Difference between revisions of "Part:BBa K1790004:Design"
 
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=== GLN_H gene source===
  
  
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'''GBS'''
  
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'''T7 system'''
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Geobacillus stearothermophilus (formally Bacillus stearothermophilus) is a rod-shaped, Gram-positive bacterium and a member of the division Firmicutes. The bacteria is a thermophile and is widely distributed in soil, hot springs, ocean sediment, and is a cause of spoilage in food products. It will grow within a temperature range of 30-75 degrees Celsius. Some strains are capable of oxidizing carbon monoxide aerobically. It is commonly used as a challenge organism for sterilization validation studies and periodic check of sterilization cycles. It was first described in 1920 as Bacillus stearothermophilus, but, together with Bacillus thermoglucosidasius, it was reclassified as a member of the genus Geobacillus in 2001. Recently, a DNA polymerase derived from these bacteria, Bst polymerase, has become important in molecular biology applications. Bst polymerase has a helicase-like activity, making it able to unwind DNA strands. Its optimum functional temperature is between 60 and 65 °C and it is denatured at temperatures above 70 °C.
  
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http://www.genomics.agilent.com/article.jsp?pageId=472
 
  
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===Our biosensor===
  
  
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[[File:456.gif‎]]
  
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The GlnHPQ high-affinity glutamine transport system is a member of the ATP-Binding Cassette (ABC) Superfamily of transporters [Wu95]. Based on sequence similarity, GlnH is the periplasmic glutamine-binding protein, GlnQ is the ATP-binding component, and GlnP is the membrane component of the ABC transporter. Mutation of glnP results in the impaired ability to transport glutamine as well as the inability to utilized glutamine as a sole source of carbon [Masters81, Nohno86]. Expression of the cloned glnHPQ genes on a plasmid vector restored the glnH, glnP and glnQ mutants' abilities to transport glutamine and utilize glutamine as a sole carbon source [Nohno86].
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===Our protein===
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[[File:201.gif‎]]
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The Gln-H protein after adding the linkers. The linkers added to the ends of the C terminal and N terminal.
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This mutation cycle allows one of the new Terminal ends of the protein to unite (when on each end is half of another reporter gene), in actual fact the two parts of the gene come together and form comfortable conditions for creating color. The change in color will occur only when the connection is through gluten.
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The mutation protein will act as follows: Without gluten - the protein will be in the open position and therefore the half enzyme will remain inactive and there will not be a color reaction.
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The presence of gluten - the protein closes, following; the half enzyme will close and become an active enzyme with the result of a color reaction.
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===References===
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Daniel Leffler, MD, MS, The Celiac Center at Beth Israel Deaconness Medical Center Datamonitor Group, 2009, Packaged Facts, 2011 ahttp://www.biocyc.org/ECOLI/NEW-IMAGE?type=GENE&object=G6932
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Satoshi Okada et al. (2009) Circular permutation of ligand-binding module improves dynamic range of genetically encoded FRET-based nanosensor. Department of Computational Biology, Graduate School of Frontier Sciences, University of Tokyo, 5-1-5 Kashiwanoha, Kashiwa 277-8561, Japan
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Katrin Gruenwald1 et al. (2012) Visualization of Glutamine Transporter Activities in Living Cells Using Genetically Encoded Glutamine Sensors. Department of Plant Pathology, Physiology and Weed Science, Virginia Tech, Blacksburg, Virginia, United States of America, 2 Department of Botany, Faculty of Science, Hamdard University, New Delhi, India
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Fabio Cimaglia et al. (2014) Study of a New Gliadin Capture Agent and Development of a Protein Microarray as a New Approach for Gliadin Detection Biotecgen srl, Lecce, Italy 2 Consiglio Nazionale delle Ricerche- Istituto di Scienze delle Produzioni Alimentari, Unità Operativa di Lecce, Lecce, Italy
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Ste´phanie Cabantous et al (2013). A New Protein-Protein Interaction Sensor Based on Tripartite Split-GFP Association. INSERM UMR1037, Cancer Research Center of Toulouse, Universite´ de Toulouse, Institut Claudius Regaud, F-31052 Toulouse, France, 2 Bioscience Division, MS-M888, Los Alamos National Laboratory, Los Alamos, NM 87545, USA, 3 CNRS, IPBS (Institut de Pharmacologie et de Biologie Structurale), F-31077 Toulouse, France; Universite´ de Toulouse; UPS, IPBS, F-31077 Toulouse, France, 4 Department of Microbiology, University of Washington, Seattle, WA 98195, USA, 5 Rockefeller University, New York, NY 10065, USA
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Alessio Ausili et al (2013). Periplasmic Binding Proteins in Thermophiles: Characterization and Potential Application of an Arginine-Binding Protein from Thermotoga maritima: A Brief Thermo-Story. Laboratory for Molecular Sensing, Institute of Protein Biochemistry, CNR, Via Pietro Castellino, 111, Napoli, 80131, Italy; E-Mails: a.ausili@ibp.cnr.it (A.A.); m.staiano@ibp.cnr.it (M.S.); a.varriale@ibp.cnr.it (A.V.); a.capo@ibp.cnr.it (A.C.) 2 Department of Chemistry, University of Richmond, Richmond, VA 23173, USA; E-Mail: jdattelb@richmond.edu

