Atze T Das

Summary

Affiliation: Academic Medical Center
Country: The Netherlands

Publications

  1. pmc Tet-On Systems For Doxycycline-inducible Gene Expression
    Atze T Das
    Laboratory of Experimental Virology, Academic Medical Center, Meibergdreef 15, 1105 AZ Amsterdam, The Netherlands
    Curr Gene Ther 16:156-67. 2016
  2. doi request reprint Conditionally replicating HIV and SIV variants
    Atze T Das
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam CINIMA, Academic Medical Center, University of Amsterdam, Amsterdam, The Netherlands Electronic address
    Virus Res 216:66-75. 2016
  3. doi request reprint Selecting the optimal Tet-On system for doxycycline-inducible gene expression in transiently transfected and stably transduced mammalian cells
    Atze T Das
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam CINIMA, Academic Medical Center, University of Amsterdam, Amsterdam, The Netherlands
    Biotechnol J 11:71-9. 2016
  4. pmc Opening of the TAR hairpin in the HIV-1 genome causes aberrant RNA dimerization and packaging
    Atze T Das
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam CINIMA, Academic Medical Center, University of Amsterdam, Meibergdreef 15, 1105 AZ, Amsterdam, The Netherlands
    Retrovirology 9:59. 2012
  5. ncbi request reprint Conditional live virus as a novel approach towards a safe live attenuated HIV vaccine
    Atze T Das
    Department of Human Retrovirology, Academic Medical Center, University of Amsterdam, The Netherlands
    Expert Rev Vaccines 1:293-301. 2002
  6. pmc The HIV-1 Tat protein has a versatile role in activating viral transcription
    Atze T Das
    Laboratory of Experimental Virology, Academic Medical Center, Meibergdreef 15, 1105 AZ Amsterdam, The Netherlands
    J Virol 85:9506-16. 2011
  7. pmc Optimization of the doxycycline-dependent simian immunodeficiency virus through in vitro evolution
    Atze T Das
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam CINIMA, Academic Medical Center of the University of Amsterdam, The Netherlands
    Retrovirology 5:44. 2008
  8. pmc Construction of a doxycycline-dependent simian immunodeficiency virus reveals a nontranscriptional function of tat in viral replication
    Atze T Das
    Laboratory of Experimental Virology, Academic Medical Center, Room K3 106, Meibergdreef 15, 1105 AZ Amsterdam, The Netherlands
    J Virol 81:11159-69. 2007
  9. pmc The TAR hairpin of human immunodeficiency virus type 1 can be deleted when not required for Tat-mediated activation of transcription
    Atze T Das
    Laboratory of Experimental Virology, Department of Medical Microbiology, Academic Medical Center of Univerisity of Amsterdam, Amsterdam, The Netherlands
    J Virol 81:7742-8. 2007
  10. ncbi request reprint The genetic stability of a conditional live HIV-1 variant can be improved by mutations in the Tet-On regulatory system that restrain evolution
    Xue Zhou
    Department of Human Retrovirology, Academic Medical Center, University of Amsterdam, Meibergdreef 15, 1105 AZ Amsterdam, The Netherlands
    J Biol Chem 281:17084-91. 2006

Collaborators

Detail Information

Publications53

  1. pmc Tet-On Systems For Doxycycline-inducible Gene Expression
    Atze T Das
    Laboratory of Experimental Virology, Academic Medical Center, Meibergdreef 15, 1105 AZ Amsterdam, The Netherlands
    Curr Gene Ther 16:156-67. 2016
    ..These optimized rtTA variants require less dox for activation, which will reduce side effects and allow gene control in tissues where a relatively low dox level can be reached, such as the brain. ..
  2. doi request reprint Conditionally replicating HIV and SIV variants
    Atze T Das
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam CINIMA, Academic Medical Center, University of Amsterdam, Amsterdam, The Netherlands Electronic address
    Virus Res 216:66-75. 2016
    ..These viruses can be used as a tool in HIV and SIV biology studies and in vaccine research. We review how HIV-rtTA and SIV-rtTA were used to study the role of the viral TAR and Tat elements in virus replication. ..
  3. doi request reprint Selecting the optimal Tet-On system for doxycycline-inducible gene expression in transiently transfected and stably transduced mammalian cells
    Atze T Das
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam CINIMA, Academic Medical Center, University of Amsterdam, Amsterdam, The Netherlands
    Biotechnol J 11:71-9. 2016
    ..V10 is the best system for most applications in which the DNA is episomally present in cells, whereas V16 may be optimal when the Tet-On components are stably integrated in the cellular genome. ..
