Team:Goettingen/Safety

From 2013.igem.org

(Difference between revisions)
(→1. Please describe the chassis organism(s) you will be using for this project. lf you will be using more than one chassis organism, provide information on each of them:)
(→3. List and describe all new or modified coding regions you will be using in your project. (If you use parts from the 2013 iGEM Distribution without modifying them, you do not need to list those parts.))
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==3. List and describe all new or modified coding regions you will be using in your project. (If you use parts from the 2013 iGEM Distribution without modifying them, you do not need to list those parts.)==
==3. List and describe all new or modified coding regions you will be using in your project. (If you use parts from the 2013 iGEM Distribution without modifying them, you do not need to list those parts.)==
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<table class="MsoTableGrid" border="1" cellspacing="0" cellpadding="0" style="border-collapse:collapse;border:none">
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<tbody><tr>
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  <td valign="top" style="border:solid windowtext 1.0pt;padding:0pt 5.4pt 0pt 5.4pt">
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  <p class="MsoNormal"><span lang="EN-US" style="font-size:10.0pt;font-family:TimesNewRomanPSMT">Part
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  number</span><span lang="EN-US" style="font-size:10.0pt;font-family:TimesNewRoman">.</span></p>
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  </td>
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  <td width="182" valign="top" style="width:136.55pt;border:solid windowtext 1.0pt;
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  <p class="MsoNormal"><span lang="EN-US" style="font-size:10.0pt;font-family:TimesNewRomanPSMT">Where
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  did you get the physical DNA for this part (which lab, synthesis &nbsp;company,
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  etc)</span></p>
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  </td>
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  <td width="156" valign="top" style="width:117.0pt;border:solid windowtext 1.0pt;
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  border-left:none;padding:0pt 5.4pt 0pt 5.4pt">
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  <p class="MsoNormal"><span lang="EN-US" style="font-size:10.0pt;font-family:TimesNewRomanPSMT">What
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  pecies does this part originally come from?</span></p>
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  </td>
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  <td width="97" valign="top" style="width:72.75pt;border:solid windowtext 1.0pt;
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  border-left:none;padding:0pt 5.4pt 0pt 5.4pt">
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  <p class="MsoNormal"><span lang="EN-US" style="font-size:10.0pt;font-family:TimesNewRomanPSMT">What
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  is the Risk Group of the species?</span></p>
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  </td>
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  <td width="263" valign="top" style="width:197.25pt;border:solid windowtext 1.0pt;
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  border-left:none;padding:0pt 5.4pt 0pt 5.4pt">
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  <p class="MsoNormal"><span lang="EN-US" style="font-size:10.0pt;font-family:TimesNewRomanPSMT">What
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  is the function of this part, in its parent species?</span></p>
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  </td>
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</tr>
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<tr>
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  <td valign="top" style="border:solid windowtext 1.0pt;border-top:none;
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  padding:0pt 5.4pt 0pt 5.4pt">
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  <p class="MsoNormal"><span lang="EN-US">BBa_K1045000</span></p>
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  </td>
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  <td width="182" valign="top" style="width:136.55pt;border-top:none;border-left:
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  none;border-bottom:solid windowtext 1.0pt;border-right:solid windowtext 1.0pt;
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  padding:0pt 5.4pt 0pt 5.4pt">
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  <p class="MsoNormal"><span lang="EN-US">cloned, from purchased Mycobacterium
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  genome </span></p>
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  <p class="MsoNormal"><span lang="EN-US">&nbsp;</span></p>
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  </td>
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  <td width="156" valign="top" style="width:117.0pt;border-top:none;border-left:
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  padding:0pt 5.4pt 0pt 5.4pt">
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  <p class="MsoNormal"><span lang="EN-US">Mycobacterium smegmatis</span></p>
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  <p class="MsoNormal"><span lang="EN-US">&nbsp;</span></p>
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  </td>
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  <td width="97" valign="top" style="width:72.75pt;border-top:none;border-left:
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  none;border-bottom:solid windowtext 1.0pt;border-right:solid windowtext 1.0pt;
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  padding:0pt 5.4pt 0pt 5.4pt">
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  <p class="MsoNormal"><span lang="EN-US">2</span></p>
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  </td>
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  <td width="263" valign="top" style="width:197.25pt;border-top:none;border-left:
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  padding:0pt 5.4pt 0pt 5.4pt">
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  <p class="MsoNormal"><span lang="EN-US">code regulatory protein DarR, which binds
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  c-di-AMP</span></p>
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  <p class="MsoNormal"><span lang="EN-US">&nbsp;</span></p>
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  </td>
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</tr>
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<tr>
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  <td valign="top" style="border:solid windowtext 1.0pt;border-top:none;
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  padding:0pt 5.4pt 0pt 5.4pt">
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  <p class="MsoNormal"><span lang="EN-US">BBa_K1045001</span></p>
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  </td>
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  <td width="182" valign="top" style="width:136.55pt;border-top:none;border-left:
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  none;border-bottom:solid windowtext 1.0pt;border-right:solid windowtext 1.0pt;
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  padding:0pt 5.4pt 0pt 5.4pt">
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  <p class="MsoNormal"><span lang="EN-US">cloned, from purchased Mycobacterium
 +
  genome </span></p>
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  <p class="MsoNormal"><span lang="EN-US">&nbsp;</span></p>
