Difference between revisions of "Team:NCKU Tainan/Hardware"

 
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            <h1 class="head">Hardware</h1>
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            <h6 class="subtitle"> The Mini CO<sub>2</sub> Catcher</h6>
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              <h1 class="head2">Biosafety</h1>
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                <p class="pcontent">NCKU-iGEM team is concerned with biosafety and biosecurity in every aspect of our project. We realize one major responsibility of iGEMers is to show the public that the project as well as synthetic will not do harm to the environment and the society. We make checks on every safety detail including materials, lab, designed device, and every team member.</p>              
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                        <a class="list-group-item list-group-item-action" href="#Accomplishment">Accomplishment</a>
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                <h3>1. Material and project safety? OF COURSE</h3>
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                        <a class="list-group-item list-group-item-action" href="#Introduction">Introduction</a>
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                <div id="pt"><h8>Chassis organism</h8></br>
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                        <a class="list-group-item list-group-item-action" href="#Device_design">Device design</a>
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                <p class="pcontent">We chose E. coli as our chassis organism. Three lab strains were selected: “DH5 alpha”, “BL21(DE3)”, “W3110”, and ”W3110 (L5T7)”. These lab strains are reported to be not pathogenic to human. We construct our design with these strains in authorized lab (biosafety level 1 lab) only.</p>
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                        <a class="list-group-item list-group-item-action" href="#Bioreactor">Bioreactor</a>
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                        <a class="list-group-item list-group-item-action" href="#Nutrient_tank">Nutrient tank</a>
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                        <a class="list-group-item list-group-item-action" href="#Electromagnetic valve">Electromagnetic valve</a>
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                        <a class="list-group-item list-group-item-action" href="#Materials_required">Materials required</a>
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                        <a class="list-group-item list-group-item-action" href="#"><i class="fa fa-arrow-up fa-1x"
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                <div id="pt"><h8>New parts construction</h8></br>
 
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                <p class="pcontent">We chose E. coli as our chassis organism. Three lab strains were selected: “DH5 alpha”, “BL21(DE3)”, “W3110”, and ”W3110 (L5T7)”. These lab strains are reported to be not pathogenic to human. We construct our design with these strains in authorized lab (biosafety level 1 lab) only.</p>
 
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                <h3>2. Establishment of the iGEM lab</h3>
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                                </br></br></br></br>
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                <div id="pt"><p class="pcontent">This is the third year since the establishment of iGEM NCKU-Tainan team. We have raised the awareness of synthetic biology in our campus. Mrs. Jenny Su and the College of Engineering decided to give us a headquarter which contains a meeting room and a lab. To meet the lab standard of CDC (Center for Disease Control), we made contact with Mrs. Liu Yee Fen, the contact person of Center for Occupational safety and Health and Environmental Protection, which is the authorized unit in our campus responsible for lab safety and security. With the assistance of our instructor Dr. Ng, we successfully certify our lab to BSL1 saftey level one lab. Mrs. Liu gave us some lab security instructions and advice. She also suggested that each of our members should attend the biosafety lab training program.
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                                <h3>Accomplishment</h3>
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</p></div>
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                                <div class="achievementborder">
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                                    <ol>
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                                        <li class="bigli">Built and characterized a functional prototype for carbon utilization
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                                            system in
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                                            industry sector.</li>
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                                        <li class="bigli">Created an instructional video, a manual and lists of materials.</li>
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                                        <li class="bigli">Implemented Bio-safety to our device.</li>
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                                        <li class="bigli">Integrated with <a href="https://2018.igem.org/Team:NCKU_Tainan/Model" style="color:#006030;">modeling</a>.</li>
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                                        <li class="bigli">Installation of sensors: pH Meter, Thermometer, CO<sub>2</sub> Sensor
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                                            and Wi-Fi Sensor.</li>
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                                    </ol>
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                                </div>
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                            </div>
  
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                <div id="pt"><p class="pcontent">Expect the lab in iGEM headquarter, wet team has constructed out design in various labs whose supervisors are Dr. I-Son Ng, Dr. I-Hsiu Huang, Dr. Han-Ching Wang, and Dr. Hashimoto Masayuki. The labs mentioned above are all certified biosafety level one.</p></div>
 
