
    INSERM, U1016, Institut Cochin, 22 rue Mechain, Paris, 75014, France
    Retrovirology 10:30. 2013
    ..Here we wondered whether IFN-α affects SAMHD1 expression, Vpx-induced SAMHD1 degradation, Vpx-mediated rescue of HIV-1 transduction and the dNTP supply in monocyte-derived macrophages (MDMs)...
  4. pmc Evidence for IFNα-induced, SAMHD1-independent inhibitors of early HIV-1 infection
    Caroline Goujon
    Department of Infectious Diseases, King s College London, 2nd Floor, Borough Wing, Guy s Hospital, London Bridge, London SE1 9RT, UK
    Retrovirology 10:23. 2013
    ..Myeloid cell infection by HIV-1 is enhanced by HIV-2/SIVSM Vpx, which promotes SAMHD1 degradation, or by exogenous deoxyribonucleoside (dN) addition...
  5. pmc SAMHD1 restricts HIV-1 infection in dendritic cells (DCs) by dNTP depletion, but its expression in DCs and primary CD4+ T-lymphocytes cannot be upregulated by interferons
    Corine St Gelais
    Center for Retrovirus Research, Department of Veterinary Biosciences, The Ohio State University, 1900 Coffey Road, Columbus, Ohio 43210, USA
    Retrovirology 9:105. 2012
    ..SAMHD1 has been reported as a type I interferon (IFN)-inducible protein, but whether type I IFNs upregulate SAMHD1 expression in primary DCs and CD4+ T-lymphocytes is unknown...
  6. pmc Tight interplay among SAMHD1 protein level, cellular dNTP levels, and HIV-1 proviral DNA synthesis kinetics in human primary monocyte-derived macrophages
    Baek Kim
    Department of Microbiology and Immunology, University of Rochester Medical Center, Rochester, New York 14642, USA
    J Biol Chem 287:21570-4. 2012
    ..Overall, this study demonstrates a tight interplay between SAMHD1 level, dNTP levels, and HIV proviral DNA synthesis kinetics in MDMs...
  7. pmc Akt inhibitors as an HIV-1 infected macrophage-specific anti-viral therapy
    Pauline Chugh
    Department of Microbiology and Immunology, School of Medicine, University of Rochester Medical Center 601 Elmwood Avenue Box 672 Rochester, New York 14742 USA
    Retrovirology 5:11. 2008
    ..Unlike CD4+ T cells, HIV-1 infected macrophages exhibit extended life span even upon stress, consistent with their in vivo role as long-lived HIV-1 reservoirs...
  8. pmc Nef gene evolution from a single transmitted strain in acute SIV infection
    Benjamin N Bimber
    Department of Pathology and Laboratory Medicine, Wisconsin National Primate Research Center, University of Wisconsin Madison, Madison, Wisconsin 53706, USA
    Retrovirology 6:57. 2009
    ....
  9. ncbi New human immunodeficiency virus, type 1 reverse transcriptase (HIV-1 RT) mutants with increased fidelity of DNA synthesis. Accuracy, template binding, and processivity
    B Kim
    Department of Microbiology and Immunology, University of Rochester, Rochester, New York 14642, USA
    J Biol Chem 274:27666-73. 1999
    ..We discuss relationships of fidelity, template binding, and processivity in these and other HIV RT mutants...
  10. ncbi Reduced dNTP interaction of human immunodeficiency virus type 1 reverse transcriptase promotes strand transfer
    Darwin J Operario
    Departments of Microbiology and Immunology, University of Rochester Medical Center, 601 Elmwood Avenue, Rochester, NY 14642, USA
    J Biol Chem 281:32113-21. 2006
    ..Rather, kinetic interference leading to stalled DNA synthesis likely enhanced transfers. These results suggest that the RT-dNTP substrate interaction mechanistically influences strand transfer and recombination of HIV-1 RT...