  4. pmc Opening of the TAR hairpin in the HIV-1 genome causes aberrant RNA dimerization and packaging
    Atze T Das
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam CINIMA, Academic Medical Center, University of Amsterdam, Meibergdreef 15, 1105 AZ, Amsterdam, The Netherlands
    Retrovirology 9:59. 2012
    ..In this study, we set out to analyze which step of the HIV-1 replication cycle is affected by this conformational change of the leader RNA...
  5. ncbi request reprint Conditional live virus as a novel approach towards a safe live attenuated HIV vaccine
    Atze T Das
    Department of Human Retrovirology, Academic Medical Center, University of Amsterdam, The Netherlands
    Expert Rev Vaccines 1:293-301. 2002
    ..We propose a conditional live virus, of which the replication can be switched on and off at will, as a novel approach for an HIV vaccine...
  6. pmc The HIV-1 Tat protein has a versatile role in activating viral transcription
    Atze T Das
    Laboratory of Experimental Virology, Academic Medical Center, Meibergdreef 15, 1105 AZ Amsterdam, The Netherlands
    J Virol 85:9506-16. 2011
    ..These results indicate that Tat has a versatile role in transcription via TAR and U3 elements. The results also imply that Tat has no other essential function in viral replication in cultured T cells...
  7. pmc Optimization of the doxycycline-dependent simian immunodeficiency virus through in vitro evolution
    Atze T Das
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam CINIMA, Academic Medical Center of the University of Amsterdam, The Netherlands
    Retrovirology 5:44. 2008
    ..Since macaque studies will likely require an efficiently replicating variant, we set out to optimize SIV-rtTA through in vitro viral evolution...
  8. pmc Construction of a doxycycline-dependent simian immunodeficiency virus reveals a nontranscriptional function of tat in viral replication
    Atze T Das
    Laboratory of Experimental Virology, Academic Medical Center, Room K3 106, Meibergdreef 15, 1105 AZ Amsterdam, The Netherlands
    J Virol 81:11159-69. 2007
    ..This result suggests that Tat has a second function in SIV replication in addition to its role in the activation of transcription...
  9. pmc The TAR hairpin of human immunodeficiency virus type 1 can be deleted when not required for Tat-mediated activation of transcription
    Atze T Das
    Laboratory of Experimental Virology, Department of Medical Microbiology, Academic Medical Center of Univerisity of Amsterdam, Amsterdam, The Netherlands
    J Virol 81:7742-8. 2007
    ..We therefore conclude that TAR has no essential function in HIV-1 replication other than to accommodate Tat-mediated activation of transcription...
  10. ncbi request reprint The genetic stability of a conditional live HIV-1 variant can be improved by mutations in the Tet-On regulatory system that restrain evolution
    Xue Zhou
    Department of Human Retrovirology, Academic Medical Center, University of Amsterdam, Meibergdreef 15, 1105 AZ Amsterdam, The Netherlands
    J Biol Chem 281:17084-91. 2006
    ..We designed a novel rtTA variant with a higher genetic barrier toward these undesired evolutionary routes. The corresponding HIV-rtTA variant did not lose dox control in long term cultures, demonstrating its improved genetic stability...
  11. ncbi request reprint A conditionally replicating HIV-based vector that stably expresses an antiviral shRNA against HIV-1 replication
    Ellen M Westerhout
    Department of Human Retrovirology, Academic Medical Center, University of Amsterdam, Meibergdreef 15, 1105 AZ Amsterdam, The Netherlands
    Mol Ther 14:268-75. 2006
    ..Because the shRNA targets viral sequences that are removed from the vector construct, there is no self-targeting, yet there is specific shutdown of HIV-1 replication...
  12. ncbi request reprint Viral evolution as a tool to improve the tetracycline-regulated gene expression system
    Atze T Das
    Department of Human Retrovirology, Academic Medical Center, University of Amsterdam, Meibergdreef 15, 1105 AZ Amsterdam, The Netherlands
    J Biol Chem 279:18776-82. 2004
    ..Our results demonstrate that the viral evolution strategy can be used to improve the activity of genes by making them an integral and essential part of the virus...