  
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                            <div id="Introduction">
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                                </br></br></br></br>
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                <h3>3. Safety training for every teammate</h3>
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                                <h3>Introduction</h3>
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                <div id="pt"><p class="pcontent">It is a must for anyone to pass the authorized training section before conducting any experiments in lab. Since our applied design must be tested with constructed bacteria, each of our team members will have chances to approach the lab. We decided that whole team should be certified to do the experiments in biosafety level one lab. Team members from biotechnology have already passed the training session, and the rest of team members have passed the training online course. We believe that learning safety and security knowledge lower the risk when we conducted experiments inside biolab.</p></div>
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                                <div id="pt">
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              </div>
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                                    <p class="hpcontent">Nearly 30% of CO<sub>2</sub> emissions are attributable to
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              <div id="list-item-4">
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                                        industries.
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                <h3>4. A step toward low carbon society, a leap against wasting and pollution</h3></div>
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                                        The goal of our
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              <h1 class="head4">Safety Design</h1>
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                                        project is to solve the CO<sub>2</sub> problem by using engineered <i>E. coli</i>
 +
                                        to fix CO<sub>2</sub> emitted from
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                                        industries and convert it into bio-product, pyruvate. To accomplish our goal,
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                                        we designed a device
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                                        that will upscale our project to be used on field and we aim to integrate the
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                                        device into
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                                        industrial IGCC system. And we used the Arduino to sense the <a href="https://2018.igem.org/Team:NCKU_Tainan/pH_meter"
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                                            style="color:#28ff28;">pH</a>,
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                                        <a href="https://2018.igem.org/Team:NCKU_Tainan/CO2" style="color:#28ff28;">CO<sub>2</sub>
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                                            concentration</a>
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                                        and <a href="https://2018.igem.org/Team:NCKU_Tainan/Temperature" style="color:#28ff28;">temperature</a>
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                                        then use the
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                                        <a href="https://2018.igem.org/Team:NCKU_Tainan/wi_fi" style="color:#28ff28;">Wi-Fi
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                                            sensor</a> to upload to the <a href="https://2018.igem.org/Team:NCKU_Tainan/Software#Database"
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                                            style="color:#28ff28;">database</a>. Last but not least, we can monitor the
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                                        condition of our device by showing data in our <a href="https://2018.igem.org/Team:NCKU_Tainan/Software#App" style="color:#28ff28;">App</a>.</p>
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                                </div>
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                                <img class="contentimg" src="https://static.igem.org/mediawiki/2018/e/ec/T--NCKU_Tainan--enterprise_hardware1.jpg">
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<p class="pcenter">Fig 1.Design of our device </p>
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                            </div>
  
