Team:Chiba/Project

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{| style="color:#1b2c8a;background-color:#0c6;" cellpadding="3" cellspacing="1" border="1" bordercolor="#fff" width="62%" align="center"
 
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!align="center"|[[Team:Chiba|Home]]
 
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!align="center"|[[Team:Chiba/Team|Team]]
 
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!align="center"|[https://igem.org/Team.cgi?year=2013&team_name=Chiba Official Team Profile]
 
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!align="center"|[[Team:Chiba/Project|Project]]
 
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!align="center"|[[Team:Chiba/Parts|Parts Submitted to the Registry]]
 
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!align="center"|[[Team:Chiba/Modeling|Modeling]]
 
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== '''Overall project''' ==
 
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Ferruginous magnetic E.coli. Tell us more about your project.  Give us background. Use this is the abstract of your project.  Be descriptive but concise (1-2 paragraphs)
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<h2 id="over" style="background-color:#ff9933"><center>Introduction</center></h2>
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<strong>Why bother magnetizing?</strong><br>
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&nbsp;&nbsp;&nbsp;&nbsp;We are surrounded by magnets.  Magnetized materials are everywhere makes up core components of electrical switches, speaker systems, and portable memory devices (including credit cards), and diagnostic/ separation systems.  Our hope is to program <i>E. coli.</i> cell to turn into magnets to be used for various purposes.<br><br>
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== Project Details==
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Magnet force is unique in that; <br>
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&nbsp;&nbsp;&nbsp;&nbsp;1. Non-contact (least chance of damaging and contamination)<br>
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&nbsp;&nbsp;&nbsp;&nbsp;2. Barrier-free mode of collections (can penetrate the physical blockage)<br>
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Our project is to storage iron inside <i>E.coli</i> and make magnetic <i>E.coli</i> .<br>
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&nbsp;&nbsp;&nbsp;&nbsp;3. Rapidity (immediate exercise)<br>
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We collect <i>E.coli</i> at a near place using a magnet, and express genes by intercellular interaction.<br>
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&nbsp;&nbsp;&nbsp;&nbsp;4. Duration (eternal action if needed)<br><br>
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To control the intracellular environment oxidative, we would knock down several genes.<br>
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<h2 id="over" style="background-color:#ff9933"><center>Overview/Strategies</center></h2>
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<p>&nbsp;&nbsp;&nbsp;&nbsp;We have three steps to create magnetic <i>E. coli</i>.<br><br>
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<strong>1. Reprogramming the iron homeostasis:</strong>To maximize the chance of magnetization, we would like to pump as much Fe into the cell as possible, and keep it.  To this end, we tried to eliminate the negative controller (encoded by <i>fur</i>) on the Fec system (iron importer). Also, we tried to knock down the Fe exporter <i>fie</i>F. <br><br>
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<strong>2. Establishment of Iron storage system:</strong> Fe (II) has severe toxicity to the cell because it casts multiple damages to the DNAs via Fenton reaction. To deal with this problem, we tried below thing; ferritins are cage-shaped multi-subunit proteins for collecting and accumulating ferrous ions (Fe (II)) inside. This way you can well isolate Fe from the cytosolic components.<br><br>
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<strong>3. Reprogramming the redox state of the cell:</strong> Some metal oxides of the spinel type i.e. Fe<sub>3</sub>O<sub>4</sub> have ferrimagnetism due to the disparity of magnetic moment. To be better attracted by the magnet, higher ratio of Fe (III) over Fe (II) is preferred. To this end, <i>E. coli</i> 's cytosol system will be reprogrammed from reducing to oxidating, by knocking down genes encoding <i>trx</i>B and <i>gor</i>  so that ferrous ions are easier to be oxidized and exist in cytosol. <br><br>
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=== Part 2 ===
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&nbsp;&nbsp;&nbsp;&nbsp;Because most of the genetic operation above mentioned should have significant impact to the cell, we used <a href="https://2013.igem.org/Team:Chiba/Parts#CRISPRi"><strong>CRISPRi technology</strong></a> for the temporal/ transitional knock-out of the target genes above.  <br><br>
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&nbsp;&nbsp;&nbsp;&nbsp;Also, to speed up the construction of BioBrick, we re-engineered the existing Biobrick (<a href="http://parts.igem.org/Part:BBa_I746908">BBa_I746908</a>) coding Arabinose-triggering GFP generators so that one can quickly replace the GFP with genes of interest using <a href="https://2013.igem.org/Team:Chiba/Parts#golden"><strong>GoldenGate method.</strong></a><br><br>
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=== The Experiments ===
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<h2 style="background-color:#ff9933"><center>Project</center></h2>
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=== Part 3 ===
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<a href="https://2013.igem.org/Team:Chiba/Project/uptake"><img src = "https://static.igem.org/mediawiki/2013/archive/c/c2/20130927162646%21Chiba_uptake.jpg" ALT = "#"width="216.5px"height="349px"></A>
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== Results ==
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<a href="https://2013.igem.org/Team:Chiba/Project/store"><img src = "https://static.igem.org/mediawiki/2013/a/a3/Chiba_storage.jpg" ALT = "#"width="211px"height="346.5px"></a>
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<a href="https://2013.igem.org/Team:Chiba/Project/oxidation"><img src = "https://static.igem.org/mediawiki/2013/archive/8/8b/20130927163941%21Chiba_oxidation.jpg" ALT = "#"width="218px"height="349.5px"></a>
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<a href="https://2013.igem.org/Team:Chiba/Project/uptake"><strong>Reprogramming the iron <br>homeostasis</strong></a>
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<a href="https://2013.igem.org/Team:Chiba/Project/store"><strong>Establishment of Iron <br>storage system</strong></a>
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<a href="https://2013.igem.org/Team:Chiba/Project/oxidation"><strong>Reprogramming the redox state <br>of the cell</strong></a>
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Latest revision as of 04:21, 28 September 2013

