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  __NOTOC__
 
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[[File:brumer.jpg|frame|right]]
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<span style="color:#006400">''NOTE: FROM SEPTEMBER 2012, THIS PAGE IS NO LONGER UPDATED; PLEASE SEE http://www.msl.ubc.ca/faculty/brumer INSTEAD.''</span>
'''Principal Investigator (PI): Assoc. Prof. Harry Brumer, VR Rådsforskare'''
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----
 +
[[File:Brumer2.jpg|120px|right]]
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'''Principal Investigator (PI): Prof. Harry Brumer, VR Rådsforskare'''
  
Office phone: +46 (0)8 5537 8367<br>E-mail: <email>harry@biotech.kth.se</email><br>Skype: hbrumer3<br>Address: Please see the [[address]] page.
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''Research area: Carbohydrate enzymology and applications''
  
 
[[Harry_Brumer/Curriculum  vitae|Curriculum vitae]] ::  
 
[[Harry_Brumer/Curriculum  vitae|Curriculum vitae]] ::  
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== Research interests ==  
 
== Research interests ==  
 
[[File:Brumer_img.png|center]]
 
[[File:Brumer_img.png|center]]
'''The focus of our Enzymology Research Group''' is to understand the way in which particular enzymes act to alter the structure of wood fibers.  We are concerned primarily with the [http://www.cazy.org/ carbohydrate-active enzymes] which synthesize (eg., glycosyl transferases, transglycosidases) or degrade (eg., glycoside hydrolases) glycosidic bonds.
+
'''The focus of our Carbohydrate Enzymology Research Group''' is to understand the way in which particular enzymes act to alter the structure of polysaccharides found in biomass (especially plant cell walls and wood fibers), and to harness these enzymes for applications.  We are primarily concerned with the [http://www.cazy.org/ carbohydrate-active enzymes (CAZymes)] which synthesize (eg., glycosyl transferases, transglycosidases) or degrade (eg., glycoside hydrolases) glycosidic bonds.
  
We employ a wide variety of tools to understand more about enzymes relevant to fiber modification:
+
Fundamental studies and applications of these enzymes are especially topical for improving the use of renewable biomass resources in the biofuels/bioenergy, wood fiber, textile, agricultural, and food industries.
  
* Organic chemistry:  synthesis of modified substrates as probes of enzyme mechanism or to introduce specific chemical functionality into carbohydrate polymers.
+
=== Research tools and methods ===
* Protein biochemistry:  purification and basic characterization of native and heterologously expressed enzymes.
+
'''We employ a wide variety of tools''' to understand more about enzymes relevant to biomass utilization and fiber modification:
* Mechanistic enzymology:  thorough examination of enzyme mechanisms using specifically designed substrates and detailed kinetic analyses.
 
* Protein engineering:  rational modification of enzymes for fiber modification using knowledge of protein structure and enzyme mechanism.
 
* Protein mass spectrometry/proteomics:  identification and analysis of proteins and enzymes involved in cell wall polysaccharide biosynthesis. In addition, we perform medium-throughput [http://dx.doi.org/10.1016/j.jchromb.2007.01.011 protein quality-control analysis] for the  [http://sgc.ki.se/ Structural Genomics Consortium] and have previously done the same for the [http://dx.doi.org/10.1074/mcp.M500279-MCP200 Human Protein Atlas project].
 
  
We are particularly interested in the xyloglucan ''endo''-transglycosylases (XET), enzymes involved in the remodelling of the cell wall polysaccharide xyloglucan. Our work on XETs [http://dx.doi.org/10.1080/1024-2420310001618492 exemplifies our approach] of using knowledge gained through [http://dx.doi.org/10.1105/tpc.107.051391 fundamental enzymology] to guide the development of [http://dx.doi.org/10.1021/ja0316770 new enzyme applications]. A concise summary of our cellulose biomaterials research can be found on the Polysaccharide Biomased Materials Center [http://www.polysaccharidecenter.com/archive.html#XG News Harvest].
+
;Organic chemistry and chemical biology:  Synthesis of modified substrates as probes of enzyme mechanism or to introduce specific chemical functionality into carbohydrate polymers.
 +
;Molecular phylogeny, molecular biology, and heterologous protein expression: Identification, cloning, and recombinant expression of genes encoding enzyme targets with unique biological/biochemical function and/or application potential.
 +
;Protein biochemistry:  Purification and basic biochemical characterization of native and heterologously expressed enzymes.
 +
;Mechanistic enzymology:  Thorough examination of enzyme mechanisms using specifically designed substrates and detailed kinetic analyses.
 +
;Enzyme engineering:  Rational modification of enzymes for various applications using knowledge of protein structure and enzyme mechanism.
 +
;Protein mass spectrometry/proteomics:  Identification and analysis of proteins and enzymes involved in cell wall polysaccharide biosynthesis. In addition, we perform medium-throughput [http://dx.doi.org/10.1016/j.jchromb.2007.01.011 protein quality-control analysis] for the  [http://sgc.ki.se/ Structural Genomics Consortium] and have previously done the same for the [http://dx.doi.org/10.1074/mcp.M500279-MCP200 Human Protein Atlas project].
 +
;Protein/enzyme structure-function analysis: Via collaboration with world-leading protein crystallographers, we use the above tools to develop a better understanding of how protein structure dictates enzyme catalytic properties.
  