  13. pmc Functional analysis of the complex trans-activating response element RNA structure in simian immunodeficiency virus
    Mireille Centlivre
    Laboratory of Experimental Virology, Academic Medical Center, University of Amsterdam, 1105 AZ Amsterdam, The Netherlands
    J Virol 82:9171-8. 2008
    ..These results demonstrate that the complex TAR structure in SIVmac has no other essential function in virus replication in vitro besides its role in Tat-mediated activation of transcription...
  14. pmc Destabilization of the TAR hairpin affects the structure and function of the HIV-1 leader RNA
    Martine M Vrolijk
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam CINIMA, University of Amsterdam, Meibergdreef 15, 1105 AZ Amsterdam, The Netherlands
    Nucleic Acids Res 36:4352-63. 2008
    ..Upon evolution of such mutant viruses, the replication capacity was repaired through the acquisition of additional TAR mutations that restore the local RNA folding, thus preventing the detrimental effect on the leader conformation...
  15. pmc HIV-1 can escape from RNA interference by evolving an alternative structure in its RNA genome
    Ellen M Westerhout
    Department of Human Retrovirology, Academic Medical Center, University of Amsterdam Meibergdreef 15, 1105 AZ Amsterdam, The Netherlands
    Nucleic Acids Res 33:796-804. 2005
    ..The results highlight the enormous genetic flexibility of HIV-1 and provide detailed molecular insight into the sequence specificity of RNAi and the impact of target RNA secondary structure...
  16. pmc Modification of the Tet-On regulatory system prevents the conditional-live HIV-1 variant from losing doxycycline-control
    Xue Zhou
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam CINIMA, Academic Medical Center of the University of Amsterdam, Meibergdreef 15, 1105 AZ Amsterdam, The Netherlands
    Retrovirology 3:82. 2006
    ..However, subsequent dox-withdrawal may impose a selection for virus variants with reduced dox-dependence...
  17. pmc Destabilization of the TAR hairpin leads to extension of the polyA hairpin and inhibition of HIV-1 polyadenylation
    Martine M Vrolijk
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam CINIMA, Academic Medical Center, University of Amsterdam, Meibergdreef 15, 1105 AZ Amsterdam, The Netherlands
    Retrovirology 6:13. 2009
    ..We recently described that the replication of an HIV-1 variant that does not need TAR for transcription was severely impaired by destabilization of the TAR hairpin, even though a complete TAR deletion was acceptable...
  18. pmc Hairpin-induced tRNA-mediated (HITME) recombination in HIV-1
    Pavlina Konstantinova
    Department of Human Retrovirology, Academic Medical Center, University of Amsterdam, Meibergdreef 15, 1105 AZ Amsterdam, The Netherlands
    Nucleic Acids Res 34:2206-18. 2006
    ..The transient role of the cellular tRNA molecule as enhancer of retroviral recombination is illustrated by the eventual removal of inserted tRNA sequences by a subsequent recombination/deletion event...
  19. pmc A human immunodeficiency virus type 1-infected individual with low viral load harbors a virus variant that exhibits an in vitro RNA dimerization defect
    Hendrik Huthoff
    Department of Human Retrovirology, Academic Medical Center, University of Amsterdam, Amsterdam, The Netherlands
    J Virol 78:4907-13. 2004
    ....
  20. pmc Improving the safety of a conditional-live human immunodeficiency virus type 1 vaccine by controlling both gene expression and cell entry
    Atze T Das
    Department of Human Retrovirology, Academic Medical Center, University of Amsterdam, Meibergdreef 15, 1105 AZ Amsterdam, The Netherlands
    J Virol 79:3855-8. 2005
    ..Replication of this virus can be limited to the level required to induce the immune system by transient administration of doxycycline and T20. Subsequent withdrawal of these inducers efficiently blocks viral replication and evolution...
  21. ncbi request reprint A conditionally replicating virus as a novel approach toward an HIV vaccine
    Atze T Das
    Department of Human Retrovirology, Academic Medical Center, Amsterdam, The Netherlands
    Methods Enzymol 388:359-79. 2004
  22. doi request reprint A sensitive cell-based assay to measure the doxycycline concentration in biological samples
    Wendy Kleibeuker
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam, Academic Medical Center of the University of Amsterdam, 1105 AZ Amsterdam, The Netherlands
    Hum Gene Ther 20:524-30. 2009
    ....
  23. doi request reprint Tat has a dual role in simian immunodeficiency virus transcription
    Gisela J van der Velden
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam, Academic Medical Center, University of Amsterdam, The Netherlands
    J Gen Virol 93:2279-89. 2012
    ..The experiments were limited to cell lines and PBMCs, and did not exclude an accessory Tat function under specific conditions or in vivo...
