Team:Nanjing-China/pre

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Latest revision as of 13:31, 27 October 2013

Through consulting literatures and materials, we found that the concentration of atrazine used in experiments related to its degradation was considerably changeable. As we all know, atrazine, which is toxic to bacteria, can reduce the amount of bacteria and influence the efficiency of degradation. To avoid this problem as well as to provide the public with a standard of atrazine concentration in experiments, we conducted a series of pre-experiments, studying the relationship between atrazine and bacteria.

Our primary chassis for wet lab is called K-12, a strain isolated from E. coli. It's a primary model organism with clear genetic background and handy genetic modification. This strain has been widely distributed to laboratories across the world^[1]. In addition, chemotaxis in E. coli is well documented^[2] so that we can control the movement of it by engineering the proteins in the pathway. Most importantly, the strain E. coli K-12 is a debilitated strain which does not normally colonize the human intestine, and it is not known to have adverse effects on microorganisms or plants.^[3]

Experiments and Results
As Fig. 3-2-1 shows, when the concentration of atrazine was between 200μM and 500μM, the trend of the growth curve was similar to the natural growth curve without any atrazine. However, when bacteria were exposed to atrazine of 1000μM, the growth curve of K-12 changed a lot, especially in plateau period.

Fig. 3-2-1 Growth Curve of K-12 cultured in different concentration of atrazine. Atrazine could not restrain bacteria growth significantly if the concentration was between 200μM and 500μM, but the growth curve changed a lot when the concentration of atrazine rose to 1000μM, suggesting that high concentration of atrazine is harmful to K-12.

In order to make their relationship more intuitive, we performed another experiment, comparing the amount of bacteria in plateau period. As illustrated in Fig. 3-2-2, the amount of bacteria cultured in atrazine of 200μM or 500μM hardly changed, while it declined sharply when cultured in concentration of 1000μM.

Fig.3-2-2 The amount of bacteria cultured for 10h in different concentration of atrazine. After 10h, plateau period was reached. It was obvious that the maximum of bacteria exposed to atrazine of 200μM or 500μM hardly changed, but it became much lower when the concentration turned to 1000μM.

Taking the condition of bacteria's growth for consideration, we finally chose 200μM-500μM as the concentration of atrazine in all our experiments.

Reference
[1] Riley M, et al. Escherichia coli K-12: a cooperatively developed annotation snapshot-2005. Nucleic acids research, 2006, 34 (1): 1-9.
[2] Chelsky D and Dahlquist FW. Chemotaxis in Escherichia coli: associations of protein components. Biochemistry, 1980, 19 (20): 4633-4639.
[3] Escherichia coli K-12 Derivatives Final Risk Assessment. (Online) Available from: http://epa.gov/oppt/biotech/pubs/fra/fra004.htm 　　　