  11. pmc Macrophage tropism of HIV-1 depends on efficient cellular dNTP utilization by reverse transcriptase
    Tracy L Diamond
    Department of Microbiology and Immunology, University of Rochester Medical Center, Rochester, New York 14642, USA
    J Biol Chem 279:51545-53. 2004
    ....
  12. pmc Reduced dNTP binding affinity of 3TC-resistant M184I HIV-1 reverse transcriptase variants responsible for viral infection failure in macrophage
    Varuni K Jamburuthugoda
    Department of Microbiology and Immunology, University of Rochester Medical Center, 601 Elmwood Avenue, Rochester, NY 14642, USA
    J Biol Chem 283:9206-16. 2008
    ..This can restrict ground state dNTP binding and lead to inefficient DNA synthesis particularly at low dNTP concentrations, ultimately contributing to viral replication failure in macrophage and instability in vivo of the M184I mutation...
  13. pmc Apparent defects in processive DNA synthesis, strand transfer, and primer elongation of Met-184 mutants of HIV-1 reverse transcriptase derive solely from a dNTP utilization defect
    Lu Gao
    Department of Biochemistry and Biophysics, University of Rochester Medical Center, Rochester, NY 14642, USA
    J Biol Chem 283:9196-205. 2008
    ..These latter results are consistent with an observed higher rate of recombination by HIV-1 strains with Met-184 mutations...
  14. pmc Mechanistic differences in RNA-dependent DNA polymerization and fidelity between murine leukemia virus and HIV-1 reverse transcriptases
    Mark Skasko
    Department of Microbiology and Immunology, University of Rochester, Rochester, New York 14642, USA
    J Biol Chem 280:12190-200. 2005
    ..The implications of these kinetic differences between MuLV and HIV-1 RTs on viral cell type specificity and mutagenesis are discussed...
  15. pmc Abundant non-canonical dUTP found in primary human macrophages drives its frequent incorporation by HIV-1 reverse transcriptase
    Edward M Kennedy
    Department of Microbiology and Immunology, University of Rochester Medical Center, Rochester, New York 14642, USA
    J Biol Chem 286:25047-55. 2011
    ..The data presented demonstrates that the non-canonical dUTP was abundant relative to TTP, and efficiently incorporated during HIV-1 reverse transcription, particularly in non-dividing macrophages...
  16. ncbi Evidence that HIV-1 reverse transcriptase employs the DNA 3' end-directed primary/secondary RNase H cleavage mechanism during synthesis and strand transfer
    Vandana Purohit
    Department of Biochemistry and Biophysics, University of Rochester School of Medicine and Dentistry, Rochester, New York 14642, USA
    J Biol Chem 280:40534-43. 2005
    ..Overall, results indicate RT can catalyze pause-associated DNA 3' end-directed primary and secondary cuts during synthesis and these cuts can contribute to strand transfer by creation of an invasion site...
  17. ncbi A role for dNTP binding of human immunodeficiency virus type 1 reverse transcriptase in viral mutagenesis
    Kellie K Weiss
    Department of Microbiology and Immunology, University of Rochester Medical Center, 601 Elmwood Avenue, Box 672, Rochester, New York 14642, USA
    Biochemistry 43:4490-500. 2004
    ..8- and 5.7-fold higher fidelities than wild-type viruses, respectively, indicating that the molecular interaction between HIV-1 RT and the dNTP substrate contributes to viral mutagenesis...
  18. pmc Anti-HIV host factor SAMHD1 regulates viral sensitivity to nucleoside reverse transcriptase inhibitors via modulation of cellular deoxyribonucleoside triphosphate (dNTP) levels
    Sarah M Amie
    Department of Microbiology and Immunology, University of Rochester Medical Center, Rochester, New York 14642, USA
    J Biol Chem 288:20683-91. 2013
    ....
