Team:GPHS Snohomish WA

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You are provided with this team page template with which to start the iGEM season.  You may choose to personalize it to fit your team but keep the same "look." Or you may choose to take your team wiki to a different level and design your own wiki.  You can find some examples <a href="https://2009.igem.org/Help:Template/Examples">HERE</a>.
 
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<li>a team description</li>
 
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{| style=" background-color:#EEEEEE;" cellpadding="5" cellspacing="10" border="0" width="100%" align="center"
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{|align="justify"
 
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|You can write a background of your team here.  Give us a background of your team, the members, etc.  Or tell us more about something of your choosing.
 
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|[[Image:GPHS_Snohomish_WA_logo.png|200px|right|frame]]
 
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|-
 
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''Tell us more about your project.  Give us background.  Use this as the abstract of your project.  Be descriptive but concise (1-2 paragraphs)''
 
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|[[Image:GPHS_Snohomish_WA_team.png|right|frame|Your team picture]]
 
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|align="center"|[[Team:GPHS_Snohomish_WA | Team GPHS_Snohomish_WA]]
 
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<!--- Team Information Link --->
 
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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:GPHS_Snohomish_WA|<span style="color:black;">Home</span>]]
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!align="center"|[https://igem.org/Team.cgi?year=2012&division=high_school&team_name=GPHS_Snohomish_WA Official Team Profile]
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!align="center"|[[Team:Snohomish/Team|<span style="color:black;">Team</span>]]
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!align="center"|[https://igem.org/Team.cgi?id=839 <span style="color:black;">Official Team Profile</span>]
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!align="center"|[[Team:Snohomish/Project|<span style="color:black;">Project</span>]]
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!align="center"|[[Team:Snohomish/Parts|<span style="color:black;">Parts Submitted to the Registry</span>]]
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!align="center"|[[Team:Snohomish/Notebook|<span style="color:black;">Notebook</span>]]
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!align="center"|[[Team:Snohomish/Safety|<span style="color:black;">Safety</span>]]
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!align="center"|[[Team:Snohomish/Attributions|<span style="color:black;">Attributions</span>]]
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===Team E.P.I.C===
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===Arsenic Avengers===
*Our team is located at Glacier Peak High School in Snohomish, WA.
*Our team is located at Glacier Peak High School in Snohomish, WA.
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*We have about 8 members.
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*We have eight members.
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*Our mentors are Eric, Ms. Caraballo,and Nick.
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*Our mentors are Dr. Eric Lagally, Ms. Caraballo,and Nick Chavkin (UW bioengineering).
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*
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==Test===
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===Project Introduction===
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===Project===
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This semester we focused on introducing ourselves to the competition of iGEM and determining our project. The Grizzles have decided to utilize the genes in E. coli that detect and flush out arsenic to determine levels of the element in the waters of Puget Sound. We have planned to insert a reporter gene that, when synthesized, will turn the E. coli dark green when arsenic is present. To make this vision a reality, we are using an arsR promoter and a dark green E. chromi reporter from the 2009 Cambridge team's project.  
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This semester was focused on introducing ourselves to the competition of iGEM, as well as determining our project. The Grizzlies have come to the conclusion to utilize the genes in E. coli that detect and flush out arsenic to determine levels of the element in the waters of Puget Sound. If arsenic is present, we have planned to insert a reporter gene that, when synthesized, will turn the E. coli dark green.
+
 
-
To make this vision a reality, we are using an arsR promoter, a dark green E. chromi reporter from the 2009 Cambridge team's project.
+
===Arsenic Information===
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[[File:Fig3.jpeg]]
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<p>Arsenic is a chemical element (As) and the atomic number for Arsenic is 33. Arsenic contamination of groundwater is a problem is a problem that affects millions of the people across the world. The word Arsenic was borrowed from the Syriac word ܠܐ ܙܐܦܢܝܐ , meaning "yellow orpiment". It is also related to the Greek word arsenikon. During the Bronze Age arsenic was often included in bronze, which made alloy harder. Albert the Great is believed to have been the first person to isolate Arsenic. In the Victorian Era "arsenic" mixed with vinegar and chalk was eaten by women to "improve" their complexion. In 1858, the accidental use of arsenic by a food staff led to the Bradford Sweet Poisoning, killing about 20 people. </P>
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[http://www.consumerreports.org/cro/consumer-reports-magazine-january-2012/arsenic-in-your-juice/index.htm Link to video about Arsenic in Apple Juice]
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<p>“<b>Arsenic poisoning</b> is a medical condition caused by elevated levels of the element arsenic. The dominant basis of arsenic poisoning is from ground water that naturally contains high concentrations of arsenic. A 2007 study found that over 137 million people in more than 70 countries are probably affected by arsenic poisoning of drinking water.” ([http://en.wikipedia.org/wiki/Arsenic_poisoning#Pathophysiology Wikipedia]) </p>
 +
 