Our work has been funded by the [http://www.vr.se/ Swedish Research Council], the [http://www.stratresearch.se/ Swedish Foundation for Strategic Research], [http://www.vinnova.se/ VINNOVA], the [http://www.bimac.kth.se/ Biofibre Materials Centre (BiMaC)], the European Commission ([http://www.biotech.kth.se/woodbiotechnology/EDEN/ EDEN], [http://www.ecotarget.com/ ECOTARGET]), and the [http://www.biotech.kth.se/woodbiotechnology/w2b/ Knut & Alice Wallenberg Foundation].
+
=== Key enzymes ===
 +
We are particularly interested in the xyloglucan ''endo''-transglycosylases (XET) and xyloglucan ''endo''-hydrolases (XEH) involved in the remodelling of the cell wall polysaccharide xyloglucan.  Our work on XETs exemplifies our approach of using knowledge gained through [http://dx.doi.org/10.1105/tpc.107.051391 fundamental enzymology] to guide the development of [http://dx.doi.org/10.1021/ja0316770 new enzyme applications]. A concise summary of our cellulose biomaterials research can be found on the Polysaccharide Biomased Materials Center [http://www.polysaccharidecenter.com/archive.html#XG News Harvest].
 +
 
 +
=== Funding sources ===
 +
Our work has been funded by the [http://www.vr.se/ Swedish Research Council], the [http://www.formas.se/ Swedish Research Council Formas], the [http://www.stratresearch.se/ Swedish Foundation for Strategic Research], [http://www.vinnova.se/ VINNOVA], the KTH Biofibre Materials Centre (BiMaC), the European Commission ([http://www.biotech.kth.se/woodbiotechnology/EDEN/ EDEN], ECOTARGET), and the [http://www.biotech.kth.se/woodbiotechnology/w2b/ Knut & Alice Wallenberg Foundation].
  
 
== Key publications ==
 
== Key publications ==
 
[[Harry Brumer/Publications|''(All publications)'']]
 
[[Harry Brumer/Publications|''(All publications)'']]
  
* Baumann, Eklöf, Michel, Kallas, Teeri, Czjzek and '''Brumer''' (2007) Structural evidence for the evolution of xyloglucanase activity from xyloglucan endo-transglycosylases: Biological implications for cell wall metabolism.''Plant Cell'', '''19''', 1947-1963. [http://dx.doi.org/10.1105/tpc.107.051391 DOI:10.1105/tpc.107.051391].
+
* Baumann, Eklöf, Michel, Kallas, Teeri, Czjzek and '''Brumer''' (2007) Structural evidence for the evolution of xyloglucanase activity from xyloglucan endo-transglycosylases: Biological implications for cell wall metabolism. ''Plant Cell'', '''19''', 1947-1963. [http://dx.doi.org/10.1105/tpc.107.051391 DOI:10.1105/tpc.107.051391].
 
* Teeri, '''Brumer''', Daniel and Gatenholm (2007) Biomimetic engineering of cellulose-based materials. ''Trends Biotech.'', '''25''', 299-306. [http://dx.doi.org/10.1016/j.tibtech.2007.05.002 DOI:10.1016/j.tibtech.2007.05.002]
 
* Teeri, '''Brumer''', Daniel and Gatenholm (2007) Biomimetic engineering of cellulose-based materials. ''Trends Biotech.'', '''25''', 299-306. [http://dx.doi.org/10.1016/j.tibtech.2007.05.002 DOI:10.1016/j.tibtech.2007.05.002]
 
