Paul Jaschke: Difference between revisions
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==Personal== | ==Personal== | ||
===Bio=== | ===Bio=== | ||
I | I have been a post-doc in Drew Endy's lab at Stanford University since Nov 2010. The focus of my project is to redesign phage using both rational and combinatorial methods in order to finish the genetics of a simple system. In December 2012 we published the first report of a [http://www.ncbi.nlm.nih.gov/pubmed/23079106 fully decompressed genome], using the [http://en.wikipedia.org/wiki/Phi_X_174 bacteriophage øX174] as a model. This virus has shared many other firsts in the world of genomics and synthetic biology from being the [http://en.wikipedia.org/wiki/Frederick_Sanger#Sequencing_DNA first DNA genome sequenced] by Frederick Sanger to the subject of claims of creating life in a test tube by watchers of [http://profiles.nlm.nih.gov/ps/retrieve/Narrative/WH/p-nid/209 Arthur Kornberg] and [http://www.economist.com/node/2224008 Craig Venter ''et al'']. | ||
My current work is focused on using øX174 to pioneer a new method of simplifying synthetic genomes, a process I call 'negative genomics'. | |||
I started off my science career at the University of Alberta (Canada), working in the Casey and Michalak labs. Summer student work in the Casey Lab on the human sodium-bicarbonate co-transporter protein resulted in an authorship in a peer-reviewed publication. My honors project in the Michalak Lab had me determining the role of calcium signalling and calreticulin on murine embryonic stem cell differentiation. After achieving a B.Sc. (Honors) in Biochemistry in 2003 I went to the Beatty Lab at the University of British Columbia to start my Ph.D. While at UBC I discovered that a photosynthetic organism called ''Rhodobacter sphaeroides'' was capable of re-routing its chlorophyll biosynthetic machinery around a blockage to generate a new type of chlorophyll. November 2010 I was conferred a Ph.D in Microbiology and Immunology from UBC. | I started off my science career at the University of Alberta (Canada), working in the Casey and Michalak labs. Summer student work in the Casey Lab on the human sodium-bicarbonate co-transporter protein resulted in an authorship in a peer-reviewed publication. My honors project in the Michalak Lab had me determining the role of calcium signalling and calreticulin on murine embryonic stem cell differentiation. After achieving a B.Sc. (Honors) in Biochemistry in 2003 I went to the Beatty Lab at the University of British Columbia to start my Ph.D. While at UBC I discovered that a photosynthetic organism called ''Rhodobacter sphaeroides'' was capable of re-routing its chlorophyll biosynthetic machinery around a blockage to generate a new type of chlorophyll. November 2010 I was conferred a Ph.D in Microbiology and Immunology from UBC. | ||
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*pjaschke 'AT' stanford.edu | *pjaschke 'AT' stanford.edu | ||
*[[Special:Emailuser/Paul R Jaschke|Email me through OpenWetWare]] | *[[Special:Emailuser/Paul R Jaschke|Email me through OpenWetWare]] | ||
*[[Media: | *[[Media:Paul_Jaschke_PhD.vcf|v-card]] | ||
I work in the [[Endy Lab]] in the Department of Bioengineering | I work in the [[Endy Lab]] in the Department of Bioengineering | ||
==Education== | ==Education== | ||
'''Ph.D.''' in Microbiology, University of British Columbia, Canada '''(2010)''' | |||
'''B.Sc.''' in Biochemistry (First-Class Honors), University of Alberta, Canada '''(2003)''' | |||
==Publications== | ==Publications== | ||
'''Jaschke PR''', Lieberman EK, Rodriguez J, Sierra A, Endy D. (2012). A fully decompressed synthetic bacteriophage øX174 genome assembled and archived in yeast. ''Virology''. DOI: 10.1016/j.virol.2012.09.020. [http://www.ncbi.nlm.nih.gov/pubmed/23079106 Abstract] [[Media: | '''Paul Jaschke'''., Ju Lu Ph.D., Widya Mulyasasmita and Luke J. Lee. (2013). Incyte Pharmaceuticals Is Primed For A Run. Seeking Alpha. [http://seekingalpha.com/article/1156061-incyte-pharmaceuticals-is-primed-for-a-run Link] | ||
'''Jaschke PR''', Lieberman EK, Rodriguez J, Sierra A, Endy D. (2012). A fully decompressed synthetic bacteriophage øX174 genome assembled and archived in yeast. ''Virology'' (Cover). DOI: 10.1016/j.virol.2012.09.020. [http://www.ncbi.nlm.nih.gov/pubmed/23079106 Abstract] [[Media:Virology-Phage in Yeast-2012.pdf|PDF]] | |||
'''Supplementary Files:''' Phage Assembled with Plasmid Sequence: [[Media:PRS425--phiX174_1f.gb|pRS425::phiX174_1f]] // Redeployed Phage Sequence: [[Media: PhiX174_1f.gb|phiX174_1f]] | |||