  19. pmc Mechanistic interplay among the M184I HIV-1 reverse transcriptase mutant, the central polypurine tract, cellular dNTP concentrations and drug sensitivity
    Sarah K Van Cor-Hosmer
    Department of Microbiology and Immunology, University of Rochester Medical Center, 601 Elmwood Avenue, Rochester, NY 14642, USA
    Virology 406:253-60. 2010
    ..These data support a mechanistic interaction between cPPT and M184I RT with respect to viral replication and sensitivity to 3TC...
  20. pmc Biochemical impact of the host adaptation-associated PB2 E627K mutation on the temperature-dependent RNA synthesis kinetics of influenza A virus polymerase complex
    Shilpa Aggarwal
    Department of Microbiology and Immunology, University of Rochester Medical Center, Rochester, New York 14642, USA
    J Biol Chem 286:34504-13. 2011
    ..In conclusion, our study suggests that the amino acid sequence variations at residue 627 of PB2 subunit can directly alter the enzyme kinetics of influenza polymerase...
  21. ncbi Kinetic evidence for interaction of human immunodeficiency virus type 1 reverse transcriptase with the 3'-OH of the incoming dTTP substrate
    Varuni K Jamburuthugoda
    Department of Biochemistry and Biophysics, University of Rochester, 601 Elmwood Avenue, Box 672, Rochester, New York 14642, USA
    Biochemistry 44:10635-43. 2005
    ..The kinetic data presented in this report demonstrate the functional role of the Q151 residue in HIV-1 RT interaction with dTTP and its analogues containing chemical modifications at the 3'-C of the sugar moiety...
  22. pmc Selective modification of adenovirus replication can be achieved through rational mutagenesis of the adenovirus type 5 DNA polymerase
    Cristina Capella
    Department of Microbiology and Immunology, University of Rochester School of Medicine and Dentistry, Rochester, New York, USA
    J Virol 86:10484-93. 2012
    ....
  23. pmc Contribution of SAM and HD domains to retroviral restriction mediated by human SAMHD1
    Tommy E White
    Department of Microbiology and Immunology, Albert Einstein College of Medicine Bronx, NY 10461, USA
    Virology 436:81-90. 2013
    ....
  24. pmc Effect of ribonucleotides embedded in a DNA template on HIV-1 reverse transcription kinetics and fidelity
    Waaqo Daddacha
    Department of Microbiology and Immunology, University of Rochester Medical Center, Rochester, New York 14642, USA
    J Biol Chem 288:12522-32. 2013
    ..Together these data suggest that rNMPs embedded in DNA templates may influence reverse transcription kinetics and impact viral mutagenesis in macrophages...
  25. pmc The impact of molecular manipulation in residue 114 of human immunodeficiency virus type-1 reverse transcriptase on dNTP substrate binding and viral replication
    Sarah K Van Cor-Hosmer
    Department of Microbiology and Immunology, University of Rochester Medical Center, Rochester, NY 14642, USA
    Virology 422:393-401. 2012
    ..Together these data support that the A114 residue of HIV-1 RT plays a key mechanistic role in the dNTP binding of HIV-1 RT and the unique viral infectivity of target cell types with low dNTP pools...
  26. pmc Restricted 5'-end gap repair of HIV-1 integration due to limited cellular dNTP concentrations in human primary macrophages
    Sarah K Van Cor-Hosmer
    From the Department of Microbiology and Immunology, University of Rochester, Rochester, New York 14627
    J Biol Chem 288:33253-62. 2013
    ..Taken together, these results suggest that the low dNTP concentrations found in macrophages and monocytes can restrict the repair steps necessary for HIV-1 integration. ..
  27. pmc Frequent incorporation of ribonucleotides during HIV-1 reverse transcription and their attenuated repair in macrophages
    Edward M Kennedy
    Department of Microbiology and Immunology, University of Rochester Medical Center, Rochester, New York 14642, USA
    J Biol Chem 287:14280-8. 2012
    ..Most importantly, the frequent incorporation of rNMPs makes them an ideal candidate for development of a new class of HIV RT inhibitors...