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  </td>
 +
  <td width="156" valign="top" style="width:117.0pt;border-top:none;border-left:
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  none;border-bottom:solid windowtext 1.0pt;border-right:solid windowtext 1.0pt;
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  padding:0pt 5.4pt 0pt 5.4pt">
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  <p class="MsoNormal"><span lang="EN-US">Mycobacterium smegmatis</span></p>
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  <p class="MsoNormal"><span lang="EN-US">&nbsp;</span></p>
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  </td>
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  <td width="97" valign="top" style="width:72.75pt;border-top:none;border-left:
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  none;border-bottom:solid windowtext 1.0pt;border-right:solid windowtext 1.0pt;
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  padding:0pt 5.4pt 0pt 5.4pt">
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  <p class="MsoNormal"><span lang="EN-US">2</span></p>
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  </td>
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  <td width="263" valign="top" style="width:197.25pt;border-top:none;border-left:
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  padding:0pt 5.4pt 0pt 5.4pt">
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  <p class="MsoNormal"><span lang="EN-US">the operator DNA sequence that DarR</span></p>
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  <p class="MsoNormal"><span lang="EN-US">binds</span></p>
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  </td>
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</tr>
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<tr>
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  <td valign="top" style="border:solid windowtext 1.0pt;border-top:none;
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  padding:0pt 5.4pt 0pt 5.4pt">
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  <p class="MsoNormal"><span lang="EN-US">BBa_K1045002</span></p>
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  </td>
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  <td width="182" valign="top" style="width:136.55pt;border-top:none;border-left:
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  none;border-bottom:solid windowtext 1.0pt;border-right:solid windowtext 1.0pt;
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  padding:0pt 5.4pt 0pt 5.4pt">
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  <p class="MsoNormal"><span lang="EN-US">Cloned, from Bacillus genome</span></p>
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  </td>
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  <td width="156" valign="top" style="width:117.0pt;border-top:none;border-left:
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  none;border-bottom:solid windowtext 1.0pt;border-right:solid windowtext 1.0pt;
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  padding:0pt 5.4pt 0pt 5.4pt">
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  <p class="MsoNormal"><span lang="EN-US">Bacillus subtilis</span></p>
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  </td>
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  <td width="97" valign="top" style="width:72.75pt;border-top:none;border-left:
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  none;border-bottom:solid windowtext 1.0pt;border-right:solid windowtext 1.0pt;
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  padding:0pt 5.4pt 0pt 5.4pt">
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  <p class="MsoNormal"><span lang="EN-US">1</span></p>
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  </td>
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  <td width="263" valign="top" style="width:197.25pt;border-top:none;border-left:
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  padding:0pt 5.4pt 0pt 5.4pt">
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  <p class="MsoNormal"><span lang="EN-US">the c-di -AMP sensing riboswitch ydaO </span></p>
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  </td>
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</tr>
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<tr>
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  <td valign="top" style="border:solid windowtext 1.0pt;border-top:none;
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  padding:0pt 5.4pt 0pt 5.4pt">
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  <p class="MsoNormal"><span lang="EN-US">BBa_K1045003</span></p>
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  </td>
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  <td width="182" valign="top" style="width:136.55pt;border-top:none;border-left:
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  none;border-bottom:solid windowtext 1.0pt;border-right:solid windowtext 1.0pt;
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  padding:0pt 5.4pt 0pt 5.4pt">
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  <p class="MsoNormal"><span lang="EN-US">Cloned, from Listeria monocytogenes</span></p>
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  </td>
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  <td width="156" valign="top" style="width:117.0pt;border-top:none;border-left:
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  none;border-bottom:solid windowtext 1.0pt;border-right:solid windowtext 1.0pt;
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  padding:0pt 5.4pt 0pt 5.4pt">
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  <p class="MsoNormal"><span lang="EN-US">Listeria monocytogenes</span></p>
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  </td>
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  <td width="97" valign="top" style="width:72.75pt;border-top:none;border-left:
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  none;border-bottom:solid windowtext 1.0pt;border-right:solid windowtext 1.0pt;
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  padding:0pt 5.4pt 0pt 5.4pt">
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  <p class="MsoNormal"><span lang="EN-US">2</span></p>
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  </td>
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  <td width="263" valign="top" style="width:197.25pt;border-top:none;border-left:
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  none;border-bottom:solid windowtext 1.0pt;border-right:solid windowtext 1.0pt;
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  padding:0pt 5.4pt 0pt 5.4pt">
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  <p class="MsoNormal"><span lang="EN-US">Diadenylate cyclase domain of L.monocytogenes,
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  cdaA</span></p>
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  </td>
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</tr>
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</tbody></table>
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==4. Do the biological materials used in your lab work pose any of the following risks? Please describe.==
==4. Do the biological materials used in your lab work pose any of the following risks? Please describe.==
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Revision as of 07:57, 27 August 2013

The beast and its Achilles heel:

 A novel target to fight multi-resistant pathogenic bacteria


 

Basic Safety Questions

Contents

1. Please describe the chassis organism(s) you will be using for this project. lf you will be using more than one chassis organism, provide information on each of them:

Species

Strain no/name

Risk Group

Risk group source link

Disease risk to humans? If so, which disease?