Neupane B, '''Jaschke P''', Saer R, Beatty JT, Reppert M, Jankowiak R. (2012). Electron Transfer in ''Rhodobacter sphaeroides'' Reaction Centers Containing Zn-Bacteriochlorophylls: A Hole-Burning Study. The ''Journal of Physical Chemistry'' B. Mar 15; 116(10): 3457-3466. [http://pubs.acs.org/doi/abs/10.1021/jp300304r Abstract] [[Media:jp300304r.pdf|PDF]] | Neupane B, '''Jaschke P''', Saer R, Beatty JT, Reppert M, Jankowiak R. (2012). Electron Transfer in ''Rhodobacter sphaeroides'' Reaction Centers Containing Zn-Bacteriochlorophylls: A Hole-Burning Study. The ''Journal of Physical Chemistry'' B. Mar 15; 116(10): 3457-3466. [http://pubs.acs.org/doi/abs/10.1021/jp300304r Abstract] [[Media:jp300304r.pdf|PDF]] | ||
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==Presentations== | ==Presentations== | ||
Paul R Jaschke, Jon Rodriguez, Adrian Sierra, Drew Endy. (2012). Redesign and Construction of Bacteriophage Genomes in Yeast. SynBERC Retreat. [[Media:SynBERC March 2012.pdf|PDF]] | |||
Jaschke PR and Beatty JT. (2010). Out of the Blue. In a mutant lacking the magnesium-chelatase complex, we find zinc-bacteriochlorophyll incorporated into the photosystem and a new way to make bacteriochlorophyll. [[Media:Out_of_the_Blue-ICTPPO_2009.pdf|PDF]] | Jaschke PR and Beatty JT. (2010). Out of the Blue. In a mutant lacking the magnesium-chelatase complex, we find zinc-bacteriochlorophyll incorporated into the photosystem and a new way to make bacteriochlorophyll. [[Media:Out_of_the_Blue-ICTPPO_2009.pdf|PDF]] | ||
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==Professional Activities== | ==Professional Activities== | ||
Advisor, Mendeley reference manager software (08/2011 - Current) | |||
Developed and taught classes at BioCurious community DIY bio lab (2011 - 2012) | |||
Mentored inaugural UBC iGEM team and guided to gold medal Press: [[Media:UBC Reports iGEM Story.pdf|Students build tiny E.coli ‘traffic light’ (see pg.9)]] (01/2009 - 11/2009) | |||
'Project Management' & 'Grant Writing for Research and Development' Workshops (10/2009) | |||
Teaching assistant for senior level bioinformatics class at UBC (2005 - 2008) | |||
Reviewer for PLoS ONE and Journal of Proteome Research (2004 - Current) | |||
Elected Biochemistry Student Association executive member (09/2001 - 06/2003) | |||
==Useful links== | ==Useful links== | ||
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[http://en.wikipedia.org/wiki/Rhodobacter_sphaeroides ''Rhodobacter sphaeroides'' on Wikipedia] | [http://en.wikipedia.org/wiki/Rhodobacter_sphaeroides ''Rhodobacter sphaeroides'' on Wikipedia] | ||
[http://www.ncbi.nlm.nih.gov/nuccore/JX913857 Refactored øX174.1f genome sequence JX913857] | |||
==Other== | ==Other== | ||
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Hiking & Camping | Hiking & Camping | ||
Sailing | |||
Revision as of 21:36, 4 April 2013
Personal
Bio
I have been a post-doc in Drew Endy's lab at Stanford University since Nov 2010. The focus of my project is to redesign phage using both rational and combinatorial methods in order to finish the genetics of a simple system. In December 2012 we published the first report of a fully decompressed genome, using the bacteriophage øX174 as a model. This virus has shared many other firsts in the world of genomics and synthetic biology from being the first DNA genome sequenced by Frederick Sanger to the subject of claims of creating life in a test tube by watchers of Arthur Kornberg and Craig Venter et al.
My current work is focused on using øX174 to pioneer a new method of simplifying synthetic genomes, a process I call 'negative genomics'.
I started off my science career at the University of Alberta (Canada), working in the Casey and Michalak labs. Summer student work in the Casey Lab on the human sodium-bicarbonate co-transporter protein resulted in an authorship in a peer-reviewed publication. My honors project in the Michalak Lab had me determining the role of calcium signalling and calreticulin on murine embryonic stem cell differentiation. After achieving a B.Sc. (Honors) in Biochemistry in 2003 I went to the Beatty Lab at the University of British Columbia to start my Ph.D. While at UBC I discovered that a photosynthetic organism called Rhodobacter sphaeroides was capable of re-routing its chlorophyll biosynthetic machinery around a blockage to generate a new type of chlorophyll. November 2010 I was conferred a Ph.D in Microbiology and Immunology from UBC.