  28. pmc Deoxynucleoside triphosphate incorporation mechanism of foamy virus (FV) reverse transcriptase: implications for cell tropism of FV
    Jose Santos-Velazquez
    Department of Microbiology and Immunology, University of Rochester Medical Center, Rochester, NY 14642, USA
    J Virol 82:8235-8. 2008
    ..These three RTs, however, show similar catalytic activities. In conclusion, PFV RT displays mechanistic distinctions in comparison to HIV-1 RT and shares close similarity to MuLV RT...
  29. pmc Molecular interactions and trafficking of influenza A virus polymerase proteins analyzed by specific monoclonal antibodies
    Leslie A MacDonald
    Department of Microbiology and Immunology, University of Rochester Medical Center, Rochester, NY 14642, USA
    Virology 426:51-9. 2012
    ..These results suggest that PA-PB1 interactions induce a conformational change in PA, which could be required for its nuclear translocation...
  30. pmc The mechanistic architecture of thermostable Pyrococcus furiosus family B DNA polymerase motif A and its interaction with the dNTP substrate
    Edward M Kennedy
    Department of Microbiology and Immunology, University of Rochester Medical Center, Rochester, New York 14642, USA
    Biochemistry 48:11161-8. 2009
    ..In summary, these data show that modulation of motif A can greatly shift both the steady and pre-steady state kinetics of the enzyme as well as the fidelity of Pfu Pol...
  31. doi Mechanistic variations among reverse transcriptases of simian immunodeficiency virus variants isolated from African green monkeys
    Mark Skasko
    Department of Microbiology and Immunology, University of Rochester Medical Center, 601 Elmwood Avenue, Box 672, Rochester, New York 14642, USA
    Biochemistry 48:5389-95. 2009
    ..This study reports that simultaneous changes in dNTP binding affinity and fidelity of RTs appear to occur among natural SIV variants isolated from African green monkeys...
  32. ncbi Mechanisms that prevent template inactivation by HIV-1 reverse transcriptase RNase H cleavages
    Vandana Purohit
    Department of Biochemistry and Biophysics, University of Rochester, Rochester, New York 14642, USA
    J Biol Chem 282:12598-609. 2007
    ..Considered together, the data reveal a role for NC and other factors that enhance DNA synthesis in the prevention of RNase H cleavages that could be detrimental to viral replication...
  33. pmc Intracellular nucleotide levels and the control of retroviral infections
    Sarah M Amie
    Department of Microbiology and Immunology, University of Rochester Medical Center, Rochester, NY, USA
    Virology 436:247-54. 2013
    ..Here, we discuss a series of mechanistic and virological studies that have contributed to conceptually linking cellular dNTP levels and the adaptation of lentiviral replication in nondividing cells...
  34. pmc Endonuclease substrate selectivity characterized with full-length PA of influenza A virus polymerase
    Erin Noble
    Department of Microbiology and Immunology, University of Rochester, Rochester, NY 14642, USA
    Virology 433:27-34. 2012
    ..Finally, we confirmed the observed endonuclease activity of the full-length PA with a FRET-based assay...
  35. pmc Leishmania induces survival, proliferation and elevated cellular dNTP levels in human monocytes promoting acceleration of HIV co-infection
    David J Mock
    Department of Biomolecular Genetics, University of Rochester Medical Center, Rochester, New York, United States of America
    PLoS Pathog 8:e1002635. 2012
    ..In conclusion, Leishmania infection of primary human monocytes promotes the induction of an S phase environment and elevated dNTP levels with notable elevation of HIV-1 expression in the setting of coinfection...
  36. pmc PA residues in the 2009 H1N1 pandemic influenza virus enhance avian influenza virus polymerase activity in mammalian cells
    Kendra A Bussey
    Department of Microbiology and Immunology, University of Rochester School of Medicine and Dentistry, 601 Elmwood Ave, Box 672, Rochester, NY 14642, USA
    J Virol 85:7020-8. 2011
    ..Our results suggest that multiple mutations in PA, which were rarely present in previous influenza isolates, are involved in mammalian adaptation and pathogenicity of the 2009 pH1N1...