  24. doi request reprint An AUG codon upstream of rev and env open reading frames ensures optimal translation of the simian immunodeficiency virus Env protein
    Gisela J van der Velden
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam, Academic Medical Center, University of Amsterdam, Meibergdreef 9, 1105 AZ, Amsterdam, The Netherlands
    Virology 436:191-200. 2013
    ..Furthermore, the effects of these mutations on SIV gene expression and viral replication are analyzed. An intricate regulatory mechanism is disclosed that allows the virus to express a balanced amount of these two proteins...
  25. pmc Improved single-chain transactivators of the Tet-On gene expression system
    Xue Zhou
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam CINIMA, Academic Medical Center of the University of Amsterdam, Amsterdam, The Netherlands
    BMC Biotechnol 7:6. 2007
    ..Unfortunately, the activity of the single-chain rtTA (sc-rtTA) is reduced when compared with the regular rtTA, which might limit its application...
  26. pmc Alternative tRNA priming of human immunodeficiency virus type 1 reverse transcription explains sequence variation in the primer-binding site that has been attributed to APOBEC3G activity
    Atze T Das
    Department of Human Retrovirology, Academic Medical Center, University of Amsterdam, Meibergdreef 15, 1105 AZ Amsterdam, The Netherlands
    J Virol 79:3179-81. 2005
    ..This sequence variation was recently attributed to APOBEC3G activity. However, our results show that alternative tRNA priming can cause this mutation in the absence of APOBEC3G...
  27. pmc HIV-1 evolution: frustrating therapies, but disclosing molecular mechanisms
    Atze T Das
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam CINIMA, Academic Medical Center, University of Amsterdam, Meibergdreef 15, 1105 AZ Amsterdam, The Netherlands
    Philos Trans R Soc Lond B Biol Sci 365:1965-73. 2010
    ..We will briefly review this method of forced virus evolution and provide several examples that illustrate the power of this approach...
  28. pmc Upstream AUG codons in the simian immunodeficiency virus SIVmac239 genome regulate Rev and Env protein translation
    Gisela J van der Velden
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam CINIMA, Academic Medical Center, University of Amsterdam, Amsterdam, The Netherlands
    J Virol 86:12362-71. 2012
    ..An intricate regulatory mechanism was disclosed that allows the virus to express a balanced amount of these two proteins. This insight also allows the design of vector constructs that efficiently express these proteins...
  29. pmc A doxycycline-dependent human immunodeficiency virus type 1 replicates in vivo without inducing CD4+ T-cell depletion
    Nicolas Legrand
    Department of Cell Biology and Histology, Center for Immunology of Amsterdam CIA, Academic Medical Center of the University of Amsterdam AMC UvA, Meibergdreef 15, 1105 AZ Amsterdam, The Netherlands
    J Gen Virol 93:2017-27. 2012
    ..These results demonstrate the proof of concept that HIV-rtTA replicates efficiently in vivo. HIV-rtTA is a promising tool for fundamental research to study virus-host interactions in vivo in a controlled fashion...
  30. pmc Factor correction as a tool to eliminate between-session variation in replicate experiments: application to molecular biology and retrovirology
    Jan M Ruijter
    Department of Anatomy and Embryology, Academic Medical Centre, Meibergdreef 15, 1105 AZ Amsterdam, The Netherlands
    Retrovirology 3:2. 2006
    ..Normalisation, however, adds variation because the control value is not without error, while standardisation is biased if the data set is incomplete...
  31. ncbi request reprint Conditional virus replication as an approach to a safe live attenuated human immunodeficiency virus vaccine
    Ben Berkhout
    Department of Human Retrovirology, University of Amsterdam, Academic Medical Center, Amsterdam, The Netherlands
    J Neurovirol 8:134-7. 2002
    ..The optimised Tet system may be of particular use in other applications such as inducible expression of gene therapy vectors in the brain...
  32. doi request reprint Virus evolution as a tool to study HIV-1 biology
    Ben Berkhout
    Laboratory of Experimental Virology, Academic Medical Center, Amsterdam, The Netherlands
    Methods Mol Biol 485:436-51. 2009
    ....