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                            <div id="Device_design">
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                                </br></br></br></br>
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                                <h3>Device design</h3>
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                                <img class="contentimg" src="https://static.igem.org/mediawiki/2018/f/fa/T--NCKU_Tainan--Deviceintro.png">
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<p class="pcenter">Fig 2.Perspective schematic view of our device </p>
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                                <div id="pt">
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                                    <p class="pcontent">Our device consists of 4 main parts : a bioreactor, a nutrient
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                                        tank, a collection
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                                        tank and Arduino sensors. The flue gas from industrial contains high concentration of CO<sub>2</sub>
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                                        which will
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                                        inhibit the growth
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                                        of <i>E.coli</i>. Thus, we will decrease CO<sub>2</sub> concentration level to less
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                                        than 5% at the inlet of bioreactor. With a flowmeter, we can measure the flow of gases
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                                        in
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                                        pipelines.</p>
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                                </div>
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                                <img class="contentimg" src="https://static.igem.org/mediawiki/2018/f/f0/T--NCKU_Tainan--device.jpg">
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<p class="pcenter">Fig 3.Circuit diagram</p>
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                                <div id="pt">
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                                    <p class="pcontent">For Arduino, we use thermometer (DS18B20)、pH meter and
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                                        CO<sub>2</sub> sensor (MG811) to
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                                        monitor our device. Besides, the LCD will print datum while the Wi-Fi
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                                        sensor (ESP8266 Nodemcu) will
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                                        upload our records to database. You can see more information about
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                                        arduino code in <a href="https://2018.igem.org/Team:NCKU_Tainan/Software" style="color:#28ff28;">software</a>.</p>
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                                </div>
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                            </div>
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                            <div id="Bioreactor">
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                                </br></br></br></br>
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                                <h3>Bioreactor</h3>
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                                <div id="pt">
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                                    <p class="pcontent">We developed a closed system on in our bioreactor design and implemented online
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                                      real time monitoring system
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                                        which can determine the progress condition of bioreactor.</p>
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                                </div>
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                                <div id="pt">
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                                    <p class="pcontent">The gas inlet port is located on the bioreactor’s lower part while
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                                        outlet port is
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                                        located on the bioreactor’s upper lid. As low concentration CO<sub>2</sub>
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                                        enters the
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                                        bioreactor, it flows
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                                        through the diffuser refiner and dissolves in the buffered medium to form acid.
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                                        A pH sensor and
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                                        a thermometer is installed to monitor the bioreactor tank for further
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                                        control implementation.
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                                        Besides, the CO<sub>2</sub> concentration level of exhaust gas is monitored by
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                                        a CO<sub>2</sub> 
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                                        sensor, which is
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                                        mounted on the upper lid. These sensor’s output is connected to an Arduino
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                                        analog input and sensor
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                                        readings are displayed on a serial LCD which is attached on the lid of
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                                        bioreactor. The data is then
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                                        uploaded in real time to a web server via WiFi by using Arduino WiFi Shield.</br></p>
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                                </div>
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                                </br>
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                                <h8>Stirrer</h8></br>
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                                <img class="contentimg" src="https://static.igem.org/mediawiki/2018/6/69/T--NCKU_Tainan--Capture.PNG">
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<p class="pcenter">Fig 4.Perspective schematic view of magnetic stir</p>
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                                <div id="pt">
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                                    <p class="pcontent">To prevent sedimentation of cells at the bottom of bioreactor,
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                                        we build our own
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                                        slow speed magnetic stirrer of 3D printed materials which permits gentle mixing of
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                                        microcarrier cell cultures.
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                                        The 3D printed magnet bed is designed specifically for two magnets and can be
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                                        fitted on the DC
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                                        motor. The stirrer works by using a DC motor to spin two magnets with opposite
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                                        polarity, which
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                                        could create a magnetic field in the bioreactor and cause the stir bar to spin
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                                        and mix the
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                                        contents. For controlling the speed of the DC motor, we use Arduino and L298N
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                                        to control the input
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                                        voltage to the motor by using PWM signal.</p>
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                                <img class="contentimg" src="https://static.igem.org/mediawiki/2018/8/8b/T--NCKU_Tainan--magntic_stir_real.PNG">
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<p class="pcenter">Fig 5.Design of our magnetic stir</p>
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                                </div>
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                            </div>
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 +
   
 +
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</br></br>
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                            <div id="Nutrient_tank">
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                                </br></br></br></br>
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                                <h3>Nutrient tank</h3>
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                                <div id="pt">
 +
                                    <p class="pcontent">Besides, we also implemented fed-batch culture system in our
 +
                                        design. Nutrients are fed to the bioreactor during cultivation to prevent
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                                        nutrient depletion. The nutrients are pumped into the growth chamber at a rate
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                                        proportional to the growth factor of the culture, which is determined
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                                        experimentally through the doubling time of the particular bacterial strain.</p>
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                                </div>
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                            </div>
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          </br></br>
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<div id="Electromagnetic valve">
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                                </br></br></br></br>                   
 +
                                <h3>Electromagnetic valve</h3>
 +
                                <div id="pt">
 +
                                    <p class="pcontent">In order to simulate the situation of the industry, two electromagnetic valves are installed on the input and output of the collection tank and the medium tank, they can be controlled by the App.</p>
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                                </div>
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                            </div>
 +
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                            <div id="Materials_required">
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                                </br></br></br></br>
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                                <h3>Materials required</h3>
 +
                                <div id="pt">
 +
                                    <ul>
 +
                                        <li>Acrylic Sheet</li>
 +
                                        <li>Arduino UNO</li>
 +
                                        <li>Power Supply</li>
 +
                                        <li>Batteries</li>
 +
                                        <li>Rotameter</li>
 +
                                        <li>pH meter</li>
 +
                                        <li>Thermometer (DS18B20)</li>
 +
                                        <li>CO<sub>2</sub> sensor (MG811)</li>
 +
                                        <li>Wi-Fi sensor (ESP8266 NodeMcu)</li>
 +
                                        <li>Geared DC Motor</li>
 +
                                        <li>Tubes</li>
 +
                                        <li>Magnets</li>
 +
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Latest revision as of 21:42, 17 October 2018

Hardware

The Mini CO2 Catcher




Accomplishment

  1. Built and characterized a functional prototype for carbon utilization system in industry sector.
  2. Created an instructional video, a manual and lists of materials.
  3. Implemented Bio-safety to our device.
  4. Integrated with modeling.
  5. Installation of sensors: pH Meter, Thermometer, CO2 Sensor and Wi-Fi Sensor.