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            <li class="bar">Project</li>
            <li class=trunk onmouseover=listTrigger(0);><a href="https://2013.igem.org/Team:Nanjing-China/project">Overall Project</a></li>
-           <li class=trunk onmouseover=listTrigger(0);><a class="son_hover" href="https://2013.igem.org/Team:Nanjing-China/pre">Pre-experiment</a></li>
+           <li class=trunk onmouseover=listTrigger(0);><a class="son_hover" href="https://2013.igem.org/Team:Nanjing-China/pre">Pre-experiments</a></li>
            <li class=trunk onmouseover=listTrigger(0);><a href="https://2013.igem.org/Team:Nanjing-China/tran">Transportation</a></li>
            <li class=trunk onmouseover=listTrigger(0);><a href="https://2013.igem.org/Team:Nanjing-China/rib">Recognition</a></li>
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        <div class="Project2">
          <dl>
-             <dt><a href="###">Pre-experiment</a></dt>
+             <dt><a href="###">Pre-experiments</a></dt>
              <dd class="dd_1">
-Through consulting literatures and materials, we found that the concentration of atrazine used in experiments related to its degradation was the most changeable. As we all know, atrazine, which is toxic to bacteria, can reduce the amount of bacteria, and influence the efficiency of degradation. To avoid this problem as well as to provide the public with a standard of atrazine concentration in experiments, we conducted a series of pre-experiments, studying the relationship between atrazine and bacteria.<br/><br>
+Through consulting literatures and materials, we found that the concentration of atrazine used in experiments related to its degradation was considerably changeable. As we all know, atrazine, which is toxic to bacteria, can reduce the amount of bacteria and influence the efficiency of degradation. To avoid this problem as well as to provide the public with a standard of atrazine concentration in experiments, we conducted a series of pre-experiments, studying the relationship between atrazine and bacteria.<br/><br>
+Our primary chassis for wet lab is called K-12, a strain isolated from E. coli. It's a primary model organism with clear genetic background and handy genetic modification. This strain has been widely distributed to laboratories across the world<sup>[1]</sup>. In addition, chemotaxis in E. coli is well documented<sup>[2]</sup> so that we can control the movement of it by engineering the proteins in the pathway. Most importantly, the strain E. coli K-12 is a debilitated strain which does not normally colonize the human intestine, and it is not known to have adverse effects on microorganisms or plants.<sup>[3]</sup><br><br>
 <strong>Experiments and Results</strong><br/>
-Our primary chassis for wet lab is called K-12, a strain isolated from Escherichia coli. It's a primary model organism with clear genetic background and handy genetic modification, and has been widely distributed to laboratories across the world. In addition, chemotaxis in E. coli is well documented so that we can control the movement of it by engineering the proteins in the pathway. Most importantly, the strain E. coli K-12 is a debilitated strain which does not normally colonize the human intestine, and is not known to have adverse effects on microorganisms or plants.<br><br>
+As Fig. 3-2-1 shows, when the concentration of atrazine was between 200μM and 500μM, the trend of the growth curve was similar to the natural growth curve without any atrazine. However, when bacteria were exposed to atrazine of 1000μM, the growth curve of K-12 changed a lot, especially in plateau period.<br><br>
-As Fig. 3-2-1 shows, when the concentration of atrazine was between 200μM and 500μM, the trend of the growth curve was similar to the nature growth curve without any atrazine. However, when bacteria exposed to atrazine of 1000μM, the growth curve of K-12 had changed a lot, especially in plateau period.<br><br>
+<p style="text-align:center"><img src="https://static.igem.org/mediawiki/2013/0/09/Fig_3-2-1.jpg" align="middle"width="500"></p><br>
-<img src="https://static.igem.org/mediawiki/2013/0/09/Fig_3-2-1.jpg" align="middle"><br>
+<div style="padding:0 50px; font-size:11px"><strong>Fig. 3-2-1</strong> Growth Curve of K-12 cultured in different concentration of atrazine. Atrazine could not restrain bacteria growth significantly if the concentration was between 200μM and 500μM, but the growth curve changed a lot when the concentration of atrazine rose to 1000μM, suggesting that high concentration of atrazine is harmful to K-12.</div><br><br>
-<strong>Fig. 3-2-1</strong> Growth Curve of K-12 cultured in different concentration of atrazine. Atrazine could not restrain bacteria growth significantly if the concentration was between 200μM and 500μM, but the growth curve changed a lot when the concentration of atrazine rose to 1000μM, suggesting that high concentration of atrazine is harmful to K-12.<br><br>
 In order to make their relationship more intuitive, we performed another experiment, comparing the amount of bacteria in plateau period. As illustrated in Fig. 3-2-2, the amount of bacteria cultured in atrazine of 200μM or 500μM hardly changed, while it declined sharply when cultured in concentration of 1000μM.<br><br>
-<img src="https://static.igem.org/mediawiki/2013/c/c0/Fig_3-2-2.jpg"><br>
+<p style="text-align:center"><img src="https://static.igem.org/mediawiki/2013/4/48/OD_CON_Col_org.jpg"width="400"></p><br>
+<div style="padding:0 50px; font-size:11px"><strong>Fig.3-2-2</strong> The amount of bacteria cultured for 10h in different concentration of atrazine. After 10h, plateau period was reached. It was obvious that the maximum of bacteria exposed to atrazine of 200μM or 500μM hardly changed, but it became much lower when the concentration turned to 1000μM.</div><br><br>
-<strong>Fig.3-2-2</strong> The amount of bacteria cultured for 10h in different concentration of atrazine. After 10h, plateau period had been reached. It was obvious that the maximum of bacteria exposed to atrazine of 200μM or 500μM hardly changed, but it became much lower when the concentration turned to 1000μM.<br><br>
+Taking the condition of bacteria's growth for consideration, we finally chose 200μM-500μM as the concentration of atrazine in all our experiments.<br><br>
-Taking the condition of bacteria's growth for consideration, we finally chose 200μM-500μM as the concentration of atrazine in our all experiments.<br><br>
 <strong>Reference</strong><br/>
 [1] Riley M, et al. Escherichia coli K-12: a cooperatively developed annotation snapshot-2005. Nucleic acids research, 2006, 34 (1): 1-9.<br/>
 [2] Chelsky D and Dahlquist FW. Chemotaxis in Escherichia coli: associations of protein components. Biochemistry, 1980, 19 (20): 4633-4639.<br/>
-[3] Escherichia coli K-12 Derivatives Final Risk Assessment. (Online) Available from: http://epa.gov/oppt/biotech/pubs/fra/fra004.htm<br/>
+[3] Escherichia coli K-12 Derivatives Final Risk Assessment. (Online) Available from: http://epa.gov/oppt/biotech/pubs/fra/fra004.htm
              </dd>