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<p> 
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[[File:arsenic_map.gif]]</p>
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<p>
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[http://www.consumerreports.org/cro/consumer-reports-magazine-january-2012/arsenic-in-your-juice/index.htm Link to video about Arsenic in Apple Juice]</p>
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<p>[[File:Map.gif]]</p>
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According to [https://fortress.wa.gov/ecy/publications/UIPages/Home.aspx Department of Ecology: State of Washington]"Organic and and inorganic arsenic were analyzed in eight fish and shellfish species to determine the
 +
appropriateness of placing five Puget Sound waterbodies on the 1998 303(d) list for exceeding
 +
EPA human health criteria in edible tissue. The waterbodies in question were Dyes Inlet,
 +
Port Washington Narrows, Sinclair Inlet, Port Orchard, and Eagle Harbor. The listings were
 +
based on total arsenic data.
 +
Results showed the listing criterion of 0.006 ug/g inorganic arsenic was exceeded in all clam
 +
samples analyzed. However, this appears to be due to natural conditions in Puget Sound.
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All crab and fish samples were at or below the listing criterion. It is therefore recommended that
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these waterbodies be taken off the 303(d) list for arsenic exceedances in edible tissue (12 listings
 +
in all)."
===Notebook===
===Notebook===
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Show us how you spent your days.
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6/1-3/12
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We attempted to transform E. Coli with test plasmids provided in our kit.
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Protocol:
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1 Make sure set-up is complete.
 +
 +
2 Add 200 microliters Cacl2 Solution to each tube.
 +
 +
3 Harvest NEBlO cells:
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Scrape off the plate for eact tube
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Resuspend all the tubes
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 +
4 Add DNA to each tube:
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5 microliters of "RFP Control" to control tube
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2-5 microliters of other plasmids to labeled tubes
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5 Incubate on ice for 5 minutes.
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6 Place in hot water bath for 90 seconds.
 +
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7 Place tubes on ice for another minute.
 +
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8 Add 200 microliters of SOC media (pre-heated).
 +
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9 Label 3 plates, with appropiate drug.
 +
 +
10 Add 200 microliters of transformed cells to plate, spread evenly.
 +
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11Put plates in incubator.
 +
 +
Our results were not what we were hoping because the growth of the cells did not occur. The cells were competent, but either they did not take in the plasmids or they did not survive the transfers between heat and cold.
 +
 +
Below is an image of the transformation process we attempted:
 +
 +
[[File:Transformation.png]]
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6/8/12
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 +
We attempted the trial a second time to ensure that new competent cells were grown.
 +
 +
1 Heat Luria Broth (LB) in water bath.
 +
 +
2 Once cooled, plate competent cells onto plates using inoculation loops.
 +
 +
4 Grow cells in in incubator at 34 degrees Celsius for 36 hours.
 +
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5 Remove cells and place in regrigerator.
 +
 +
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6/15/12
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 +
Using the new competent cells, we repeated the original protocol a second time (see above).
===Results/Conclusions===
===Results/Conclusions===
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===Safety===
===Safety===
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What safety precautions did your team take? Did you take a safety training course? Were you supervised at all times in the lab?
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Team safety was paramount this year as we began to explore synthetic biology.  When we worked with cells, we wore gloves.  Any time we worked with liquids or acids, we wore eye protection.  We always cleaned our work area using 70% ethanol before and after we did anything.
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===Attributions===
===Attributions===
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===Human Practices===
===Human Practices===
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What impact does/will your project have on the public? 
 
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===Fun!===
===Fun!===
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What was your favorite team snack?? Have a picture of your team mascot?
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Our teams favorite snacks consisted of candy, trail mix, and Pirate's Booty. Our team came up with many silly names including, but not limited to, "Dazzle Butters", "Avenging the Ginger", and "Team E.P.I.C". The name "Dazzle Butter" came out of no where and was love instantly. "Avenging the Ginger" is inspired by our redheaded team memeber, who despises this name. "Team E.P.I.C" was supposed to be a acronym for something that related to our team and iGEM, but after about 4 attempts that ended with silly disses toward Cambridge, we gave up and moved on to "Arsenic Avengers", inspired by the new movie- [http://www.imdb.com/title/tt0848228/ The Avengers ]<forum_subtle />
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<forum_subtle />
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Latest revision as of 02:39, 16 June 2012


File:Avengers4.gif
Home Team Official Team Profile Project Parts Submitted to the Registry Notebook Safety Attributions


Contents

Arsenic Avengers

  • Our team is located at Glacier Peak High School in Snohomish, WA.
  • We have eight members.
  • Our mentors are Dr. Eric Lagally, Ms. Caraballo,and Nick Chavkin (UW bioengineering).

