User:Damian Ekiert

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<font size="4">Damian C. Ekiert</font size>
<font size="4">Damian C. Ekiert</font size>
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<font size="2">PhD Candidate<br>
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<font size="2">Damon Runyon Post-Doctoral Fellow<br>
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Department of Molecular Biology and<br>
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Department of Microbiology and Immunology<br>
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The Skaggs Institute for Chemical Biology<br>
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The University of California, San Francisco<br>
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The Scripps Research Institute<br>
+
600 16th St.<br>
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10550 N. Torrey Pines Rd.<br>
+
Genentech Hall Rm. 376
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BCC-206
+
San Francisco, CA 94143<br>
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La Jolla, CA 92037<br>
+
415-476-5159<br>
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858-784-2941<br>
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damian.ekiert at ucsf dot edu
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dcekiert at scripps dot edu
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</font size>
</font size>
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I am a graduate student in the [http://www.scripps.edu/mb/wilson/ Wilson Lab] at [http://www.scripps.edu The Scripps Research Institute].
+
I am a post-doctoral fellow in the [http://coxlab.ucsf.edu/COX_WEB_SITE/Welcome.html Jeff Cox's Lab] at [http://www.ucsf.edu The University of California, San Francisco].
== Research Interests ==
== Research Interests ==
<blockquote>  
<blockquote>  
-
*Neutralization of influenza viruses by antibodies
+
*The adaptive immune response against Mycobacterium tuberculosis
-
*Rational vaccine design guided by broadly neutralizing antibodies
+
*Antigenic variation and immune evasion
-
*Diversity of antibody structure and function
+
*Vaccine design for pathogens of global importance
</blockquote>
</blockquote>
== Education==
== Education==
<blockquote>
<blockquote>
-
*2011 (Expected), PhD,  [http://www.scripps.edu|The Scripps Research Institute]<br>
+
*Present, Post-Doctoral Fellow, [http://www.ucsf.edu The University of California, San Francisco]
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*2005, B.A. in Biology, [http://www.uchicago.edu The University of Chicago] <br>
+
*2011, Ph.D.,  [http://www.scripps.edu|The Scripps Research Institute]<br>
 +
*2005, A.B. in Biology, [http://www.uchicago.edu The University of Chicago] <br>
</blockquote>
</blockquote>
==Research Experience==
==Research Experience==
<blockquote>
<blockquote>
-
*2007-2011: '''Prof. Ian A. Wilson Lab''', thesis, structural characterization of broadly neutralizing antibodies against the influenza A virus.
+
*2012-Present: '''Prof. Jeffery Cox Lab''', Post-Doc, investigation of antigenic variation and immune evasion in TB.
 +
*2007-2012: '''Prof. Ian A. Wilson Lab''', thesis, structural characterization of broadly neutralizing antibodies against the influenza A virus.
*2006-2007: '''Prof. Carlos Barbas Lab''', graduate rotation, directed evolution of site specific recombinases for genome engineering and gene therapy.
*2006-2007: '''Prof. Carlos Barbas Lab''', graduate rotation, directed evolution of site specific recombinases for genome engineering and gene therapy.
*2005-2006: '''Prof. Michael Glotzer Lab''' (gap year) working on cytokinesis in mammalian cells.
*2005-2006: '''Prof. Michael Glotzer Lab''' (gap year) working on cytokinesis in mammalian cells.
Line 45: Line 46:
== Publications ==
== Publications ==
<blockquote>
<blockquote>
 +
*Nycholat CM, McBride R, '''Ekiert DC''', Xu R, Rangarajan J, Peng W, Razi N, Gilbert M, Wakarchuk W, Wilson IA, Paulson JC.
 +
:[http://www.ncbi.nlm.nih.gov/pubmed/22505324 ''Recognition of sialylated poly-N-acetyllactosamine chains on N- and O-linked glycans by human and avian influenza A virus hemagglutinins''.]
 +
:'''Angew Chem Int Ed Engl'''. 2012 May 14;51(20):4860-3.
 +
:PMID: 22505324
 +
 +
*'''Ekiert DC''', Wilson IA.
 +
:[http://www.ncbi.nlm.nih.gov/pubmed/22482710 ''Broadly neutralizing antibodies against influenza virus and prospects for universal therapies''.]
 +
:'''Curr Opin Virol'''. 2012 Apr;2(2):134-41.
 +
:PMID: 22482710
 +
 +
*'''<nowiki>*</nowiki>Ekiert DC''', <nowiki>*</nowiki>Friesen RH, Bhabha G, Kwaks T, Jongeneelen M, Yu W, Ophorst C, Cox F, Korse HJ, Brandenburg B, Vogels R, Brakenhoff JP, Kompier R, Koldijk MH, Cornelissen LA, Poon LL, Peiris M, Koudstaal W, Wilson IA, Goudsmit J.
 +
:[http://www.ncbi.nlm.nih.gov/pubmed/21737702 ''A highly conserved neutralizing epitope on group 2 influenza A viruses''.]
 +
