User:Mjl

From 2008.igem.org

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*NL-2628CD Delft
*NL-2628CD Delft
*The Netherlands
*The Netherlands
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*[[Special:Emailuser/Marco JL de Groot|Email me through iGEM Wiki]]
 
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I work in the Department of Mediamatics, Information and Communication Theory Group section Bioinformatics at Delft Univesity of Technology.
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I work in the Department of Mediamatics, Information and Communication Theory Group section Bioinformatics at Delft University of Technology.
==Publications==
==Publications==
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<li id="cite_note-1">vanKuyk PA, de Groot MJ, Ruijter GJ, de Vries RP, and Visser J. The ''Aspergillus niger'' D-xylulose kinase gene is co-expressed with genes encoding arabinan degrading enzymes, and is essential for growth on D-xylose and L-arabinose. Eur J Biochem 2001 Oct; 268(20) 5414-23.[http://www.ncbi.nlm.nih.gov/pubmed/11606204 PMID:11606204]</li>
<li id="cite_note-1">vanKuyk PA, de Groot MJ, Ruijter GJ, de Vries RP, and Visser J. The ''Aspergillus niger'' D-xylulose kinase gene is co-expressed with genes encoding arabinan degrading enzymes, and is essential for growth on D-xylose and L-arabinose. Eur J Biochem 2001 Oct; 268(20) 5414-23.[http://www.ncbi.nlm.nih.gov/pubmed/11606204 PMID:11606204]</li>
<li id="cite_note-2">de Groot MJ, van de Vondervoort PJ, de Vries RP, vanKuyk PA, Ruijter GJ, and Visser J. Isolation and characterization of two specific regulatory ''Aspergillus niger'' mutants shows antagonistic regulation of arabinan and xylan metabolism. Microbiology 2003 May; 149(Pt 5) 1183-91. [http://www.ncbi.nlm.nih.gov/pubmed/12724380 PMID:12724380]</li>
<li id="cite_note-2">de Groot MJ, van de Vondervoort PJ, de Vries RP, vanKuyk PA, Ruijter GJ, and Visser J. Isolation and characterization of two specific regulatory ''Aspergillus niger'' mutants shows antagonistic regulation of arabinan and xylan metabolism. Microbiology 2003 May; 149(Pt 5) 1183-91. [http://www.ncbi.nlm.nih.gov/pubmed/12724380 PMID:12724380]</li>
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<li id="cite_note-3">Prathumpai W, Gabelgaard JB, Wanchanthuek P, van de Vondervoort PJ, de Groot MJ, McIntyre M, and Nielsen J. Metabolic control analysis of xylose catabolism in ''Aspergillus''. Biotechnol Prog 2003 Jul-Aug; 19(4) 1136-41. doi:10.1021/bp034020r [http://www.ncbi.nlm.nih.gov/pubmed/12892473 PMID:12892473]</li>
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<li id="cite_note-3">Prathumpai W, Gabelgaard JB, Wanchanthuek P, van de Vondervoort PJ, de Groot MJ, McIntyre M, and Nielsen J. Metabolic control analysis of xylose catabolism in ''Aspergillus''. Biotechnol Prog 2003 Jul-Aug; 19(4) 1136-41. [http://dx.doi.org/10.1021/bp034020r doi:10.1021/bp034020r] [http://www.ncbi.nlm.nih.gov/pubmed/12892473 PMID:12892473]</li>
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<li id="cite_note-4">de Groot MJ, Prathumpai W, Visser J, and Ruijter GJ. Metabolic control analysis of ''Aspergillus niger'' L-arabinose catabolism. Biotechnol Prog 2005 Nov-Dec; 21(6) 1610-6. doi:10.1021/bp050189o [http://www.ncbi.nlm.nih.gov/pubmed/16321042 PMID:16321042]</li>
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<li id="cite_note-4">de Groot MJ, Prathumpai W, Visser J, and Ruijter GJ. Metabolic control analysis of ''Aspergillus niger'' L-arabinose catabolism. Biotechnol Prog 2005 Nov-Dec; 21(6) 1610-6. [http://dx.doi.org/10.1021/bp050189o  doi:10.1021/bp050189o] [http://www.ncbi.nlm.nih.gov/pubmed/16321042 PMID:16321042]</li>
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<li id="cite_note-5">van de Vondervoort PJ, de Groot MJ, Ruijter GJ, and Visser J. Selection and characterisation of a xylitol-derepressed ''Aspergillus niger'' mutant that is apparently impaired in xylitol transport. Appl Microbiol Biotechnol 2006 Dec; 73(4) 881-6. doi:10.1007/s00253-006-0527-y [http://www.ncbi.nlm.nih.gov/pubmed/16932954 PMID:16932954]</li>
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<li id="cite_note-5">de Groot MJL, "Regulation and Control of L-arabinose catabolism in ''Aspergillus niger''", Regulation and Control of L-arabinose catabolism in ''Aspergillus niger'', ISBN 90-8504-251-8, PhD Thesis 2005. [http://library.wur.nl/WebQuery/wurpubs/lang/340292 Link]</li>