  37. ncbi Infection of human immunodeficiency virus and intracellular viral Tat protein exert a pro-survival effect in a human microglial cell line
    Pauline Chugh
    Department of Microbiology and Immunology, School of Medicine, University of Rochester Medical Center, 601 Elmwood Avenue, Box 672, Rochester, NY 14742, USA
    J Mol Biol 366:67-81. 2007
    ..We propose that the expression of Tat may enable HIV-1 infected microglia to survive throughout the course of infection, leading to persistent HIV-1 production and infection in the central nervous system...
  38. pmc Ribonucleoside triphosphates as substrate of human immunodeficiency virus type 1 reverse transcriptase in human macrophages
    Edward M Kennedy
    Department of Microbiology and Immunology, University of Rochester Medical Center, Rochester, New York 14642, USA
    J Biol Chem 285:39380-91. 2010
    ..This study reveals that the biochemical landscape of HIV-1 replication in macrophages is unique and that ribonucleoside chain terminators may be a new class of anti-HIV-1 agents specifically targeting viral macrophage infection...
  39. pmc Contribution of oligomerization to the anti-HIV-1 properties of SAMHD1
    Alberto Brandariz-Nuñez
    Department of Microbiology and Immunology, Albert Einstein College of Medicine, 1301 Morris Park Price Center 501, Bronx, NY 10461, USA
    Retrovirology 10:131. 2013
    ..We have previously demonstrated that SAMHD1 oligomerizes in mammalian cells by immunoprecipitation. Here we investigated the contribution of SAMHD1 oligomerization to retroviral restriction...
  40. pmc Compensatory role of human immunodeficiency virus central polypurine tract sequence in kinetically disrupted reverse transcription
    Mark Skasko
    Department of Microbiology and Immunology, University of Rochester Medical Center, Rochester, NY 14642, USA
    J Virol 82:7716-20. 2008
    ....
  41. pmc PB2 residue 271 plays a key role in enhanced polymerase activity of influenza A viruses in mammalian host cells
    Kendra A Bussey
    Department of Microbiology and Immunology, University of Rochester School of Medicine, 601 Elmwood Ave, Box 672, Rochester, NY 14642, USA
    J Virol 84:4395-406. 2010
    ..Our results clearly indicate the contribution of PB2 amino acid 271 to enhanced polymerase activity and viral growth in mammalian hosts...
  42. pmc The retroviral restriction ability of SAMHD1, but not its deoxynucleotide triphosphohydrolase activity, is regulated by phosphorylation
    Tommy E White
    Department of Microbiology and Immunology, Albert Einstein College of Medicine, Bronx, NY 10461, USA
    Cell Host Microbe 13:441-51. 2013
    ..Collectively, these findings indicate that phosphorylation modulates the ability of SAMHD1 to block retroviral infection without affecting its ability to decrease cellular dNTP levels...
  43. pmc Altered strand transfer activity of a multiple-drug-resistant human immunodeficiency virus type 1 reverse transcriptase mutant with a dipeptide fingers domain insertion
    Laura A Nguyen
    Department of Pathology and Laboratory Medicine, University of Rochester Medical Center, Rochester, NY, USA
    J Mol Biol 415:248-62. 2012
    ....
  44. pmc Biophysical analysis of influenza A virus RNA promoter at physiological temperatures
    Erin Noble
    Department of Microbiology and Immunology, University of Rochester, Rochester, New York 14642, USA
    J Biol Chem 286:22965-70. 2011
    ..These data support that these short, conserved promoter sequences form a stable complex at physiological temperatures, and this complex likely is important for polymerase recognition and viral replication...