* Zhou, Greffe, Baumann, Malmström, Teeri, and '''Brumer, H.''' (2005) The use of xyloglucan as a molecular anchor for the elaboration of polymers from cellulose surfaces: a general route for the design of biocomposites. ''Macromolecules'', '''38''', 3547-3549. [http://dx.doi.org/10.1021/ma047712k DOI:10.1021/ma047712k]
 
* Zhou, Greffe, Baumann, Malmström, Teeri, and '''Brumer, H.''' (2005) The use of xyloglucan as a molecular anchor for the elaboration of polymers from cellulose surfaces: a general route for the design of biocomposites. ''Macromolecules'', '''38''', 3547-3549. [http://dx.doi.org/10.1021/ma047712k DOI:10.1021/ma047712k]
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== Current personnel ==
 
== Current personnel ==
* Chunlin Xu, post-doctoral scientist, 2009 - present
+
=== Post-doctoral scientists ===
* Oliver Spadiut, post-doctoral scientist, 2009 - present
+
<gallery widths=90px perrow=5>
* Johan Larsbrink, post-graduate student, 2008 - present
+
File:LaurenMcKee.jpg|Lauren McKee, April 2011 - present
* Fredrika Gullfot, post-graduate student, 2007 - present ([http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-10178 Licentiate 2009])
+
File:Eklof.jpg|Jens Eklöf, April 2011 - present
* Jens Eklöf, post-graduate student, 2006 - present ([http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-10183 Licentiate 2009])
+
</gallery>
* Nomchit Kaewthai, post-graduate student, 2006 - present
+
Please click [[Personnel_directory|here]] for individual contact information.
* Gustav Sundqvist, post-doctoral scientist, [[Vincent Bulone|Bulone group]] (project-based co-supervision), mass spectrometry, 2008 - present
+
 
 +
=== Post-graduate students ===
 +
<gallery widths=90px perrow=5>
 +
File:Larsbrink.jpg|Johan Larsbrink, 2008 - present
 +
File:Yang.jpg|Yang Wang, Sept. 2010 - present, co-supervised with [[Henrik Aspeborg]]
 +
</gallery>
 +
Please click [[Personnel_directory|here]] for individual contact information.
 +
 
 +
=== Undergraduate researchers ===
 +
''None at this time.''
  
 
== Alumni and theses from the group ==
 
== Alumni and theses from the group ==
* Farid Ibatullin, visiting scientist, 2006 - 2009
+
* [[:File:AnaCatarinaAraujoSilva.jpg|Ana Catarina Araújo Silva]], Post-doctoral scientist, Jul 2010 - Mar. 2012
* Niklas Nordgren, 2004 - 2009 (co-supervised with Prof. Mark Rutland) ([http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-4555 Licentiate 2007], [http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-11002 Ph.D. 2009])
+
* [[:File:Chunlin.jpg|Chunlin Xu]], Post-doctoral scientist, Nov. 2009 - Dec. 2011
* Gustav Sundqvist, 2005 - 2008 ([http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-4728 Ph.D. 2008])
+
* [[:File:MagnusLundqvist.jpg|Magnus Lundqvist]], Diploma thesis student, Jan. 2011 - Sept. 2011
* Lage Ahrenstedt, 2005 - 2007 ([http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-4437 Licentiate 2007])
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* [[:File:Eklof.jpg|Jens Eklöf]], Post-graduate student, 2006 - 2011 ([http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-10183 Licentiate 2009], [http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-31677 Ph.D. 2011])
* Martin Baumann, 2001 - 2007 (co-supervised with Prof. Tuula Teeri) ([http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-1777 Licentiate 2004], [http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-4314 Ph.D. 2007])
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* [[:File:StefanKlinter.jpg|Stefan Klinter]], German Master's exchange student, Apr. 2010 - Apr. 2011
 +
* [[:File:StefanNilssonCederholm.jpg|Stefan Nilsson Cederholm]], Post-doctoral scientist, Nov. 2010 - Mar. 2011.
 +
* [[:File:Sassa.jpg|Azadeh Nakhai Åkerström]], Post-doctoral scientist, Mar. 2010 - Mar. 2011
 +
* [[:File:Kaewthai.jpg|Nomchit Kaewthai]], Post-graduate student, 2006 - 2011 ([http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-28222 Ph.D. 2011])
 +
* [[:File:SarahPrexler.jpg|Sarah Prexler]], Erasmus project student, July 2010 - Oct. 2010
 +
* [[:File:Gullfot.jpg|Fredrika Gullfot]], Post-graduate student, 2007-2010 ([http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-10178 Licentiate 2009], [http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-24296 Ph.D. 2010])
 +
* Jonelle Peart, International Master's Thesis student, Jan. 2009 - Aug. 2009
 +
* [[:File:Spadiut.jpg|Oliver Spadiut]], Post-doctoral scientist, Sept. 2009 - Aug. 2010
 +
* Farid Ibatullin, Visiting scientist, 2006 - 2009
 +
* Niklas Nordgren, Post-graduate student, 2004 - 2009 (co-supervised with Prof. Mark Rutland) ([http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-4555 Licentiate 2007], [http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-11002 Ph.D. 2009])
 +
* [[:File:Sundqvist.jpg|Gustav Sundqvist]], Post-graduate student, 2005 - 2008 ([http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-4728 Ph.D. 2008]), Post-doctoral scientist, 2008 - 2012 (Mass spectrometric protein analysis, joint with [[Vincent Bulone|Bulone group]])
 +
* Lage Ahrenstedt, Post-graduate student, 2005 - 2007 ([http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-4437 Licentiate 2007])
 +
* Martin Baumann, Post-graduate student, 2001 - 2007 (co-supervised with Prof. Tuula Teeri) ([http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-1777 Licentiate 2004], [http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-4314 Ph.D. 2007])
  
