Difference between revisions of "Team:BIT-China/Collaborations"

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{{BIT-China}}
 
 
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<p>hello word</p>
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    <link rel="stylesheet" href="https://2018.igem.org/Template:BIT-China/css/common-style?action=raw&amp;ctype=text/css">
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    <link rel="stylesheet" href="https://2018.igem.org/Template:BIT-China/css/hp-common-style?action=raw&amp;ctype=text/css">
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</head>
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<body>
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          <ul id="left-nav">
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        <li>
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            <a>PROJECT</a>
 +
            <ul>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/Background">Background</a></li>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/Description">Description</a></li>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/Design">Idea & Design</a></li>
 +
            </ul>
 +
        </li>
 +
 +
        <li>
 +
            <a>EXPERIMENTS</a>
 +
            <ul>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/ExperimentsRegulator">Regulator</a></li>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/ExperimentsFeedback">Feedback</a></li>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/ExperimentsOutput">Output</a></li>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/Results">Results</a></li>
 +
            </ul>
 +
        </li>
 +
 +
        <li>
 +
            <a>MODELING</a>
 +
            <ul>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/Model">Overview</a></li>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/FluorescentProbesModel">Fluorescent Probe Model </a></li>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/H2O2DecompositionModel">H<sub>2</sub>O<sub>2</sub>
 +
                        Decomposition Model</a></li>
 +
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/roGFP2-Orp1MichaelisEquationModel">roGFP2-Orp1
 +
                        Michaelis equation Model</a></li>
 +
            </ul>
 +
        </li>
 +
 +
        <li>
 +
            <a>HUMAN PRACTICES</a>
 +
            <ul>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/HPOverview">Overview</a></li>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/Human_Practices">Integrated Human Practices</a></li>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/Public_Engagement">Education & Public Engagement</a></li>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/Collaborations">Collaborations</a></li>
 +
            </ul>
 +
        </li>
 +
 +
        <li>
 +
            <a>NOTEBOOK</a>
 +
            <ul>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/Notebook">Lab Book</a></li>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/Protocols">Methodology / Protocols</a></li>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/Equipment">Material & Equipment</a></li>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/InterLab">Measurement / InterLab</a></li>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/Safety">Safety</a></li>
 +
            </ul>
 +
        </li>
 +
 +
        <li>
 +
            <a>ACHIEVEMENTS</a>
 +
            <ul>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/JudgingForm">Judging Form</a></li>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/Parts">Parts</a></li>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/Improve">Improve</a></li>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/Applied_Design">Applied Design</a></li>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/Demonstrate">Demonstrate</a></li>
 +
            </ul>
 +
        </li>
 +
 +
        <li>
 +
            <a>TEAM</a>
 +
            <ul>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/Team">Members</a></li>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/Attributions">Attributions</a></li>
 +
                <li><a href="https://2018.igem.org/Team:BIT-China/Gallery">Gallery</a></li>
 +
            </ul>
 +
        </li>
 +
    </ul>
 +
 +
    <a href="https://2018.igem.org/Team:BIT-China"><img id="imgA" class="imgA-new-pos" src="https://static.igem.org/mediawiki/2018/4/46/T--BIT-China--iGEM2018-A_img.png" /></a>
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    <!-- end -->
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    <div class="HP-white-head"></div>
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    <img class="HP-BG" src="https://static.igem.org/mediawiki/2018/2/22/T--BIT-China--iGEM2018-hp-bg.png">
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    <div id="HP" class="HP-content-container" style="margin-top:calc(25vh - 30px);">
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        <div id="HP0" class="cd-section">
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            <div class="HP-title">
 +
                <a class="HP-title-1" style="border-bottom:3px solid #131313;text-decoration: none;">COLLABORATIONS</a>
 +
            </div>
 +
        </div>
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        <div id="HP1" class="cd-section HP-margin-toTitle">
 +
            <div class="HP-title-2">
 +
                <a style="color:#131313;text-decoration: none;">Meeting up</a>
 +
            </div>
 +
 +
            <div class="HP-content-all">
 +
                <div class="HP-title-3 HP-margin-toTitle1">
 +
                    <a style="color:#131313;text-decoration: none;">Meetup held by ITCCC</a>
 +
                </div>
 +
 +
                <div class="HP-content">
 +
                    <p class="HP-content-p HP-margin-toTitle3">
 +
                        On July 24th, we were invited to take part a meeting upheld by International Teenager
 +
                        Competition and Communication Center on campus of USTB, during which 4 teams shared the
 +
                        experimental process about their project of iGEM. We found some problems in the design of each
 +
                        other's projects through communication, and discussed some solutions and ideas. Each team
 +
                        received a lot of pertinent suggestions from the others, which helped a lot to our project.