  45. pmc GTP is the primary activator of the anti-HIV restriction factor SAMHD1
    Sarah M Amie
    Department of Microbiology and Immunology, University of Rochester Medical Center, Rochester, New York 14642, USA
    J Biol Chem 288:25001-6. 2013
    ..This study provides further insights into the regulation of SAMHD1 with regard to allosteric activation and active site specificity. ..
  46. pmc Metabolite profiles of human immunodeficiency virus infected CD4+ T cells and macrophages using LC-MS/MS analysis
    Joseph A Hollenbaugh
    Department of Microbiology and Immunology, University of Rochester Medical Center, Rochester, NY, USA
    Virology 415:153-9. 2011
    ..This study also validates the LC-MS/MS technology as an effective metabolomic approach to monitor various metabolic alterations made by HIV-1 infection...
  47. ncbi Comparison of DNA polymerase activities between recombinant feline immunodeficiency and leukemia virus reverse transcriptases
    Darwin J Operario
    Department of Microbiology and Immunology, School of Medicine and Dentistry, University of Rochester, 601 Elmwood Avenue, Box 672, Rochester, NY 14642, USA
    Virology 335:106-21. 2005
    ..This study represents the comprehensive enzymatic characterization of RTs from a lentivirus and a non-lentivirus retrovirus from the same host species. The data presented here support enzymatic divergences seen among retroviral RTs...
  48. ncbi Modification of human immunodeficiency virus type 1 reverse transcriptase to target cells with elevated cellular dNTP concentrations
    Varuni K Jamburuthugoda
    Department of Microbiology and Immunology, University of Rochester Medical Center, New York 14642, USA
    J Biol Chem 281:13388-95. 2006
    ....
  49. pmc Biochemical characterization of enzyme fidelity of influenza A virus RNA polymerase complex
    Shilpa Aggarwal
    Department of Microbiology and Immunology, University of Rochester Medical Center, Rochester, New York, United States of America
    PLoS ONE 5:e10372. 2010
    ..Importantly, however, the actual enzyme fidelity of IAV RNA polymerase has never been characterized...
  50. ncbi Mechanistic understanding of an altered fidelity simian immunodeficiency virus reverse transcriptase mutation, V148I, identified in a pig-tailed macaque
    Tracy L Diamond
    Department of Microbiology and Immunology, University of Rochester, New York, 14642, USA
    J Biol Chem 278:29913-24. 2003
    ....
  51. pmc HIV-1 reverse transcriptase dissociates during strand transfer
    John M Muchiri
    Department of Microbiology and Immunology, University of Rochester School of Medicine and Dentistry, Rochester, NY 14642, USA
    J Mol Biol 412:354-64. 2011
    ..This implies that common sequence variations among RTs are unlikely to alter dissociation feature...
  52. pmc Host factor SAMHD1 restricts DNA viruses in non-dividing myeloid cells
    Joseph A Hollenbaugh
    Department of Microbiology and Immunology, University of Rochester, Rochester, New York, United States of America
    PLoS Pathog 9:e1003481. 2013
    ..Therefore, this study suggests that SAMHD1 is a potential innate anti-viral player that suppresses the replication of a wide range of DNA viruses, as well as retroviruses, which infect non-dividing myeloid cells. ..
  53. pmc The human H5N1 influenza A virus polymerase complex is active in vitro over a broad range of temperatures, in contrast to the WSN complex, and this property can be attributed to the PB2 subunit
    Birgit G Bradel-Tretheway
    Department of Microbiology and Immunology, University of Rochester Medical Center, Rochester, NY 14642, USA
    J Gen Virol 89:2923-32. 2008
    ..These results show that PB2 plays an important role in regulating the temperature optimum for IAV RNA polymerase activity, possibly due to effects on the functional stability of the 3P complex...