 
== Active collaborations ==
 
== Active collaborations ==
Line 59: Line 89:
  
 
In additional to those within the Glycoscience group and [http://www.biomime.org/ Biomime] center, we currently have active collaborations with the following scientists and their groups:
 
In additional to those within the Glycoscience group and [http://www.biomime.org/ Biomime] center, we currently have active collaborations with the following scientists and their groups:
* [http://www.theochem.kth.se/people/pekka/ Dr. Pekka Mark], KTH Theoretical Chemistry, Stockholm, Sweden
+
* [http://www.theochem.kth.se/people/tu/ Dr. Yaoquan Tu] & [http://www.theochem.kth.se/people/agren/ Prof. Hans Ågren], KTH Theoretical Chemistry, Stockholm, Sweden
 
* [http://www.immun.lth.se/sc/mo Prof. Mats Ohlin], Lund Univeristy, Sweden
 
* [http://www.immun.lth.se/sc/mo Prof. Mats Ohlin], Lund Univeristy, Sweden
 
* [http://www.sb-roscoff.fr/UMR7139/en/interaction.html Dr. Mirjam Czjzek], CNRS Roscoff, France
 
* [http://www.sb-roscoff.fr/UMR7139/en/interaction.html Dr. Mirjam Czjzek], CNRS Roscoff, France
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== Teaching ==
 
== Teaching ==
I have been active in teaching at the undergraduate and Master's level as a lecturer (Wood Biotechnology, 3A1513) and course organizer/lecturer ([http://www.kth.se/student/kurser/kurs/BB2190?l=en_UK Enzyme Technology, BB2190]; 2006-2008). I am currently the organizer of and primary lecturer in the course [[http://www.biotech.kth.se/glycoscience/wiki/courses/BB2420/ Glycobiology and Carbohydrate Technology (BB2420)], which replaced Enzyme Technology (BB2190) from Fall 2009. More information on the course may be found [http://www.biotech.kth.se/glycoscience/wiki/courses/BB2420/ here].
+
I have been active in teaching at the undergraduate and Master's level as a lecturer in several courses.  In particular, I am currently the organizer of and primary lecturer in the course [[BB2420 - Glycobiology and Carbohydrate Technology]], which replaced [http://www.kth.se/student/kurser/kurs/BB2190?l=en_UK BB2190 - Enzyme Technology] (2006-2008) in September 2009. More information on the Glycobiology and Carbohydrate Technology course may be found [[BB2420 - Glycobiology and Carbohydrate Technology|here]].

Latest revision as of 22:53, 11 October 2012

NOTE: FROM SEPTEMBER 2012, THIS PAGE IS NO LONGER UPDATED; PLEASE SEE http://www.msl.ubc.ca/faculty/brumer INSTEAD.


Brumer2.jpg

Principal Investigator (PI): Prof. Harry Brumer, VR Rådsforskare

Research area: Carbohydrate enzymology and applications

Curriculum vitae :: Research interests :: Key publications :: All publications :: Current personnel :: Alumni & theses :: Collaborators :: Teaching

Research interests

Brumer img.png

The focus of our Carbohydrate Enzymology Research Group is to understand the way in which particular enzymes act to alter the structure of polysaccharides found in biomass (especially plant cell walls and wood fibers), and to harness these enzymes for applications. We are primarily concerned with the carbohydrate-active enzymes (CAZymes) which synthesize (eg., glycosyl transferases, transglycosidases) or degrade (eg., glycoside hydrolases) glycosidic bonds.