E.coli (K12)

DH5 alpha

1

www.absa.org/riskgroups/bacteria

search.php?genus=&species=coli

Yes. May cause

irritation to skin, eyes, and respiratory tract,

may affect kidneys.

2. Highest Risk Group Listed:

Risk group 1

3. List and describe all new or modified coding regions you will be using in your project. (If you use parts from the 2013 iGEM Distribution without modifying them, you do not need to list those parts.)

Part number.

Where did you get the physical DNA for this part (which lab, synthesis  company, etc)

What pecies does this part originally come from?

What is the Risk Group of the species?

What is the function of this part, in its parent species?

BBa_K1045000

cloned, from purchased Mycobacterium genome

 

Mycobacterium smegmatis

 

2

code regulatory protein DarR, which binds c-di-AMP

 

BBa_K1045001

cloned, from purchased Mycobacterium genome

 

Mycobacterium smegmatis

 

2

the operator DNA sequence that DarR

binds

BBa_K1045002

Cloned, from Bacillus genome

Bacillus subtilis

1

the c-di -AMP sensing riboswitch ydaO

BBa_K1045003

Cloned, from Listeria monocytogenes

Listeria monocytogenes

2

Diadenylate cyclase domain of L.monocytogenes, cdaA

4. Do the biological materials used in your lab work pose any of the following risks? Please describe.

a. Risks to the safety and health of team members or others working in the lab?

The organism we used in the lab E.coli (K12) DH5 alpha, could be pathogenicto human beings. lt may cause irritation to skin, eyes, and respiratorytract and affect kidneys.

b. Risks to the safety and health of the general public, if released by design or by accident?

The E.coli strain we used do have pathogenicity to human. But the relatively low pathogenicity, short life and vulnerability to environment factors ofthe used strain have limited the risk to general public.

c. Risks to the environment, if released by design or by accident?

The E.coli strains we used during the project are transformed with plasmids containing antibiotic markers The release of those transformed strains may cause problems like the leakage of resistance genes to wild bacterial flora.

d. Risks to security through malicious misuse by individuals, groups, or countries?

The strains we used during our project do not contain hazardous genetic compartments. The risk through malicious misuse is quite low

5. If your project moved from a small-scale lab study to become widely used as a commercial/industrial product, what new risks might arise? (Consider the different categories of risks that are listed in parts a-d of the previous question.) Also, what risks might arise if the knowledge you generate or the methods you develop became widely available? (Note: This is meant to be a somewhat open-ended discussion question.)

The system we are trying to build is mainly meant for drug screening in pharmaceutical industry. The scale of production will always be limited.

6. Does your project include any design features to address safety risks? (For example: kill switches, auxotrophic chassis, etc.) Note that including such features is not mandatory to participate in iGEM, but many groups choose to include them.

No. But as the most used model organism in molecular biology, the risk of E.coli is relatively low.

7. What safety training have you received (or plan to receive in the future)? Provide a brief description, and a link to your institution’s safety training requirements, if available.

Before the project started, we all received instructions concerning the safety problems, such as how to protect ourselves in the lab, how to handle the biological materials properly to lower the risk to public and environment.

8. Under what biosafety provisions will / do you work?

a. Please provide a link to your institution biosafety guidelines.

www.uni-goettingen.de/en/401.html
(this website has links to all safety concerning documents, but all in german)

b. Does your institution have an Institutional Biosafety Committee, or an equivalent group? If yes, have you discussed your project with them? Describe any concerns they raised with your project, and any changes you made to your project planbased on their review.

www.uni-goettingen.de/de/401.html

c. Does your country have national biosafety regulations or guidelines? If so, please provide a link to these regulations or guidelines if possible.

www.baua.de/en/Homepage.html

d. According to the WHO Biosafety Manual, what is the BioSafety Level rating of your lab? (Check the summary table on page 3, and the fuller description that starts on page 9.) If your lab does not fit neatly into category 1, 2, 3, or 4, please describe its safety features [see 2013.igem.org/Safety for help].

The biosafety level of our lab is Categroy 1.

e. What is the Risk Group of your chassis organism(s), as you stated in question 1? If it does not match the BSL rating of your laboratory, please explain what additional safety measures you are taking.

Risk Group 1.

Faculty Advisor Name:

Jörg Stülke

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