Project Introduction

This semester we focused on introducing ourselves to the competition of iGEM and determining our project. The Grizzles have decided to utilize the genes in E. coli that detect and flush out arsenic to determine levels of the element in the waters of Puget Sound. We have planned to insert a reporter gene that, when synthesized, will turn the E. coli dark green when arsenic is present. To make this vision a reality, we are using an arsR promoter and a dark green E. chromi reporter from the 2009 Cambridge team's project.

Arsenic Information

Arsenic is a chemical element (As) and the atomic number for Arsenic is 33. Arsenic contamination of groundwater is a problem is a problem that affects millions of the people across the world. The word Arsenic was borrowed from the Syriac word ܠܐ ܙܐܦܢܝܐ , meaning "yellow orpiment". It is also related to the Greek word arsenikon. During the Bronze Age arsenic was often included in bronze, which made alloy harder. Albert the Great is believed to have been the first person to isolate Arsenic. In the Victorian Era "arsenic" mixed with vinegar and chalk was eaten by women to "improve" their complexion. In 1858, the accidental use of arsenic by a food staff led to the Bradford Sweet Poisoning, killing about 20 people.

“Arsenic poisoning is a medical condition caused by elevated levels of the element arsenic. The dominant basis of arsenic poisoning is from ground water that naturally contains high concentrations of arsenic. A 2007 study found that over 137 million people in more than 70 countries are probably affected by arsenic poisoning of drinking water.” ([http://en.wikipedia.org/wiki/Arsenic_poisoning#Pathophysiology Wikipedia])

File:Arsenic map.gif

[http://www.consumerreports.org/cro/consumer-reports-magazine-january-2012/arsenic-in-your-juice/index.htm Link to video about Arsenic in Apple Juice]

File:Map.gif

According to Department of Ecology: State of Washington"Organic and and inorganic arsenic were analyzed in eight fish and shellfish species to determine the appropriateness of placing five Puget Sound waterbodies on the 1998 303(d) list for exceeding EPA human health criteria in edible tissue. The waterbodies in question were Dyes Inlet, Port Washington Narrows, Sinclair Inlet, Port Orchard, and Eagle Harbor. The listings were based on total arsenic data. Results showed the listing criterion of 0.006 ug/g inorganic arsenic was exceeded in all clam samples analyzed. However, this appears to be due to natural conditions in Puget Sound. All crab and fish samples were at or below the listing criterion. It is therefore recommended that these waterbodies be taken off the 303(d) list for arsenic exceedances in edible tissue (12 listings in all)."

Notebook

6/1-3/12

We attempted to transform E. Coli with test plasmids provided in our kit. Protocol:

1 Make sure set-up is complete.

2 Add 200 microliters Cacl2 Solution to each tube.

3 Harvest NEBlO cells: Scrape off the plate for eact tube Resuspend all the tubes

4 Add DNA to each tube: 5 microliters of "RFP Control" to control tube 2-5 microliters of other plasmids to labeled tubes

5 Incubate on ice for 5 minutes.

6 Place in hot water bath for 90 seconds.

7 Place tubes on ice for another minute.

8 Add 200 microliters of SOC media (pre-heated).

9 Label 3 plates, with appropiate drug.

10 Add 200 microliters of transformed cells to plate, spread evenly.

11Put plates in incubator.

Our results were not what we were hoping because the growth of the cells did not occur. The cells were competent, but either they did not take in the plasmids or they did not survive the transfers between heat and cold.

Below is an image of the transformation process we attempted:

Transformation.png

6/8/12

We attempted the trial a second time to ensure that new competent cells were grown.

1 Heat Luria Broth (LB) in water bath.

2 Once cooled, plate competent cells onto plates using inoculation loops.

4 Grow cells in in incubator at 34 degrees Celsius for 36 hours.

5 Remove cells and place in regrigerator.


6/15/12

Using the new competent cells, we repeated the original protocol a second time (see above).

Results/Conclusions

What did you achieve over the course of your semester?


Safety

Team safety was paramount this year as we began to explore synthetic biology. When we worked with cells, we wore gloves. Any time we worked with liquids or acids, we wore eye protection. We always cleaned our work area using 70% ethanol before and after we did anything.

Attributions

Who worked on what?


Human Practices

Fun!

Our teams favorite snacks consisted of candy, trail mix, and Pirate's Booty. Our team came up with many silly names including, but not limited to, "Dazzle Butters", "Avenging the Ginger", and "Team E.P.I.C". The name "Dazzle Butter" came out of no where and was love instantly. "Avenging the Ginger" is inspired by our redheaded team memeber, who despises this name. "Team E.P.I.C" was supposed to be a acronym for something that related to our team and iGEM, but after about 4 attempts that ended with silly disses toward Cambridge, we gave up and moved on to "Arsenic Avengers", inspired by the new movie- [http://www.imdb.com/title/tt0848228/ The Avengers ]<forum_subtle />

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