iGEM-2013 Chiba

iGEM-2013 Chiba

Introduction

Why bother magnetizing?
    We are surrounded by magnets. Magnetized materials are everywhere makes up core components of electrical switches, speaker systems, and portable memory devices (including credit cards), and diagnostic/ separation systems. Our hope is to program E. coli. cell to turn into magnets to be used for various purposes.

Magnet force is unique in that;
    1. Non-contact (least chance of damaging and contamination)
    2. Barrier-free mode of collections (can penetrate the physical blockage)
    3. Rapidity (immediate exercise)
    4. Duration (eternal action if needed)

Overview/Strategies

    We have three steps to create magnetic E. coli.

1. Reprogramming the iron homeostasis:To maximize the chance of magnetization, we would like to pump as much Fe into the cell as possible, and keep it. To this end, we tried to eliminate the negative controller (encoded by fur) on the Fec system (iron importer). Also, we tried to knock down the Fe exporter fieF.

2. Establishment of Iron storage system: Fe (II) has severe toxicity to the cell because it casts multiple damages to the DNAs via Fenton reaction. To deal with this problem, we tried below thing; ferritins are cage-shaped multi-subunit proteins for collecting and accumulating ferrous ions (Fe (II)) inside. This way you can well isolate Fe from the cytosolic components.

3. Reprogramming the redox state of the cell: Some metal oxides of the spinel type i.e. Fe3O4 have ferrimagnetism due to the disparity of magnetic moment. To be better attracted by the magnet, higher ratio of Fe (III) over Fe (II) is preferred. To this end, E. coli 's cytosol system will be reprogrammed from reducing to oxidating, by knocking down genes encoding trxB and gor so that ferrous ions are easier to be oxidized and exist in cytosol.

    Because most of the genetic operation above mentioned should have significant impact to the cell, we used CRISPRi technology for the temporal/ transitional knock-out of the target genes above.

    Also, to speed up the construction of BioBrick, we re-engineered the existing Biobrick (BBa_I746908) coding Arabinose-triggering GFP generators so that one can quickly replace the GFP with genes of interest using GoldenGate method.

Project

# # #
Reprogramming the iron
homeostasis 		Establishment of Iron
storage system 		Reprogramming the redox state
of the cell

Retrieved from "http://2013.igem.org/Team:Chiba/Project"