  33. pmc Human immunodeficiency virus type 1 escapes from RNA interference-mediated inhibition
    Atze T Das
    Department of Human Retrovirology, Academic Medical Center, University of Amsterdam, Amsterdam, The Netherlands
    J Virol 78:2601-5. 2004
    ..However, as is known for antiviral drug therapy against HIV-1, antiviral approaches involving RNAi should be used in a combined fashion to prevent the emergence of resistant viruses...
  34. pmc CRISPR-Cas9 Can Inhibit HIV-1 Replication but NHEJ Repair Facilitates Virus Escape
    Gang Wang
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam CINIMA, Academic Medical Center, University of Amsterdam, Amsterdam, The Netherlands
    Mol Ther 24:522-6. 2016
    ..We thus demonstrate the potency of CRISPR-Cas9 as an antiviral approach, but any therapeutic strategy should consider the viral escape implications. ..
  35. doi request reprint Construction of Nef-positive doxycycline-dependent HIV-1 variants using bicistronic expression elements
    Yme U van der Velden
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam CINIMA, Academic Medical Center, University of Amsterdam, Amsterdam, The Netherlands
    Virology 488:96-107. 2016
    ....
  36. pmc Comparison of single regulated lentiviral vectors with rtTA expression driven by an autoregulatory loop or a constitutive promoter
    David Markusic
    AMC Liver Center S1 172, Meibergdreef 69, 1105BK Amsterdam, The Netherlands
    Nucleic Acids Res 33:e63. 2005
    ..This lentiviral vector with doxycycline-regulated transgene expression may be useful for gene therapy applications and in experimental settings where strict temporal expression of a transgene is required...
  37. doi request reprint A Combinatorial CRISPR-Cas9 Attack on HIV-1 DNA Extinguishes All Infectious Provirus in Infected T Cell Cultures
    Gang Wang
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam CINIMA, Academic Medical Center, University of Amsterdam, 1105 AZ Amsterdam, The Netherlands
    Cell Rep 17:2819-2826. 2016
    ..These results provide a proof-of-principle that HIV-1-infected cells can be functionally cured by dual-gRNA CRISPR/Cas9 treatment...
  38. pmc A short sequence motif in the 5' leader of the HIV-1 genome modulates extended RNA dimer formation and virus replication
    Nikki van Bel
    From the Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam, Academic Medical Centre Amsterdam, University of Amsterdam, 1105 AZ Amsterdam, The Netherlands and
    J Biol Chem 289:35061-74. 2014
    ....
  39. pmc A Phylogenetic Survey on the Structure of the HIV-1 Leader RNA Domain That Encodes the Splice Donor Signal
    Nancy Mueller
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam CINIMA, Academic Medical Center, University of Amsterdam, 1105 AZ Amsterdam, The Netherlands
    Viruses 8:. 2016
    ..We therefore inspected the sequence of natural HIV-1 isolates in search for support, in the form of base pair (bp) co-variations, for the different RNA conformations. ..
  40. pmc Tat-dependent production of an HIV-1 TAR-encoded miRNA-like small RNA
    Alex Harwig
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam CINIMA, Academic Medical Center, University of Amsterdam, Meibergdreef 15, 1105 AZ Amsterdam, The Netherlands
    Nucleic Acids Res 44:4340-53. 2016
    ..This biogenesis pathway differs from the canonical miRNA pathway and allows HIV-1 to produce the TAR-encoded miRNA-like molecule without cleavage of the RNA genome. ..
  41. doi request reprint HIV-1 splicing is controlled by local RNA structure and binding of splicing regulatory proteins at the major 5' splice site
    Nancy Mueller
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam CINIMA, Academic Medical Center, University of Amsterdam, The Netherlands
    J Gen Virol 96:1906-17. 2015
    ..The current analysis indicates that HIV-1 splicing at the major 5'ss is modulated by both the stability of the local RNA structure and the binding of splicing regulatory proteins. ..
  42. doi request reprint The HIV-1 leader RNA is exquisitely sensitive to structural changes
    Nikki van Bel
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam CINIMA, Academic Medical Center, University of Amsterdam, Amsterdam, The Netherlands Electronic address
    Virology 483:236-52. 2015
    ....
  43. doi request reprint Retroviral microRNAs
    Alex Harwig
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam CINIMA, Academic Medical Center, University of Amsterdam, Meibergdreef 15, 1105 AZ Amsterdam, The Netherlands
    Curr Opin Virol 7:47-54. 2014
    ..An intricate scenario of multi-layer virus-host interactions becomes apparent with small RNAs as the regulatory molecules. ..