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<li id="cite_note-6">van de Vondervoort PJ, de Groot MJ, Ruijter GJ, and Visser J. Selection and characterisation of a xylitol-derepressed ''Aspergillus niger'' mutant that is apparently impaired in xylitol transport. Appl Microbiol Biotechnol 2006 Dec; 73(4) 881-6. [http://dx.doi.org/10.1007/s00253-006-0527-y  doi:10.1007/s00253-006-0527-y] [http://www.ncbi.nlm.nih.gov/pubmed/16932954 PMID:16932954]</li>
<li id="cite_note-7">de Groot MJL, van den Dool C, Wösten HAB, Levisson M, vanKuyk PA, Ruijter GJG, de Vries RP. Regulation of Pentose Catabolic Pathway Genes of ''Aspergillus niger'' Food Technol Biotechnol 2007; 42 134-138. [http://www.ftb.com.hr/45-134.html Link]
<li id="cite_note-7">de Groot MJL, van den Dool C, Wösten HAB, Levisson M, vanKuyk PA, Ruijter GJG, de Vries RP. Regulation of Pentose Catabolic Pathway Genes of ''Aspergillus niger'' Food Technol Biotechnol 2007; 42 134-138. [http://www.ftb.com.hr/45-134.html Link]
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<li id="cite_note-7">Daran-Lapujade P, Rossell S, van Gulik WM, Luttik MA, de Groot MJ, Slijper M, Heck AJ, Daran JM, de Winde JH, Westerhoff HV, Pronk JT, and Bakker BM. The fluxes through glycolytic enzymes in ''Saccharomyces cerevisiae'' are predominantly regulated at posttranscriptional levels. Proc Natl Acad Sci U S A 2007 Oct 2; 104(40) 15753-8. doi:10.1073/pnas.0707476104 [http://www.ncbi.nlm.nih.gov/pubmed/16932954 PMID:17898166]</li>
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<li id="cite_note-8">Daran-Lapujade P, Rossell S, van Gulik WM, Luttik MA, de Groot MJ, Slijper M, Heck AJ, Daran JM, de Winde JH, Westerhoff HV, Pronk JT, and Bakker BM. The fluxes through glycolytic enzymes in ''Saccharomyces cerevisiae'' are predominantly regulated at posttranscriptional levels. Proc Natl Acad Sci U S A 2007 Oct 2; 104(40) 15753-8. [http://dx.doi.org/10.1073/pnas.0707476104 doi:10.1073/pnas.0707476104] [http://www.ncbi.nlm.nih.gov/pubmed/16932954 PMID:17898166]</li>
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<li id="cite_note-8">de Groot MJ, Daran-Lapujade P, van Breukelen B, Knijnenburg TA, de Hulster EA, Reinders MJ, Pronk JT, Heck AJ, and Slijper M. Quantitative proteomics and transcriptomics of anaerobic and aerobic yeast cultures reveals post-transcriptional regulation of key cellular processes. Microbiology 2007 Nov; 153(Pt 11) 3864-78. doi:10.1099/mic.0.2007/009969-0 [http://www.ncbi.nlm.nih.gov/pubmed/16932954 PMID:17975095]</li>
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<li id="cite_note-9">de Groot MJ, Daran-Lapujade P, van Breukelen B, Knijnenburg TA, de Hulster EA, Reinders MJ, Pronk JT, Heck AJ, and Slijper M. Quantitative proteomics and transcriptomics of anaerobic and aerobic yeast cultures reveals post-transcriptional regulation of key cellular processes. Microbiology 2007 Nov; 153(Pt 11) 3864-78. [http://dx.doi.org/doi:10.1099/mic.0.2007/009969-0 doi:10.1099/mic.0.2007/009969-0] [http://www.ncbi.nlm.nih.gov/pubmed/16932954 PMID:17975095]</li>
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<li id="cite_note-9">de Groot MJL, "Regulation and Control of L-arabinose catabolism in ''Aspergillus niger''", Regulation and Control of L-arabinose catabolism in Aspergillus niger, ISBN 90-8504-251-8, PhD Thesis 2005. [http://library.wur.nl/WebQuery/wurpubs/lang/340292 Link]
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<!--/biblio -->
<!--/biblio -->
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</ol>
==Useful links==
==Useful links==
*[http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=11606204,12724380,12892473,16321042,16932954,17898166,17975095 All pubmed abstracts]
*[http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=11606204,12724380,12892473,16321042,16932954,17898166,17975095 All pubmed abstracts]
*[http://ict.ewi.tudelft.nl/index.php?option=com_contact&task=view&id=100 TU Delft - personal webpage]
*[http://ict.ewi.tudelft.nl/index.php?option=com_contact&task=view&id=100 TU Delft - personal webpage]
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{{Template:TUDelftiGEM2008_sidebar}}

Latest revision as of 09:37, 28 November 2008

Contact Info

  • Marco JL de Groot
  • Delft University of Technology
  • Mekelweg 4
  • NL-2628CD Delft
  • The Netherlands

I work in the Department of Mediamatics, Information and Communication Theory Group section Bioinformatics at Delft University of Technology.

