User:Marnix H. Medema

From OpenWetWare

(Difference between revisions)
Jump to: navigation, search
m
Line 28: Line 28:
==Publications==
==Publications==
<!-- Replace the PubMed ID's ("pmid=#######") below with the PubMed ID's for your publications.  You can add or remove lines as needed -->
<!-- Replace the PubMed ID's ("pmid=#######") below with the PubMed ID's for your publications.  You can add or remove lines as needed -->
-
<ul><li>Medema MH*, Alam MT*, Breitling R, Takano E (2011) The future of industrial antibiotic production: from random mutagenesis to synthetic biology. Bioengineered Bugs, in press [http://www.es.landesbioscience.com/journals/biobugs/article/16114/]<br></ul>
+
<ul><li>Medema MH, van Raaphorst R, Takano E, Breitling R (2012) Computational tools for the synthetic design of biochemical pathways. Nature Reviews Microbiology, AOP January 23 2012. [http://www.nature.com/nrmicro/journal/vaop/ncurrent/abs/nrmicro2717.html]<br></ul>
 +
<ul><li>Medema MH*, Alam MT*, Breitling R, Takano E (2011) The future of industrial antibiotic production: from random mutagenesis to synthetic biology. Bioengineered Bugs 2(4): 230-233. [http://www.es.landesbioscience.com/journals/biobugs/article/16114/]<br></ul>
<ul><li>Alam MT, Medema MH, Takano E, Breitling R (2011) Comparative genome-scale metabolic modeling of actinomycetes: The topology of essential core metabolism. FEBS Letters 585(14): 2389-2394. [http://www.febsletters.org/article/S0014-5793%2811%2900476-5/abstract]<br></ul>
<ul><li>Alam MT, Medema MH, Takano E, Breitling R (2011) Comparative genome-scale metabolic modeling of actinomycetes: The topology of essential core metabolism. FEBS Letters 585(14): 2389-2394. [http://www.febsletters.org/article/S0014-5793%2811%2900476-5/abstract]<br></ul>
<ul><li>Medema MH, Blin K, Cimermancic P, de Jager V, Zakrzewski P, Fischbach MA, Weber T, Takano E, Breitling R (2011) antiSMASH: rapid identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences. Nucleic Acids Research 39: W339-W346. [http://nar.oxfordjournals.org/content/39/suppl_2/W339]<br></ul>
<ul><li>Medema MH, Blin K, Cimermancic P, de Jager V, Zakrzewski P, Fischbach MA, Weber T, Takano E, Breitling R (2011) antiSMASH: rapid identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences. Nucleic Acids Research 39: W339-W346. [http://nar.oxfordjournals.org/content/39/suppl_2/W339]<br></ul>

Revision as of 07:01, 23 January 2012

I am a new member of OpenWetWare!

Contents

Contact Info

Marnix H. Medema
Marnix H. Medema

I work in the Department of Microbial Physiology and the Groningen Bioinformatics Centre at the University of Groningen, as a Ph.D. student on a project on genome mining and synthetic biology of microbial secondary metabolites.

Education

  • 2009 - present: Ph.D. Student, University of Groningen
  • 2008, M.Sc. Biomolecular Sciences, University of Groningen
  • 2006, B.Sc. Biology, Radboud University Nijmegen

Research interests

  1. Comparative and Evolutionary Genomics
  2. Antibiotics, Natural Products
  3. Synthetic Biology
  4. Streptomyces Biology

Publications

  • Medema MH, van Raaphorst R, Takano E, Breitling R (2012) Computational tools for the synthetic design of biochemical pathways. Nature Reviews Microbiology, AOP January 23 2012. [1]
  • Medema MH*, Alam MT*, Breitling R, Takano E (2011) The future of industrial antibiotic production: from random mutagenesis to synthetic biology. Bioengineered Bugs 2(4): 230-233. [2]
  • Alam MT, Medema MH, Takano E, Breitling R (2011) Comparative genome-scale metabolic modeling of actinomycetes: The topology of essential core metabolism. FEBS Letters 585(14): 2389-2394. [3]
  • Medema MH, Blin K, Cimermancic P, de Jager V, Zakrzewski P, Fischbach MA, Weber T, Takano E, Breitling R (2011) antiSMASH: rapid identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences. Nucleic Acids Research 39: W339-W346. [4]
  • Röttig M, Medema MH, Blin K, Rausch C, Weber T, Kohlbacher O (2011) NRPSPredictor2 -- a web server for predicting NRPS adenylation domain specificity. Nucleic Acids Research 39: W362-W367. [5]
  • Medema MH*, Breitling R, Takano E (2011) Synthetic biology in Streptomyces bacteria. Methods in Enzymology 497: 485-502. [6]
  • Medema MH*, Alam MT*, Heijne WH, van den Berg MA, Müller U, Trefzer A, Bovenberg RA, Breitling R, Takano E (2011) Genome-wide gene expression changes in an industrial clavulanic acid overproduction strain of Streptomyces clavuligerus. Microbial Biotechnology 4(2): 300-305. [7]
  • Medema MH, Breitling R, Bovenberg R, Takano E (2011) Exploiting plug-and-play synthetic biology for drug discovery and production in microorganisms. Nature Reviews Microbiology 9(2): 131-137. [8]
  • Medema MH, Trefzer A, Kovalchuk A, van den Berg M, Müller U, Heijne W, Wu L, Alam MT, Ronning CM, Nierman WC, Bovenberg RA, Breitling R, Takano E (2010) The sequence of a 1.8-mb bacterial linear plasmid reveals a rich evolutionary reservoir of secondary metabolic pathways. Genome Biology and Evolution 2: 212-224. [9]
  • Medema MH*, Zhou M*, van Hijum SA, Gloerich J, Wessels HJ, Siezen RJ, Strous M (2010) A predicted physicochemically distinct sub-proteome associated with the intracellular organelle of the anammox bacterium Kuenenia stuttgartiensis. BMC Genomics 11: 299. [10]
  • van Hijum SA*, Medema MH*, Kuipers OP (2009) Mechanisms and evolution of control logic in prokaryotic transcriptional regulation. Microbiology and Molecular Biology Reviews 73(3): 481-509. [11]
  • Ettwig KF, Shima S, van de Pas-Schoonen KT, Kahnt J, Medema MH, Op den Camp HJ, Jetten MS, Strous M (2008) Denitrifying bacteria anaerobically oxidize methane in the absence of Archaea. Environmental Microbiology 10(11): 3164-3173. [12]

*Contributed equally

Personal tools