Jason W. Rausch, Ph.D.
Jason W. Rausch, Ph.D.
Staff Scientist

Center for Cancer Research
National Cancer Institute

Building 535, Room 325
Frederick, MD 21702-1201
301-846-5384

The primary focus of my research has been to use various biochemistry, molecular biology and computer modeling tools to study the structures and functions of HIV proteins (reverse transcriptase, integrase, capsid, nucleocapsid, rev), HIV-related host proteins (APOBEC3G, DC-SIGN, L-SIGN) and viral RNA motifs (HIV-1 polypurine tracts, HIV-1 and HIV-2 rev-response elements, HIV-1 5’ UTR). My recent emphasis has been on determining the secondary structures of HIV-related RNAs using the chemical probing methodology known as selective 2’ hydroxyl acylation analyzed by primer extension (SHAPE) and expanding this technology for use with next generation sequencing systems.

Areas of Expertise
1) HIV (human immunodeficiency virus), 2) In vitro assay development, 3) Enzymology, 4) RNA structure, 5) Next generation sequencing 6) Molecular modeling

The principal focus of my research has been to use various tools of biochemistry, molecular biology, and computer modeling to understand the interaction between/among retroviral enzymes (reverse transcriptase, integrase) and structural proteins (nucleocapsid, gag) and their nucleic acid substrates. In particular, I have developed a number of in vitro assays utilizing substrates containing nucleoside analogs (e.g., difluorotoluene, iso-guanosine, 2-amino-adenosine, etc.) and purified recombinant enzymes to study how HIV-1 reverse transcripase specifically recognizes its cognate primer for plus-strand DNA synthesis, the HIV-1 polypurine tract (PPT). I am currently also using related methodologies to explore the mechanism(s) by which the ubiquitous cellular enzyme APOBEC3G, an HIV restriction factor, catalyzes cytidine deamination within select target sequences in single-stranded viral DNA.

Finally, I have recently received a 2007 NCI Director's Career Development Innovation Award for my application entitled 'Evolving Sequence-Specific Integrases and Methyltransferases by In Vitro Compartmentalization.' With these funds, I plan to use novel directed evolution techniques to help improve the target-specificity of retroviral gene therapy vectors, as well as tools useful for epigenetics research pertaining to cytosine methylation.

  1. SiRNA-induced mutation in HIV-1 polypurine tract region and its influence on viral fitness.
    Rausch JW, Tian M, Li Y, Angelova L, Bagaya BS, Krebs KC, Qian F, Zhu C, Arts EJ, Le Grice SF, Gao Y.
    PLOS ONE. in press, 2015. [ Journal Article ]
  2. Novel biochemical tools for probing HIV RNA structure.
    Rausch JW, Sztuba-Solinska J, Lusvarghi S, Le Grice SF.
    Methods Mol. Biol. in press, 2015. [ Journal Article ]
  3. Fang X, Wang J, O'Carroll IP, Mitchell M, Zuo X, Wang Y, Yu P, Liu Y, Rausch JW, Dyba MA, Kjems J, Schwieters CD, Seifert S, Winans RE, Watts NR, Stahl SJ, Wingfield PT, Byrd RA, Le Grice SF, Rein A, Wang Y.
    Cell. 155: 594-605, 2013. [ Journal Article ]
  4. Lusvarghi S, Sztuba-Solinska J, Purzycka KJ, Pauly GT, Rausch JW, Grice SF.
    Nucleic Acids Res. 41: 6637-49, 2013. [ Journal Article ]
  5. Progress towards developing potent and specific inhibitors of HIV RT-associated ribonuclease H.
    Rausch J. Le Grice S, Goette M, eds.
    In: Human Immunodeficiency Virus Reverse Transcriptase: A Bench-to-Bedside Success. New York: Springer Publishing 143-172, 2013. [ Book Chapter ]

Education:

  • 1990 B.S. (Biology, minor in Mathematics) Syracuse University, Syracuse, New York
  • 1997 Ph.D. (Biochemistry) Case Western Reserve University, Cleveland, Ohio
  • 2002 B.S. (Computer and Information Science, with certificates in UNIX System Administration and Database Design) University of Maryland, University College, Adelphi, Maryland

Professional:

  • 1994-present      33+ Peer-reviewed publications
  • 1999-present      Staff Scientist, Frederick National Laboratory for Cancer Research
  • 2007                     NCI Director's Career Development Innovation Award 'Evolving Sequence-Specific Integrases and Methyltransferases by In Vitro Compartmentalization.'
  • 2009                     NCI Director's Career Development Innovation Award ‘Incorporating unnatural amino acids into the Pol V mutasome for photocrosslinking and single-molecule FRET’
  • 2009-present      Center for Excellence in HIV and Cancer Virology Website Maintenance Committee
  • 2013-present      Member, CCR RNA Biology Initiative

