 |
Thesis (2001-2006): "Identification of two topologically distinct Mu transpososomes: contribution of cis and trans elements to DNA topology"
Zhiqi Yin, Ph.D. 2006
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Thesis (2001-2006): "Identification of two topologically distinct Mu transpososomes: contribution of cis and trans elements to DNA topology" |
Z. Yin, M. Jayaram, S. Pathania and R. M. Harshey. 2005. The Mu transposase interwraps distant DNA sites within a functional transpososome in the absence of DNA supercoiling. J. Biol. Chem. 280: 6149-56.
Z. Yin and R. M. Harshey. 2005. Enhancer-independent Mu transposition from two topologically distinct synapses. Proc. Natl. Acad. Sci. USA 102: 18884-18889.
Z. Yin, A. Suzuki, Z. Lou, M. Jayaram and R. M. Harshey. 2007. Interactions of phage Mu enhancer and termini that specify the assembly of a topologically unique interwrapped transpososome. J. Mol. Biol. 372: 382-396.
Awards: University Fellowship for Excellence in Research.
Life After Ph.D.: Postdoc at the Molecular Virology & Structural Biology Labs in NIH, Bethesda, MD.
Shailja Pathania, Ph.D. 2002
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Thesis (1997-2002): "Path of DNA within Mu transpososomes: Order, Dynamics and Topology of Mu end-Enhancer Interactions" |
S. Pathania, M. Jayaram and R. M. Harshey. 2002. Path of DNA within the Mu transpososome: Transposase interactions bridging two Mu ends and the transposition enhancer trap five DNA supercoils. Cell, 109: 425-436.
I. Grainge, S. Pathania, A. Vologodskii, R. M. Harshey and M. Jayaram. 2002. Symmetric DNA sites are functionally asymmetric within Flp and Cre site-specific DNA recombination synapses. J. Mol. Biol., 320: 515-27.
S. Pathania, M. Jayaram and R. M. Harshey. 2003. A unique right end-enhancer complex precedes synapsis of Mu ends: The enhancer is sequestered within the transpososome throughout transposition. EMBO J. 22: 3725-3736.
T. K. Au, S. Pathania and R. M. Harshey. 2004. True reversal of Mu integration. EMBO J.
Awards: University Fellowship for Excellence in Research.
Jim Allison Outstanding Alumnus award.
Outstanding Dissertation Award.
Life After Ph.D.: Postdoc at Dana Farber Cancer Inst, Harvard Medical School, Boston, MA.
Insuk Lee, Ph.D. 2002
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Thesis (1997-2002): "Importance of the Conserved TG/CA Dinucleotide Termini in Phage Mu Transposition: Similarities to Transposable Elements in the Human Genome" |
I. Lee and R. M. Harshey. 2001. Importance of the conserved CA dinucleotide at Mu termini. J. Mol. Biol. 314: 443-454.
I. Lee and R. M. Harshey. 2003. The conserved CA/TG motif at Mu termini: T specifies stable transpososome assembly. J. Mol. Biol. 330: 261-275.
I. Lee and R. M. Harshey. 2003. Patterns of sequence conservation at the termini of long terminal repeat (LTR) retrotransposons and DNA transposons in the human genome: Lessons from phage Mu. Nuc. Acids Res. 31: 4531-4540.
Life After Ph.D.: Postdoc in the field of Genomics/Bioinformatics at UT Austin.
Current Position: Asst. Prof. at Yonsei University, S. Korea.
Hong Jiang, MA. 1999
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Thesis (1997-1999): "Criss-crossed interactions between the enhancer and the att sites of Mu during DNA transposition" |
H. Jiang, J-Y. Yang and R. M. Harshey. 1999. Criss-crossed interactions between the enhancer and the att sites of phage Mu during DNA transposition. EMBO J. 18: 3845-3855.
S. Mariconda, S-Y. Namgoong, K-H. Yoon, H. Jiang and R. M. Harshey. 2000. Domain III function of Mu transposase analyzed by directed placement of subunits within the transpososome. J. Biosci. 25:101-114.
H. Jiang and R. M. Harshey. 2001. The Mu enhancer is
functionally asymmetric both in cis and in trans: topological selectivity of Mu
transposition is enhancer independent.
J. Biol. Chem. 276:
4373-4381.
Current Position: Scientist, Novartis Institute for Biomedical Research, Boston, MA.
Soon-Young Namgoong, Ph.D. 1998
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Thesis (1993-1998): "Catalytic contributions of individual transposase monomers within the tetramer during Mu transposition" |
S-Y. Namgoong, M. Jayaram, K. Kim and R. M. Harshey. 1994. DNA-protein cooperativity in the assembly and stabilization of Mu strand transfer complex: Relevance of DNA phasing and att site cleavage. J. Mol. Biol. 238: 514-527.