Latest revision as of 22:58, 12 September 2015

GLN_H gene source

GBS

Geobacillus stearothermophilus (formally Bacillus stearothermophilus) is a rod-shaped, Gram-positive bacterium and a member of the division Firmicutes. The bacteria is a thermophile and is widely distributed in soil, hot springs, ocean sediment, and is a cause of spoilage in food products. It will grow within a temperature range of 30-75 degrees Celsius. Some strains are capable of oxidizing carbon monoxide aerobically. It is commonly used as a challenge organism for sterilization validation studies and periodic check of sterilization cycles. It was first described in 1920 as Bacillus stearothermophilus, but, together with Bacillus thermoglucosidasius, it was reclassified as a member of the genus Geobacillus in 2001. Recently, a DNA polymerase derived from these bacteria, Bst polymerase, has become important in molecular biology applications. Bst polymerase has a helicase-like activity, making it able to unwind DNA strands. Its optimum functional temperature is between 60 and 65 °C and it is denatured at temperatures above 70 °C.


Our biosensor

456.gif

Our protein

201.gif


The Gln-H protein after adding the linkers. The linkers added to the ends of the C terminal and N terminal. This mutation cycle allows one of the new Terminal ends of the protein to unite (when on each end is half of another reporter gene), in actual fact the two parts of the gene come together and form comfortable conditions for creating color. The change in color will occur only when the connection is through gluten. The mutation protein will act as follows: Without gluten - the protein will be in the open position and therefore the half enzyme will remain inactive and there will not be a color reaction. The presence of gluten - the protein closes, following; the half enzyme will close and become an active enzyme with the result of a color reaction.

References

Daniel Leffler, MD, MS, The Celiac Center at Beth Israel Deaconness Medical Center Datamonitor Group, 2009, Packaged Facts, 2011 ahttp://www.biocyc.org/ECOLI/NEW-IMAGE?type=GENE&object=G6932

Satoshi Okada et al. (2009) Circular permutation of ligand-binding module improves dynamic range of genetically encoded FRET-based nanosensor. Department of Computational Biology, Graduate School of Frontier Sciences, University of Tokyo, 5-1-5 Kashiwanoha, Kashiwa 277-8561, Japan

Katrin Gruenwald1 et al. (2012) Visualization of Glutamine Transporter Activities in Living Cells Using Genetically Encoded Glutamine Sensors. Department of Plant Pathology, Physiology and Weed Science, Virginia Tech, Blacksburg, Virginia, United States of America, 2 Department of Botany, Faculty of Science, Hamdard University, New Delhi, India

Fabio Cimaglia et al. (2014) Study of a New Gliadin Capture Agent and Development of a Protein Microarray as a New Approach for Gliadin Detection Biotecgen srl, Lecce, Italy 2 Consiglio Nazionale delle Ricerche- Istituto di Scienze delle Produzioni Alimentari, Unità Operativa di Lecce, Lecce, Italy

Ste´phanie Cabantous et al (2013). A New Protein-Protein Interaction Sensor Based on Tripartite Split-GFP Association. INSERM UMR1037, Cancer Research Center of Toulouse, Universite´ de Toulouse, Institut Claudius Regaud, F-31052 Toulouse, France, 2 Bioscience Division, MS-M888, Los Alamos National Laboratory, Los Alamos, NM 87545, USA, 3 CNRS, IPBS (Institut de Pharmacologie et de Biologie Structurale), F-31077 Toulouse, France; Universite´ de Toulouse; UPS, IPBS, F-31077 Toulouse, France, 4 Department of Microbiology, University of Washington, Seattle, WA 98195, USA, 5 Rockefeller University, New York, NY 10065, USA

Alessio Ausili et al (2013). Periplasmic Binding Proteins in Thermophiles: Characterization and Potential Application of an Arginine-Binding Protein from Thermotoga maritima: A Brief Thermo-Story. Laboratory for Molecular Sensing, Institute of Protein Biochemistry, CNR, Via Pietro Castellino, 111, Napoli, 80131, Italy; E-Mails: a.ausili@ibp.cnr.it (A.A.); m.staiano@ibp.cnr.it (M.S.); a.varriale@ibp.cnr.it (A.V.); a.capo@ibp.cnr.it (A.C.) 2 Department of Chemistry, University of Richmond, Richmond, VA 23173, USA; E-Mail: jdattelb@richmond.edu