 +
                    </p>
 +
 +
                    <figure class="HP-Fig HP-margin-toContentP">
 +
                        <img src="https://static.igem.org/mediawiki/2018/0/04/T--BIT-China--iGEM2018-CollaborationshelpFJNUofpla_%285%29.jpg">
 +
                        <figcaption><br></figcaption>
 +
                    </figure>
 +
                </div>
 +
 +
                <div class="HP-title-3 HP-margin-Title3Up">
 +
                    <a style="color:#131313;text-decoration: none;">Meetup in Shanghai</a>
 +
                </div>
 +
 +
                <div class="HP-content">
 +
                    <p class="HP-content-p HP-margin-toTitle3">
 +
                        By the end of August, we had preliminarily completed all parts of experimental verification,
 +
                        constructed the relevant proteins, and verified the strength of each promoter. In order to
 +
                        further improve our project and make progress with other teams from communication, we
 +
                        participated in CCIC. All of the teams exchanged ideas about their project and original design
 +
                        and have a quick exhibition of the poster, give some simple but classic presentation. Among
 +
                        which we also try to find ways to better collaborate with other teams, especially in the
 +
                        modelling and outreach. We received more than 10 useful advises about our project and having a
 +
                        great time!
 +
                    </p>
 +
 +
                    <figure class="HP-Fig HP-margin-toContentP">
 +
                        <img src="https://static.igem.org/mediawiki/2018/a/af/T--BIT-China--iGEM2018-CollaborationshelpFJNUofpla_%284%29.jpg">
 +
                        <figcaption><br></figcaption>
 +
                    </figure>
 +
                </div>
 +
            </div>
 +
        </div>
 +
 +
        <div id="HP2" class="cd-section">
 +
            <div class="HP-title-2 HP-margin-Title2Up">
 +
                <a href="https://2018.igem.org/Team:FJNU-China/Collaborations" target="_Blank" style="color:#131313;">Collaborations
 +
                    with FJNU-China</a>
 +
            </div>
 +
 +
            <div class="HP-content-all">
 +
                <div class="HP-title-3 HP-margin-toTitle1">
 +
                    <a style="color:#131313;text-decoration: none;">BIT-China for FJNU-China</a>
 +
                </div>
 +
 +
                <div class="HP-content">
 +
                    <p class="HP-content-p HP-margin-toTitle3">
 +
                        We determined the inhibitory effect of PLA (phenyllactic acid, a new type of natural
 +
                        antibacterial substance and preservative) on yeast <i>CEN.PK2-1C</i>. In this way, we knew more
 +
                        about the broad-spectrum antibacterial performance of PLA. <a href="https://2018.igem.org/Team:FJNU-China/Result"
 +
                            target="_Blank" style="color:#131313;"><b>(check here for more detail)</b></a>
 +
                    </p>
 +
 +
                    <figure class="HP-Fig HP-margin-toContentP">
 +
                        <img src="https://static.igem.org/mediawiki/2018/d/d8/T--BIT-China--iGEM2018-CollaborationshelpFJNUofpla.jpg">
 +
                        <figcaption><br></figcaption>
 +
                    </figure>
 +
 +
                    <p class="HP-content-p HP-margin-toContentP">
 +
                        We provided them with the <i>E.coli</i> strain containing BBa_K2120006 for they decided to make
 +
                        an improvement on it. <a href="https://2018.igem.org/Team:FJNU-China/Improve" target="_Blank"
 +
                            style="color:#131313;"><b>(check here for more detail)</b></a>
 +
                    </p>
 +
 +
                    <figure class="HP-Fig HP-margin-toContentP">
 +
                        <img src="https://static.igem.org/mediawiki/2018/3/3c/T--BIT-China--iGEM2018-CollaborationshelpFJNUofpla_%282%29.jpg">
 +
                        <figcaption><br></figcaption>
 +
                    </figure>
 +
 +
                    <p class="HP-content-p HP-margin-toContentP">
 +
                        They designed a handbook that contains an introduction of iGEM and tips for preventing
 +
                        bacterial infections in daily life, presenting useful information in a more concise and clearer