K. Kim, S-Y. Namgoong, M. Jayaram and R. M. Harshey. 1995. Step-arrest mutants of phage Mu transposase : Implications in nucleoprotein assembly, DNA cleavage and strand transfer. J. Biol. Chem. 270: 1472-1479.
Z. Wang, S-Y. Namgoong, X. Zhang, and R. M. Harshey. 1996. Kinetic and structural probing of the precleavage synaptic (Type0) formed during phage Mu transposition: Action of metal ions and reagents specific to single-stranded DNA. J. Biol. Chem.271:9619-9626.
S-Y. Namgoong, K. Kim, P. Saxena, J-Y. Yang, M. Jayaram, D. P. Giedroc and R. M. Harshey. 1998. Mutational analysis of domain IIb of Mu transposase: domains IIa and IIb belong to different catalytic complementation groups. J. Mol. Biol. 275: 221-232.
S-Y. Namgoong, S. Sankaralingam and R. M. Harshey. 1998. Altering the DNA binding specificity of Mu transposase invitro. Nuc Acids Res. 26: 3521-3527.
S-Y. Namgoong and R. M. Harshey. 1998. The same two monomers within a MuA tetramer provide the DDE domains for the strand cleavage and strand transfer steps of transposition. EMBO J. 17: 3775-3785.
S. Mariconda, S-Y. Namgoong, K-H. Yoon, H. Jiang and R. M. Harshey. 2000. Domain III function of Mu transposase analyzed by directed placement of subunits within the transpososome. J. Biosci. 25:101-114.
Awards: University Fellowship for Excellence in Research.
Life After Ph.D.: Postdoc at Baylor College of Medicine, Houston, and Tularik, San Francisco.
Current Position: Scientist at Bio-Rad, San Francisco.
Keetae Kim, Ph.D. 1995
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Thesis (1990-1995): "Identification of Mu transposase residues important in att DNA recognition, catalysis and assembly of the active transposase tetramer: Structure-function studies" |
K. Kim, S-Y. Namgoong, M. Jayaram and R. M. Harshey. 1995. Step-arrest mutants of phage Mu transposase : Implications in nucleoprotein assembly, DNA cleavage and strand transfer. J. Biol. Chem. 270: 1472-1479.
K. Kim and R. M. Harshey. 1995. Mutational analysis of the att DNA-binding domain of phage Mu transposase. Nucleic Acids Res. 23: 3937-3943.
J-Y. Yang, K. Kim, M. Jayaram and R. M. Harshey. 1995. A domain sharing model for active site assembly within the Mu A tetramer during transposition:The enhancer may specify domain contributions. EMBO J. 14: 2374-2384.
S-Y Namgoong, K. Kim, P. Saxena, J-Y. Yang, M. Jayaram, D. P. Giedroc and R. M. Harshey. 1998. Mutational analysis of domain IIb of Mu transposase: domains IIa and IIb belong to different catalytic complementation groups. J. Mol. Biol. 275: 221-232.
Life After Ph.D.: Postdoc and Senior Research Associate at Harvard Medical School.
Current Position: Senior Scientist at Rexahn Biotech, Rockville, MD.
Jin-Ying Yang, Ph.D. 1995
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Thesis (1990-1995): "Active site assembly of phage Mu transposase: Role of the transposition enhancer" |
J-Y. Yang, K. Kim, M. Jayaram and R. M. Harshey. 1995. A domain sharing model for active site assembly within the Mu A tetramer during transposition:The enhancer may specify domain contributions. EMBO J. 14: 2374-2384.
J-Y. Yang, M. Jayaram and R. M. Harshey. 1995. Enhancer-independent variants of phage Mu transposase: Enhancer-specific stimulation of catalytic activity by a partner transposase. Genes Dev. 9: 2545-2555.
J-Y. Yang, M. Jayaram and R. M. Harshey. 1996. Positional information within the Mu transposase tetramer: catalytic contributions of individual monomers. Cell 85: 447-455.
S-Y Namgoong, K. Kim, P. Saxena, J-Y. Yang, M. Jayaram, D. P. Giedroc and R. M. Harshey. 1998. Mutational analysis of domain IIb of Mu transposase: domains IIa and IIb belong to different catalytic complementation groups. J. Mol. Biol. 275: 221-232.
H. Jiang, J-Y. Yang and R. M. Harshey. 1999. Criss-crossed interactions between the enhancer and the att sites of phage Mu during DNA transposition. EMBO J. 18: 3845-3855.
Awards: Nat Sternberg award for best thesis in prokaryotic molecular genetics in the US in 1995-1996.
Life After Ph.D.: Postdoc, Aaron Diamond Institute for AIDS research, Rockefeller Inst., New York. MBA at UT Austin (1999). Current Position: Market analyst at Goldman-Sachs, New York.
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