Introduction

Nearly 30% of CO2 emissions are attributable to industries. The goal of our project is to solve the CO2 problem by using engineered E. coli to fix CO2 emitted from industries and convert it into bio-product, pyruvate. To accomplish our goal, we designed a device that will upscale our project to be used on field and we aim to integrate the device into industrial IGCC system. And we used the Arduino to sense the pH, CO2 concentration and temperature then use the Wi-Fi sensor to upload to the database. Last but not least, we can monitor the condition of our device by showing data in our App.

Fig 1.Design of our device





Device design

Fig 2.Perspective schematic view of our device

Our device consists of 4 main parts : a bioreactor, a nutrient tank, a collection tank and Arduino sensors. The flue gas from industrial contains high concentration of CO2 which will inhibit the growth of E.coli. Thus, we will decrease CO2 concentration level to less than 5% at the inlet of bioreactor. With a flowmeter, we can measure the flow of gases in pipelines.

Fig 3.Circuit diagram

For Arduino, we use thermometer (DS18B20)、pH meter and CO2 sensor (MG811) to monitor our device. Besides, the LCD will print datum while the Wi-Fi sensor (ESP8266 Nodemcu) will upload our records to database. You can see more information about arduino code in software.





Bioreactor

We developed a closed system on in our bioreactor design and implemented online real time monitoring system which can determine the progress condition of bioreactor.

The gas inlet port is located on the bioreactor’s lower part while outlet port is located on the bioreactor’s upper lid. As low concentration CO2 enters the bioreactor, it flows through the diffuser refiner and dissolves in the buffered medium to form acid. A pH sensor and a thermometer is installed to monitor the bioreactor tank for further control implementation. Besides, the CO2 concentration level of exhaust gas is monitored by a CO2 sensor, which is mounted on the upper lid. These sensor’s output is connected to an Arduino analog input and sensor readings are displayed on a serial LCD which is attached on the lid of bioreactor. The data is then uploaded in real time to a web server via WiFi by using Arduino WiFi Shield.


Stirrer

Fig 4.Perspective schematic view of magnetic stir

To prevent sedimentation of cells at the bottom of bioreactor, we build our own slow speed magnetic stirrer of 3D printed materials which permits gentle mixing of microcarrier cell cultures. The 3D printed magnet bed is designed specifically for two magnets and can be fitted on the DC motor. The stirrer works by using a DC motor to spin two magnets with opposite polarity, which could create a magnetic field in the bioreactor and cause the stir bar to spin and mix the contents. For controlling the speed of the DC motor, we use Arduino and L298N to control the input voltage to the motor by using PWM signal.

Fig 5.Design of our magnetic stir







Nutrient tank

Besides, we also implemented fed-batch culture system in our design. Nutrients are fed to the bioreactor during cultivation to prevent nutrient depletion. The nutrients are pumped into the growth chamber at a rate proportional to the growth factor of the culture, which is determined experimentally through the doubling time of the particular bacterial strain.







Electromagnetic valve

In order to simulate the situation of the industry, two electromagnetic valves are installed on the input and output of the collection tank and the medium tank, they can be controlled by the App.





Materials required

  • Acrylic Sheet
  • Arduino UNO
  • Power Supply
  • Batteries
  • Rotameter
  • pH meter
  • Thermometer (DS18B20)
  • CO2 sensor (MG811)
  • Wi-Fi sensor (ESP8266 NodeMcu)
  • Geared DC Motor
  • Tubes
  • Magnets
  • 3D Printed Structure
  • Nuts and Screws
  • Wires
  • Pumps




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Contact us

igem.ncku.tainan@gmail.com
No.1, Daxue Rd., East Dist., Tainan City 701, Taiwan (R.O.C.)