Fundamental studies and applications of these enzymes are especially topical for improving the use of renewable biomass resources in the biofuels/bioenergy, wood fiber, textile, agricultural, and food industries.

Research tools and methods

We employ a wide variety of tools to understand more about enzymes relevant to biomass utilization and fiber modification:

Organic chemistry and chemical biology
Synthesis of modified substrates as probes of enzyme mechanism or to introduce specific chemical functionality into carbohydrate polymers.
Molecular phylogeny, molecular biology, and heterologous protein expression
Identification, cloning, and recombinant expression of genes encoding enzyme targets with unique biological/biochemical function and/or application potential.
Protein biochemistry
Purification and basic biochemical characterization of native and heterologously expressed enzymes.
Mechanistic enzymology
Thorough examination of enzyme mechanisms using specifically designed substrates and detailed kinetic analyses.
Enzyme engineering
Rational modification of enzymes for various applications using knowledge of protein structure and enzyme mechanism.
Protein mass spectrometry/proteomics
Identification and analysis of proteins and enzymes involved in cell wall polysaccharide biosynthesis. In addition, we perform medium-throughput protein quality-control analysis for the Structural Genomics Consortium and have previously done the same for the Human Protein Atlas project.
Protein/enzyme structure-function analysis
Via collaboration with world-leading protein crystallographers, we use the above tools to develop a better understanding of how protein structure dictates enzyme catalytic properties.

Key enzymes

We are particularly interested in the xyloglucan endo-transglycosylases (XET) and xyloglucan endo-hydrolases (XEH) involved in the remodelling of the cell wall polysaccharide xyloglucan. Our work on XETs exemplifies our approach of using knowledge gained through fundamental enzymology to guide the development of new enzyme applications. A concise summary of our cellulose biomaterials research can be found on the Polysaccharide Biomased Materials Center News Harvest.

Funding sources

Our work has been funded by the Swedish Research Council, the Swedish Research Council Formas, the Swedish Foundation for Strategic Research, VINNOVA, the KTH Biofibre Materials Centre (BiMaC), the European Commission (EDEN, ECOTARGET), and the Knut & Alice Wallenberg Foundation.

Key publications

(All publications)

  • Baumann, Eklöf, Michel, Kallas, Teeri, Czjzek and Brumer (2007) Structural evidence for the evolution of xyloglucanase activity from xyloglucan endo-transglycosylases: Biological implications for cell wall metabolism. Plant Cell, 19, 1947-1963. DOI:10.1105/tpc.107.051391.
  • Teeri, Brumer, Daniel and Gatenholm (2007) Biomimetic engineering of cellulose-based materials. Trends Biotech., 25, 299-306. DOI:10.1016/j.tibtech.2007.05.002
  • Zhou, Greffe, Baumann, Malmström, Teeri, and Brumer, H. (2005) The use of xyloglucan as a molecular anchor for the elaboration of polymers from cellulose surfaces: a general route for the design of biocomposites. Macromolecules, 38, 3547-3549. DOI:10.1021/ma047712k
  • Greffe, Bessueille, Bulone and Brumer H. (2005) Synthesis, preliminary characterization, and application of novel surfactants from highly branched xyloglucan oligosaccharides. Glycobiology, 15, 437-445. DOI:10.1093/glycob/cwi013
  • Sundqvist, Stenvall, Berglund, Ottosson, and Brumer (2007) A general, robust method for the quality control of intact proteins using LC-ESI-MS. J. Chrom. B, 852, 188-194. DOI:10.1016/j.jchromb.2007.01.011

Current personnel

Post-doctoral scientists

Please click here for individual contact information.

Post-graduate students

Please click here for individual contact information.

Undergraduate researchers

None at this time.

Alumni and theses from the group

Active collaborations

Throughout the years we have had fruitful collaborations with numerous scientists both nationally and internationally, whose names can be found as co-authors in our joint peer-reviewed scientific publications.

In additional to those within the Glycoscience group and Biomime center, we currently have active collaborations with the following scientists and their groups:

Teaching

I have been active in teaching at the undergraduate and Master's level as a lecturer in several courses. In particular, I am currently the organizer of and primary lecturer in the course BB2420 - Glycobiology and Carbohydrate Technology, which replaced BB2190 - Enzyme Technology (2006-2008) in September 2009. More information on the Glycobiology and Carbohydrate Technology course may be found here.