  54. ncbi Activation of the ATR-mediated DNA damage response by the HIV-1 viral protein R
    Mikhail Roshal
    Department of Microbiology and Immunology, University of Rochester Cancer Center, Rochester, New York 14642, USA
    J Biol Chem 278:25879-86. 2003
    ..These observations are important toward understanding how HIV infection promotes cell cycle disruption, cell death, and ultimately, CD4+ lymphocyte depletion...
  55. ncbi Identification of a simian immunodeficiency virus reverse transcriptase variant with enhanced replicational fidelity in the late stage of viral infection
    T L Diamond
    Department of Microbiology and Immunology, University of Rochester, Rochester, New York 14642 and the Department of Virology and Immunology, Southwest Foundation for Biomedical Research, San Antonio, Texas 78245-0549
    J Biol Chem 276:23624-31. 2001
    ..In addition, our sequence analysis of these two RT genes proposes possible structural strategies that the virus may employ to alter RT fidelity...
  56. pmc The ataxia telangiectasia-mutated and Rad3-related protein is dispensable for retroviral integration
    Jason L Dehart
    Division of Cellular Biology and Immunology, Department of Pathology, University of Utah School of Medicine, 30 N 1900 East, SOM 5C210, Salt Lake City, UT 84132, USA
    J Virol 79:1389-96. 2005
    ..We conclude that cells in which ATR has been depleted are competent for retroviral integration. We also conclude that the presence of Vpr as a virion-bound protein does not enhance integration of a lentivirus vector in dividing cells...
  57. ncbi Mechanistic insights into the role of Val75 of HIV-1 reverse transcriptase in misinsertion and mispair extension fidelity of DNA synthesis
    Tania Matamoros
    Centro de Biologia Molecular Severo Ochoa, Consejo Superior de Investigaciones Cientificas, Universidad Autonoma de Madrid, 28049 Madrid, Spain
    J Mol Biol 375:1234-48. 2008
    ..Altogether, these data suggest that Val75 interactions with the 5' template overhang are important determinants of fidelity...
  58. pmc HIV-1 Vpr-induced apoptosis is cell cycle dependent and requires Bax but not ANT
    Joshua L Andersen
    Department of Pathology, University of Utah School of Medicine, Salt Lake City, Utah, United States of America
    PLoS Pathog 2:e127. 2006
    ....

Research Grants15

  1. Targeting PI3K/Akt Cell Survival Pathway as a Novel Anti-HIV Therapy
    Baek Kim; Fiscal Year: 2010
    ..This application proposes to identify new antiviral strategies to specifically eradicate long-living HIV-1 reservoirs, which can minimize persistent viral production and infection in the HIV-1 infected patients. ..
  2. Novel oncolytic adenovirus for pancreatic therapy
    Baek Kim; Fiscal Year: 2007
    ..This application proposes to develop a novel gene therapy approach employing oncolytic adenovirus replicating specifically in cancer cells. ..
  3. Replicational Fidelity and Lentiviral Pathogenesis
    Baek Kim; Fiscal Year: 2007
    ..This proposed work is expected to provide insight into the impact of HIV-1 RT on a range of key biological features of HIV- 1: cell tropism, genomic mutability, recombination and pathogenesis. ..
  4. HIV-1 Vpr Induced dNTP Biosynthesis and DNA Gap Repair
    Baek Kim; Fiscal Year: 2005
    ..This study will 1) elucidate a mechanism that HIV-1 employs to achieve its unique ability to infect non-dividing cells and 2) identify host repair proteins that may be potential antiviral targets. ..
  5. Replication fidelity and lentiviral pathogenesis
    Baek Kim; Fiscal Year: 2005
    ..These proposed studies will enhance our knowledge of the genetic role of RT in the evolution, host immune selection and pathogenesis of immunodeficiency viruses. ..
  6. Replicational Fidelity and Lentiviral Pathogenesis
    Baek Kim; Fiscal Year: 2011
    ..This proposed work is expected to provide insight into the impact of HIV-1 RT on a range of key biological features of HIV- 1: cell tropism, genomic mutability, recombination and pathogenesis. ..