Team:TUDelft/Papers

From 2008.igem.org

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<li>Saheli Chowdhury, Curdin Ragaz, Emma Kreuger, and Franz Narberhaus. Temperature-controlled Structural Alterations of an RNA Thermometer. ''The Journal of Biological Chemistry'', 278(48):47915-47921, 2003. [http://www.ncbi.nlm.nih.gov/pubmed/12963744 PMID:12963744]</li>
<li>Saheli Chowdhury, Curdin Ragaz, Emma Kreuger, and Franz Narberhaus. Temperature-controlled Structural Alterations of an RNA Thermometer. ''The Journal of Biological Chemistry'', 278(48):47915-47921, 2003. [http://www.ncbi.nlm.nih.gov/pubmed/12963744 PMID:12963744]</li>
<li>Nocker A, Hausherr T, Balsiger S, Krstulovic NP, Hennecke H, Narberhaus F. A mRNA-based thermosensor controls expression of rhizobial heat shock genes. 29(23):4800-4807, 2001 [http://www.ncbi.nlm.nih.gov/pubmed/11726689 PMID:11726689]</li>
<li>Nocker A, Hausherr T, Balsiger S, Krstulovic NP, Hennecke H, Narberhaus F. A mRNA-based thermosensor controls expression of rhizobial heat shock genes. 29(23):4800-4807, 2001 [http://www.ncbi.nlm.nih.gov/pubmed/11726689 PMID:11726689]</li>
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</ul>
 
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===Bioinformatics===
 
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<ul class="references">
 
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<li>Genome-wide bioinformatic prediction and experimental evaluation of potential RNA thermometers - Torsten Waldminghaus · Lena C. Gaubig · Franz Narberhaus - Mol Genet Genomics (2007) 278:555–564</li>
 
</ul>
</ul>

Revision as of 14:45, 29 October 2008

Contents

References

Thermometer

  • J. Lee & N.A. Kotov. Thermometer design at the nanoscale. Nano Today, 2(1):48-51, 2007. [http://dx.doi.org/10.1016/S1748-0132(07)70019-1 doi:10.1016/S1748-0132(07)70019-1]

Temperature

RNA switches

Some papers on RNA switches in general.

  • RNA switches regulate initiation of translation in bacteria - Stefano Marzi, Pierre Fechter, Cle´ment Chevalier, Pascale Romby and Thomas Geissmann - Biol. Chem., Vol. 389, pp. 585–598, May 2008
  • mRNA-mediated detection of environmental conditions - Narberhaus, August 2002 [http://www.springerlink.com/content/dv19jt8aw0vdm0ff/fulltext.pdf]

A paper on RNA switch engineering

  • RNA synthetic biology - F.J. Isaacs et al., 2006 [http://knowledgecontext.org/COSMOS/RNA_synthetic_biology.pdf]

RNA thermometers

  • F. Narberhaus, T. Waldminghaus & S. Chowdhury. RNA thermometers. FEMS Microbiol Rev, 30(1):3-16, 2006. [http://www.ncbi.nlm.nih.gov/pubmed/16438677 PMID:16438677]
  • Saheli Chowdhury, Christophe Maris, Frédéric H-T Allain, and Franz Narberhaus. Molecular basis for temperature sensing by an RNA thermometer. The EMBO Journal, 25:2487–2497, 2006. [http://www.ncbi.nlm.nih.gov/pubmed/16710302 PMID:16710302]
  • J . Johansson, P . Mandin, A . Renzoni, C . Chiaruttini, M . Springer, and P . Cossart. An RNA thermosensor controls expression of virulance genes in Listeria monocytogenes. Cell , 110(5):551-561, 2002. [http://www.ncbi.nlm.nih.gov/pubmed/12230973 PMID:12230973]
  • Torsten Waldminghaus, Nadja Heidrich, Sabine Brantl, and Franz Narberhaus. FourU: a novel type of RNA thermometer in Salmonella. Molecular Microbiology, 65(2):413-424, 2007. [http://www.ncbi.nlm.nih.gov/pubmed/17630972 PMID:17630972]
  • M. Wieland and J.S. Hartig. RNA Quadruplex-Based Modulation of Gene Expression. Chemistry & Biology, 14(7):757–763, 2007. [http://www.ncbi.nlm.nih.gov/pubmed/17656312 PMID:17656312]
  • Saheli Chowdhury, Curdin Ragaz, Emma Kreuger, and Franz Narberhaus. Temperature-controlled Structural Alterations of an RNA Thermometer. The Journal of Biological Chemistry, 278(48):47915-47921, 2003. [http://www.ncbi.nlm.nih.gov/pubmed/12963744 PMID:12963744]
  • Nocker A, Hausherr T, Balsiger S, Krstulovic NP, Hennecke H, Narberhaus F. A mRNA-based thermosensor controls expression of rhizobial heat shock genes. 29(23):4800-4807, 2001 [http://www.ncbi.nlm.nih.gov/pubmed/11726689 PMID:11726689]

Color

  • A general text on using micro-organisms for flavor production [http://www.springerlink.com/content/k8m037341x701594/fulltext.pdf]
  • The references page on the edinburgh 2007 wiki, several references on color and flavor are present [http://parts.mit.edu/igem07/index.php/Edinburgh/Yoghurt/References]

Two papers on Geosmin biosynthesis (an earthy odorant):

  • Biosynthesis of the earthy odorant geosmin by a bifunctional Streptomyces coelicolor enzyme, Jiang et al.[http://www.nature.com/nchembio/journal/v3/n11/pdf/nchembio.2007.29.pdf]
  • A Novel Type of Geosmin Biosynthesis in Myxobacteria, Dickschat et al. [http://pubs.acs.org/cgi-bin/article.cgi/joceah/2005/70/i13/pdf/jo050449g.pdf]

Papers on plant volatile production:

  • Biosynthesis of Plant Volatiles: Nature’s Diversity and Ingenuity, Pichersky et al. [http://www.sciencemag.org/cgi/reprint/311/5762/808.pdf]
  • Biosynthesis of plant-derived flavor compounds, Schwab et al. [http://www3.interscience.wiley.com/cgi-bin/fulltext/120090045/PDFSTART]
  • Rose Scent [http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=151220]
  • Stable-light producing E. coli [http://www.springerlink.com/index/P145100J28J0122H.pdf]
  • Identification of genes for bacterial bioluminescence [http://www.pubmedcentral.nih.gov/picrender.fcgi?artid=345387&blobtype=pdf]
  • Group in Leiden working with the Soil Bacterium Streptomyces [http://wwwchem.gorlaeus.net/micdev/micdev_pages/vanwezel.html]
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