:'''Science'''. 2011 Aug 12;333(6044):843-50.
 +
:PMID: 21737702
 +
 +
*<nowiki>*</nowiki>Fleishman SJ, <nowiki>*</nowiki>Whitehead TA, '''<nowiki>*</nowiki>Ekiert DC''', Dreyfus C, Corn JE, Strauch EM, Wilson IA, Baker D.
 +
:[http://www.ncbi.nlm.nih.gov/pubmed/21566186 ''Computational design of proteins targeting the conserved stem region of influenza hemagglutinin''.]
 +
:'''Science'''. 2011 May 13;332(6031):816-21.
 +
:PMID: 21566186
 +
 +
*Bhabha G, Lee J, '''Ekiert DC''', Gam J, Wilson IA, Dyson HJ, Benkovic SJ, Wright PE.
 +
:[http://www.ncbi.nlm.nih.gov/pubmed/21474759 ''A dynamic knockout reveals that conformational fluctuations influence the chemical step of enzyme catalysis''.]
 +
:'''Science'''. 2011 Apr 8;332(6026):234-8.
 +
:PMID: 21474759
 +
 +
*<nowiki>*</nowiki>Krause JC, '''<nowiki>*</nowiki>Ekiert DC''', Tumpey TM, Smith PB, Wilson IA, Crowe JE Jr.
 +
:[http://www.ncbi.nlm.nih.gov/pubmed/21304166 ''An insertion mutation that distorts antibody binding site architecture enhances function of a human antibody''.]
 +
:'''MBio'''. 2011 Feb 8;2(1):e00345-10.
 +
:PMID: 21304166
 +
*Wang TT, Tan GS, Hai R, Pica N, Ngai L, '''Ekiert DC''', Wilson IA, García-Sastre A, Moran TM, Palese P.
*Wang TT, Tan GS, Hai R, Pica N, Ngai L, '''Ekiert DC''', Wilson IA, García-Sastre A, Moran TM, Palese P.
:[http://www.ncbi.nlm.nih.gov/pubmed/20956293 ''Vaccination with a synthetic peptide from the influenza virus hemagglutinin provides protection against distinct viral subtypes''.]
:[http://www.ncbi.nlm.nih.gov/pubmed/20956293 ''Vaccination with a synthetic peptide from the influenza virus hemagglutinin provides protection against distinct viral subtypes''.]
Line 54: Line 85:
:'''Science'''. 2010 Apr 16;328(5976):357-60.
:'''Science'''. 2010 Apr 16;328(5976):357-60.
:PMID: 20339031
:PMID: 20339031
 +
*'''Ekiert DC''', Bhabha G, Elsliger MA, Friesen RH, Jongeneelen M, Throsby M, Goudsmit J, Wilson IA.
*'''Ekiert DC''', Bhabha G, Elsliger MA, Friesen RH, Jongeneelen M, Throsby M, Goudsmit J, Wilson IA.
:[http://www.ncbi.nlm.nih.gov/pubmed/19251591 ''Antibody recognition of a highly conserved influenza virus epitope''.]
:[http://www.ncbi.nlm.nih.gov/pubmed/19251591 ''Antibody recognition of a highly conserved influenza virus epitope''.]
:'''Science'''. 2009 Apr 10;324(5924):246-51.
:'''Science'''. 2009 Apr 10;324(5924):246-51.
:PMID: 19251591
:PMID: 19251591
 +
*Simon GC, Schonteich E, Wu CC, Piekny A, '''Ekiert D''', Yu X, Gould GW, Glotzer M, Prekeris R.
*Simon GC, Schonteich E, Wu CC, Piekny A, '''Ekiert D''', Yu X, Gould GW, Glotzer M, Prekeris R.
:[http://www.ncbi.nlm.nih.gov/pubmed/18511905 ''Sequential Cyk-4 binding to ECT2 and FIP3 regulates cleavage furrow ingression and abscission during cytokinesis''.]
:[http://www.ncbi.nlm.nih.gov/pubmed/18511905 ''Sequential Cyk-4 binding to ECT2 and FIP3 regulates cleavage furrow ingression and abscission during cytokinesis''.]
:'''EMBO J'''. 2008 Jul 9;27(13):1791-803.
:'''EMBO J'''. 2008 Jul 9;27(13):1791-803.
:PMID: 18511905
:PMID: 18511905
 +
*Matic I, '''Ekiert D''', Radman M, Kohiyama M.
*Matic I, '''Ekiert D''', Radman M, Kohiyama M.
:[http://www.ncbi.nlm.nih.gov/pubmed/16352851 ''Generation of DNA-free Escherichia coli cells by 2-aminopurine requires mismatch repair and nonmethylated DNA''.]
:[http://www.ncbi.nlm.nih.gov/pubmed/16352851 ''Generation of DNA-free Escherichia coli cells by 2-aminopurine requires mismatch repair and nonmethylated DNA''.]
:'''J Bacteriol'''. 2006 Jan;188(1):339-42.
:'''J Bacteriol'''. 2006 Jan;188(1):339-42.
:PMID: 16352851
:PMID: 16352851
 +
*Strauss B, Kelly K, '''Ekiert D'''.
*Strauss B, Kelly K, '''Ekiert D'''.
:[http://www.ncbi.nlm.nih.gov/pubmed/15805529 ''Cytochrome oxidase deficiency protects Escherichia coli from cell death but not from filamentation due to thymine deficiency or DNA polymerase inactivation''.]
:[http://www.ncbi.nlm.nih.gov/pubmed/15805529 ''Cytochrome oxidase deficiency protects Escherichia coli from cell death but not from filamentation due to thymine deficiency or DNA polymerase inactivation''.]
:'''J Bacteriol'''. 2005 Apr;187(8):2827-35.
:'''J Bacteriol'''. 2005 Apr;187(8):2827-35.
:PMID: 15805529
:PMID: 15805529
 +
*Strauss B, Kelly K, Dincman T, '''Ekiert D''', Biesieda T, Song R.
*Strauss B, Kelly K, Dincman T, '''Ekiert D''', Biesieda T, Song R.
:[http://www.ncbi.nlm.nih.gov/pubmed/15028700 ''Cell death in Escherichia coli dnaE(Ts) mutants incubated at a nonpermissive temperature is prevented by mutation in the cydA gene''.]
:[http://www.ncbi.nlm.nih.gov/pubmed/15028700 ''Cell death in Escherichia coli dnaE(Ts) mutants incubated at a nonpermissive temperature is prevented by mutation in the cydA gene''.]
:'''J Bacteriol'''. 2004 Apr;186(7):2147-55.
:'''J Bacteriol'''. 2004 Apr;186(7):2147-55.
-
:PMID: 15028700  
+
:PMID: 15028700
</blockquote>
</blockquote>
[[Image:Hemagglutinin_Conformational_Changes_Membrane_Fusion.mov]]
[[Image:Hemagglutinin_Conformational_Changes_Membrane_Fusion.mov]]