  44. doi request reprint HIV-1 splicing at the major splice donor site is restricted by RNA structure
    Nancy Mueller
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam CINIMA, Academic Medical Center, University of Amsterdam, The Netherlands Electronic address
    Virology 468:609-20. 2014
    ..The 5'ss region of different HIV-1 isolates and the related SIVmac239 can fold a similar structure. This evolutionary conservation supports the importance of this structure in viral replication. ..
  45. doi request reprint HIV-1 RNAs: sense and antisense, large mRNAs and small siRNAs and miRNAs
    Alex Harwig
    Department of Medical Microbiology, Laboratory of Experimental Virology, Center for Infection and Immunity Amsterdam CINIMA, Academic Medical Center, University of Amsterdam, Meibergdreef 15, Amsterdam, The Netherlands
    Curr Opin HIV AIDS 10:103-9. 2015
    ..This review summarizes recent findings concerning the ever-growing HIV-1 RNA population...
  46. pmc The allosteric HIV-1 integrase inhibitor BI-D affects virion maturation but does not influence packaging of a functional RNA genome
    Nikki van Bel
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam CINIMA, Academic Medical Center, University of Amsterdam, Amsterdam, The Netherlands
    PLoS ONE 9:e103552. 2014
    ....
  47. pmc In vivo SELEX of single-stranded domains in the HIV-1 leader RNA
    Nikki van Bel
    Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam CINIMA, Academic Medical Centre, University of Amsterdam, Amsterdam, The Netherlands
    J Virol 88:1870-80. 2014
    ..Interestingly, the A-rich sequence of this segment is highly conserved among HIV-1 isolates, which likely reflects the evolutionary tendency of HIV-1 to adopt A-rich sequences. ..
  48. ncbi request reprint Hepatocyte-specific interplay of transcription factors at the far-upstream enhancer of the carbamoylphosphate synthetase gene upon glucocorticoid induction
    Maarten Hoogenkamp
    AMC Liver Center, Academic Medical Center, University of Amsterdam, The Netherlands
    FEBS J 274:37-45. 2007
    ....
  49. pmc On the primer binding site mutation that appears and disappears during HIV and SIV replication
    Ben Berkhout
    Department of Medical Microbiology, Laboratory of Experimental Virology, Center for Infection and Immunity Amsterdam CINIMA, Academic Medical Center, University of Amsterdam, Meibergdreef 15, 1105 AZ, Amsterdam, The Netherlands
    Retrovirology 12:75. 2015
    ..The presence of a variant tRNA species explains the rapid appearance and disappearance of a variant PBS sequence. ..
  50. pmc Structural requirements of the glucocorticoid-response unit of the carbamoyl-phosphate synthase gene
    Onard J L M Schoneveld
    AMC Liver Center, Academic Medical Center, University of Amsterdam, Meibergdreef 69 71, 1105 BK, Amsterdam, The Netherlands
    Biochem J 382:463-70. 2004
    ....
  51. ncbi request reprint A novel splice donor site in the gag-pol gene is required for HIV-1 RNA stability
    Martin Lützelberger
    Department of Molecular Biology, University of Aarhus, C F Møllers Allé 130, 8000 Arhus C, Denmark
    J Biol Chem 281:18644-51. 2006
    ..This implies that U1 small nuclear RNA binding to optimal but non-functional splice sites might have a role in protecting unspliced HIV-1 mRNA from degradation...
  52. ncbi request reprint Depletion of CD4 T lymphocytes in human lymphoid tissue infected ex vivo with doxycycline-dependent HIV-1
    Yana Kiselyeva
    Laboratory of Molecular and Cellular Biophysics, National Institute of Child Health and Human Development, Bethesda, MD 20892, USA
    Virology 328:1-6. 2004
    ..Thus, HIV-1 alone is sufficient to deplete productively infected CD4+ T cells but is not sufficient to cause the death of uninfected or latently infected CD4+ T cells...
  53. ncbi request reprint The apical loop of the HIV-1 TAR RNA hairpin is stabilized by a cross-loop base pair
    Tadeusz Kulinski
    Institute of Bioorganic Chemistry, Polish Academy of Sciences, Noskowskiego 12 14, 61 704 Poznan, Poland
    J Biol Chem 278:38892-901. 2003
    ..The C30-G34 cross-loop base pair classes TAR in a growing family of hairpins with a structured loop that was recently identified in ribosomal RNA, tRNA, and several viral and cellular mRNAs...