Summary

The primary focus of my research has been to use various biochemistry, molecular biology and computer modeling tools to study the structures and functions of HIV proteins (reverse transcriptase, integrase, capsid, nucleocapsid, rev), HIV-related host proteins (APOBEC3G, DC-SIGN, L-SIGN) and viral RNA motifs (HIV-1 polypurine tracts, HIV-1 and HIV-2 rev-response elements, HIV-1 5’ UTR). My recent emphasis has been on determining the secondary structures of HIV-related RNAs using the chemical probing methodology known as selective 2’ hydroxyl acylation analyzed by primer extension (SHAPE) and expanding this technology for use with next generation sequencing systems.

Areas of Expertise
1) HIV (human immunodeficiency virus), 2) In vitro assay development, 3) Enzymology, 4) RNA structure, 5) Next generation sequencing 6) Molecular modeling

Research

The principal focus of my research has been to use various tools of biochemistry, molecular biology, and computer modeling to understand the interaction between/among retroviral enzymes (reverse transcriptase, integrase) and structural proteins (nucleocapsid, gag) and their nucleic acid substrates. In particular, I have developed a number of in vitro assays utilizing substrates containing nucleoside analogs (e.g., difluorotoluene, iso-guanosine, 2-amino-adenosine, etc.) and purified recombinant enzymes to study how HIV-1 reverse transcripase specifically recognizes its cognate primer for plus-strand DNA synthesis, the HIV-1 polypurine tract (PPT). I am currently also using related methodologies to explore the mechanism(s) by which the ubiquitous cellular enzyme APOBEC3G, an HIV restriction factor, catalyzes cytidine deamination within select target sequences in single-stranded viral DNA.

Finally, I have recently received a 2007 NCI Director's Career Development Innovation Award for my application entitled 'Evolving Sequence-Specific Integrases and Methyltransferases by In Vitro Compartmentalization.' With these funds, I plan to use novel directed evolution techniques to help improve the target-specificity of retroviral gene therapy vectors, as well as tools useful for epigenetics research pertaining to cytosine methylation.

Publications

  1. SiRNA-induced mutation in HIV-1 polypurine tract region and its influence on viral fitness.
    Rausch JW, Tian M, Li Y, Angelova L, Bagaya BS, Krebs KC, Qian F, Zhu C, Arts EJ, Le Grice SF, Gao Y.
    PLOS ONE. in press, 2015. [ Journal Article ]
  2. Novel biochemical tools for probing HIV RNA structure.
    Rausch JW, Sztuba-Solinska J, Lusvarghi S, Le Grice SF.
    Methods Mol. Biol. in press, 2015. [ Journal Article ]
  3. Fang X, Wang J, O'Carroll IP, Mitchell M, Zuo X, Wang Y, Yu P, Liu Y, Rausch JW, Dyba MA, Kjems J, Schwieters CD, Seifert S, Winans RE, Watts NR, Stahl SJ, Wingfield PT, Byrd RA, Le Grice SF, Rein A, Wang Y.
    Cell. 155: 594-605, 2013. [ Journal Article ]
  4. Lusvarghi S, Sztuba-Solinska J, Purzycka KJ, Pauly GT, Rausch JW, Grice SF.
    Nucleic Acids Res. 41: 6637-49, 2013. [ Journal Article ]
  5. Progress towards developing potent and specific inhibitors of HIV RT-associated ribonuclease H.
    Rausch J. Le Grice S, Goette M, eds.
    In: Human Immunodeficiency Virus Reverse Transcriptase: A Bench-to-Bedside Success. New York: Springer Publishing 143-172, 2013. [ Book Chapter ]

Biography

Education:

  • 1990 B.S. (Biology, minor in Mathematics) Syracuse University, Syracuse, New York
  • 1997 Ph.D. (Biochemistry) Case Western Reserve University, Cleveland, Ohio
  • 2002 B.S. (Computer and Information Science, with certificates in UNIX System Administration and Database Design) University of Maryland, University College, Adelphi, Maryland

Professional:

  • 1994-present      33+ Peer-reviewed publications
  • 1999-present      Staff Scientist, Frederick National Laboratory for Cancer Research
  • 2007                     NCI Director's Career Development Innovation Award 'Evolving Sequence-Specific Integrases and Methyltransferases by In Vitro Compartmentalization.'
  • 2009                     NCI Director's Career Development Innovation Award ‘Incorporating unnatural amino acids into the Pol V mutasome for photocrosslinking and single-molecule FRET’
  • 2009-present      Center for Excellence in HIV and Cancer Virology Website Maintenance Committee
  • 2013-present      Member, CCR RNA Biology Initiative