Publications

  1. vanKuyk PA, de Groot MJ, Ruijter GJ, de Vries RP, and Visser J. The Aspergillus niger D-xylulose kinase gene is co-expressed with genes encoding arabinan degrading enzymes, and is essential for growth on D-xylose and L-arabinose. Eur J Biochem 2001 Oct; 268(20) 5414-23.[http://www.ncbi.nlm.nih.gov/pubmed/11606204 PMID:11606204]
  2. de Groot MJ, van de Vondervoort PJ, de Vries RP, vanKuyk PA, Ruijter GJ, and Visser J. Isolation and characterization of two specific regulatory Aspergillus niger mutants shows antagonistic regulation of arabinan and xylan metabolism. Microbiology 2003 May; 149(Pt 5) 1183-91. [http://www.ncbi.nlm.nih.gov/pubmed/12724380 PMID:12724380]
  3. Prathumpai W, Gabelgaard JB, Wanchanthuek P, van de Vondervoort PJ, de Groot MJ, McIntyre M, and Nielsen J. Metabolic control analysis of xylose catabolism in Aspergillus. Biotechnol Prog 2003 Jul-Aug; 19(4) 1136-41. [http://dx.doi.org/10.1021/bp034020r doi:10.1021/bp034020r] [http://www.ncbi.nlm.nih.gov/pubmed/12892473 PMID:12892473]
  4. de Groot MJ, Prathumpai W, Visser J, and Ruijter GJ. Metabolic control analysis of Aspergillus niger L-arabinose catabolism. Biotechnol Prog 2005 Nov-Dec; 21(6) 1610-6. [http://dx.doi.org/10.1021/bp050189o doi:10.1021/bp050189o] [http://www.ncbi.nlm.nih.gov/pubmed/16321042 PMID:16321042]
  5. de Groot MJL, "Regulation and Control of L-arabinose catabolism in Aspergillus niger", Regulation and Control of L-arabinose catabolism in Aspergillus niger, ISBN 90-8504-251-8, PhD Thesis 2005. [http://library.wur.nl/WebQuery/wurpubs/lang/340292 Link]
  6. van de Vondervoort PJ, de Groot MJ, Ruijter GJ, and Visser J. Selection and characterisation of a xylitol-derepressed Aspergillus niger mutant that is apparently impaired in xylitol transport. Appl Microbiol Biotechnol 2006 Dec; 73(4) 881-6. [http://dx.doi.org/10.1007/s00253-006-0527-y doi:10.1007/s00253-006-0527-y] [http://www.ncbi.nlm.nih.gov/pubmed/16932954 PMID:16932954]
  7. de Groot MJL, van den Dool C, Wösten HAB, Levisson M, vanKuyk PA, Ruijter GJG, de Vries RP. Regulation of Pentose Catabolic Pathway Genes of Aspergillus niger Food Technol Biotechnol 2007; 42 134-138. [http://www.ftb.com.hr/45-134.html Link]
  8. Daran-Lapujade P, Rossell S, van Gulik WM, Luttik MA, de Groot MJ, Slijper M, Heck AJ, Daran JM, de Winde JH, Westerhoff HV, Pronk JT, and Bakker BM. The fluxes through glycolytic enzymes in Saccharomyces cerevisiae are predominantly regulated at posttranscriptional levels. Proc Natl Acad Sci U S A 2007 Oct 2; 104(40) 15753-8. [http://dx.doi.org/10.1073/pnas.0707476104 doi:10.1073/pnas.0707476104] [http://www.ncbi.nlm.nih.gov/pubmed/16932954 PMID:17898166]
  9. de Groot MJ, Daran-Lapujade P, van Breukelen B, Knijnenburg TA, de Hulster EA, Reinders MJ, Pronk JT, Heck AJ, and Slijper M. Quantitative proteomics and transcriptomics of anaerobic and aerobic yeast cultures reveals post-transcriptional regulation of key cellular processes. Microbiology 2007 Nov; 153(Pt 11) 3864-78. [http://dx.doi.org/doi:10.1099/mic.0.2007/009969-0 doi:10.1099/mic.0.2007/009969-0] [http://www.ncbi.nlm.nih.gov/pubmed/16932954 PMID:17975095]

Useful links

  • [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=11606204,12724380,12892473,16321042,16932954,17898166,17975095 All pubmed abstracts]
  • [http://ict.ewi.tudelft.nl/index.php?option=com_contact&task=view&id=100 TU Delft - personal webpage]
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