Revision as of 23:14, 26 June 2012

Damian C. Ekiert

Damon Runyon Post-Doctoral Fellow
Department of Microbiology and Immunology
The University of California, San Francisco
600 16th St.
Genentech Hall Rm. 376 San Francisco, CA 94143
415-476-5159
damian.ekiert at ucsf dot edu

I am a post-doctoral fellow in the Jeff Cox's Lab at The University of California, San Francisco.


Contents

Research Interests

  • The adaptive immune response against Mycobacterium tuberculosis
  • Antigenic variation and immune evasion
  • Vaccine design for pathogens of global importance

Education

Research Experience

  • 2012-Present: Prof. Jeffery Cox Lab, Post-Doc, investigation of antigenic variation and immune evasion in TB.
  • 2007-2012: Prof. Ian A. Wilson Lab, thesis, structural characterization of broadly neutralizing antibodies against the influenza A virus.
  • 2006-2007: Prof. Carlos Barbas Lab, graduate rotation, directed evolution of site specific recombinases for genome engineering and gene therapy.
  • 2005-2006: Prof. Michael Glotzer Lab (gap year) working on cytokinesis in mammalian cells.
  • 2003-2004: Prof. Miroslav Radman (Université Paris Descartes) and Prof. Masamichi Kohiyama (Université Pierre et Marie Curie) groups during year abroad in Paris, working on mismatch-stimulated killing and the localization of replication forks in E. coli.
  • 2003-2005: Prof. Bernard Strauss Lab (University of Chicago), undergraduate honors thesis, investigating the coordination of DNA replication and cell division in E. coli.