Contact Info
- CV
- Paul R Jaschke
- Stanford University
- Stanford, California, USA
- pjaschke 'AT' stanford.edu
- Email me through OpenWetWare
- v-card
I work in the Endy Lab in the Department of Bioengineering
Education
Ph.D. in Microbiology, University of British Columbia, Canada (2010)
B.Sc. in Biochemistry (First-Class Honors), University of Alberta, Canada (2003)
Publications
Paul Jaschke., Ju Lu Ph.D., Widya Mulyasasmita and Luke J. Lee. (2013). Incyte Pharmaceuticals Is Primed For A Run. Seeking Alpha. Link
Jaschke PR, Lieberman EK, Rodriguez J, Sierra A, Endy D. (2012). A fully decompressed synthetic bacteriophage øX174 genome assembled and archived in yeast. Virology (Cover). DOI: 10.1016/j.virol.2012.09.020. Abstract PDF
Supplementary Files: Phage Assembled with Plasmid Sequence: pRS425::phiX174_1f // Redeployed Phage Sequence: phiX174_1f
Neupane B, Jaschke P, Saer R, Beatty JT, Reppert M, Jankowiak R. (2012). Electron Transfer in Rhodobacter sphaeroides Reaction Centers Containing Zn-Bacteriochlorophylls: A Hole-Burning Study. The Journal of Physical Chemistry B. Mar 15; 116(10): 3457-3466. Abstract PDF
Jaschke PR, Hardjasa A, Digby E, Hunter CN, Beatty JT. (2011). A bchD (Mg-chelatase) mutant of Rhodobacter sphaeroides synthesizes zinc-bacteriochlorophyll through a novel zinc-containing intermediates. The Journal of Biological Chemistry Jun 10;286(23):20313-22. Abstract PDF
Jaschke PR, Saer RG, Noll S, Beatty JT. (2011). Modification of the genome of Rhodobacter sphaeroides and construction of synthetic operons. Methods in Enzymology. 497:519-38. Abstract PDF
Jaschke PR, Drake I, Beatty JT. (2009). Modification of a French pressure cell to improve microbial cell disruption. Photosynth Res. 102(1): 95-7. Abstract PDF
Jaschke PR. (2010). Discovery and characterization of a new zinc-bacteriochlorophyll biosynthetic pathway and photosystem in a magnesium-chelatase mutant. PhD Thesis. University of British Columbia. Abstract PDF
Lin S,Jaschke PR, Wang H, Paddock M, Tufts A, Allen JP, Rosell FI, Mauk GA, Woodbury NW, Beatty JT. (2009). Electron transfer in the Rhodobacter sphaeroides reaction center assembled with zinc bacteriochlorophyll. Proceedings of the National Academy of Sciences of the USA.106(21): 8537-42. Abstract PDF
Jaschke PR, LeBlanc HN, Lang AS, Beatty JT. (2008). The PucC protein of Rhodobacter capsulatus mitigates an inhibitory effect of light-harvesting 2 alpha and beta proteins on light-harvesting complex 1. Photosynthesis Research. 95(2-3): 279-84. Abstract PDF
Jaschke PR, Beatty JT. (2007). The photosystem of Rhodobacter sphaeroides assembles with zinc bacteriochlorophyll in a bchD (magnesium chelatase) mutant. Biochemistry. 46(43): 12491-500. Abstract PDF
Loiselle FB, Jaschke P, Casey JR. (2003). Structural and functional characterization of the human NBC3 sodium/bicarbonate co-transporter carboxyl-terminal cytoplasmic domain. Molecular Membrane Biology. 20(4): 307-17. Abstract PDF
Presentations
Paul R Jaschke, Jon Rodriguez, Adrian Sierra, Drew Endy. (2012). Redesign and Construction of Bacteriophage Genomes in Yeast. SynBERC Retreat. PDF
Jaschke PR and Beatty JT. (2010). Out of the Blue. In a mutant lacking the magnesium-chelatase complex, we find zinc-bacteriochlorophyll incorporated into the photosystem and a new way to make bacteriochlorophyll. PDF
Jaschke PR and Beatty JT. (2007). Discovery of zinc-bacteriochlorophyll in Rhodobacter sphaeroides. PDF
Professional Activities
Advisor, Mendeley reference manager software (08/2011 - Current)
Developed and taught classes at BioCurious community DIY bio lab (2011 - 2012)
Mentored inaugural UBC iGEM team and guided to gold medal Press: Students build tiny E.coli ‘traffic light’ (see pg.9) (01/2009 - 11/2009)
'Project Management' & 'Grant Writing for Research and Development' Workshops (10/2009)
Teaching assistant for senior level bioinformatics class at UBC (2005 - 2008)
Reviewer for PLoS ONE and Journal of Proteome Research (2004 - Current)
Elected Biochemistry Student Association executive member (09/2001 - 06/2003)
Useful links
Rhodobacter sphaeroides on Wikipedia
Refactored øX174.1f genome sequence JX913857
Other
Hobbies
Snowboarding
Hiking & Camping
Sailing