Publications

  • Nycholat CM, McBride R, Ekiert DC, Xu R, Rangarajan J, Peng W, Razi N, Gilbert M, Wakarchuk W, Wilson IA, Paulson JC.
Recognition of sialylated poly-N-acetyllactosamine chains on N- and O-linked glycans by human and avian influenza A virus hemagglutinins.
Angew Chem Int Ed Engl. 2012 May 14;51(20):4860-3.
PMID: 22505324
  • Ekiert DC, Wilson IA.
Broadly neutralizing antibodies against influenza virus and prospects for universal therapies.
Curr Opin Virol. 2012 Apr;2(2):134-41.
PMID: 22482710
  • *Ekiert DC, *Friesen RH, Bhabha G, Kwaks T, Jongeneelen M, Yu W, Ophorst C, Cox F, Korse HJ, Brandenburg B, Vogels R, Brakenhoff JP, Kompier R, Koldijk MH, Cornelissen LA, Poon LL, Peiris M, Koudstaal W, Wilson IA, Goudsmit J.
A highly conserved neutralizing epitope on group 2 influenza A viruses.
Science. 2011 Aug 12;333(6044):843-50.
PMID: 21737702
  • *Fleishman SJ, *Whitehead TA, *Ekiert DC, Dreyfus C, Corn JE, Strauch EM, Wilson IA, Baker D.
Computational design of proteins targeting the conserved stem region of influenza hemagglutinin.
Science. 2011 May 13;332(6031):816-21.
PMID: 21566186
  • Bhabha G, Lee J, Ekiert DC, Gam J, Wilson IA, Dyson HJ, Benkovic SJ, Wright PE.
A dynamic knockout reveals that conformational fluctuations influence the chemical step of enzyme catalysis.
Science. 2011 Apr 8;332(6026):234-8.
PMID: 21474759
  • *Krause JC, *Ekiert DC, Tumpey TM, Smith PB, Wilson IA, Crowe JE Jr.
An insertion mutation that distorts antibody binding site architecture enhances function of a human antibody.
MBio. 2011 Feb 8;2(1):e00345-10.
PMID: 21304166
  • Wang TT, Tan GS, Hai R, Pica N, Ngai L, Ekiert DC, Wilson IA, García-Sastre A, Moran TM, Palese P.
Vaccination with a synthetic peptide from the influenza virus hemagglutinin provides protection against distinct viral subtypes.
Proc Natl Acad Sci U S A. 2010 Nov 2;107(44):18979-84.
PMID: 20956293
  • Xu R *, Ekiert DC *, Krause JC, Hai R, Crowe JE Jr, Wilson IA.
Structural basis of preexisting immunity to the 2009 H1N1 pandemic influenza virus.
Science. 2010 Apr 16;328(5976):357-60.
PMID: 20339031
  • Ekiert DC, Bhabha G, Elsliger MA, Friesen RH, Jongeneelen M, Throsby M, Goudsmit J, Wilson IA.
Antibody recognition of a highly conserved influenza virus epitope.
Science. 2009 Apr 10;324(5924):246-51.
PMID: 19251591
  • Simon GC, Schonteich E, Wu CC, Piekny A, Ekiert D, Yu X, Gould GW, Glotzer M, Prekeris R.
Sequential Cyk-4 binding to ECT2 and FIP3 regulates cleavage furrow ingression and abscission during cytokinesis.
EMBO J. 2008 Jul 9;27(13):1791-803.
PMID: 18511905
  • Matic I, Ekiert D, Radman M, Kohiyama M.
Generation of DNA-free Escherichia coli cells by 2-aminopurine requires mismatch repair and nonmethylated DNA.
J Bacteriol. 2006 Jan;188(1):339-42.
PMID: 16352851
  • Strauss B, Kelly K, Ekiert D.
Cytochrome oxidase deficiency protects Escherichia coli from cell death but not from filamentation due to thymine deficiency or DNA polymerase inactivation.
J Bacteriol. 2005 Apr;187(8):2827-35.
PMID: 15805529
  • Strauss B, Kelly K, Dincman T, Ekiert D, Biesieda T, Song R.
Cell death in Escherichia coli dnaE(Ts) mutants incubated at a nonpermissive temperature is prevented by mutation in the cydA gene.
J Bacteriol. 2004 Apr;186(7):2147-55.
PMID: 15028700

Image:Hemagglutinin Conformational Changes Membrane Fusion.mov

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