 +
                        way, focused on the prevention of harmful bacterial and how to maintain environmental
 +
                        sanitation. We learned the manual and promoted it to the community. Helping them broaden the
 +
                        scope of the promotion, namely the northeastern part of China <a href="https://2018.igem.org/Team:FJNU-China/Human_Practices"
 +
                            target="_Blank" style="color:#131313;"><b>(check here for more detail)</b></a>
 +
                    </p>
 +
                    <figure class="HP-Fig HP-margin-toContentP">
 +
                        <img src="https://static.igem.org/mediawiki/2018/8/8a/T--BIT-China--iGEM2018-CollaborationshelpFJNUofhandbook.jpg">
 +
                        <figcaption><br></figcaption>
 +
                    </figure>
 +
 +
                </div>
 +
 +
                <div class="HP-title-3 HP-margin-Title3Up">
 +
                    <a style="color:#131313;text-decoration: none;">FJNU-China for BIT-China</a>
 +
                </div>
 +
 +
                <div class="HP-content">
 +
                    <p class="HP-content-p HP-margin-toTitle3">
 +
                        In the early days of collaborations, we explained to FJNU-China about the needs and
 +
                        difficulties of our modeling. After analyzing, communicating and consulting the literature,
 +
                        they helped us establish the ODE equation in the hydrogen peroxide decomposition model and
 +
                        provided us with guiding recommendations and feasibility verification strategies.<a href="https://2018.igem.org/Team:BIT-China/H2O2DecompositionModel"
 +
                            target="_Blank" style="color:#131313;"><b>(check here for more detail)</b></a>
 +
                    </p>
 +
 +
                    <figure class="HP-Fig HP-margin-toContentP">
 +
                        <img src="https://static.igem.org/mediawiki/2018/2/26/T--BIT-China--iGEM2018-CollaborationsFJNU.jpg">
 +
                        <figcaption><br></figcaption>
 +
                    </figure>
 +
                </div>
 +
            </div>
 +
        </div>
 +
 +
        <div id="HP3" class="cd-section">
 +
            <div class="HP-title-2 HP-margin-Title2Up">
 +
                <a href="https://2018.igem.org/Team:Peking/Collaborations" target="_Blank" style="color:#131313;">Collaborations
 +
                    with Peking</a>
 +
            </div>
 +
 +
            <div class="HP-content-all">
 +
                <div class="HP-content">
 +
                    <p class="HP-content-p HP-margin-toTitle2">
 +
                        They shared us the right of using flow cytometer and helped us measure the related data of
 +
                        regulator group, finally got the fluorescence intensity of a single cell. <a href="https://2018.igem.org/Team:BIT-China/ExperimentsRegulator"
 +
                            target="_Blank" style="color:#131313;"><b>(check here for more detail)</b></a>
 +
                    </p>
 +
                    <figure class="HP-Fig HP-margin-toContentP">
 +
                        <img src="https://static.igem.org/mediawiki/2018/1/1a/T--BIT-China--iGEM2018-CollaborationshelpFJNUofpla_%287%29.jpg">
 +
                        <figcaption><br></figcaption>
 +
                    </figure>
 +
 +
                    <p class="HP-content-p HP-margin-toContentP">
 +
                        Besides, the two teams discussed each other's project content and problems, and raised some
 +
                        questions and views, solving existing problems of both projects.
 +
                    </p>
 +
                    <figure class="HP-Fig HP-margin-toContentP">
 +
                        <img src="https://static.igem.org/mediawiki/2018/9/9f/T--BIT-China--iGEM2018-CollaborationshelpFJNUofpla_%283%29.jpg">
 +
                        <figcaption><br></figcaption>
 +
                    </figure>
 +
                </div>
 +
            </div>
 +
        </div>
 +
 +
        <div id="HP4" class="cd-section">
 +
            <div class="HP-title-2 HP-margin-Title2Up">
 +
                <a href="https://2018.igem.org/Team:Tsinghua-A/Collaborations" target="_Blank" style="color:#131313;">Collaborations
 +
                    with Tsinghua-A</a>
 +
            </div>
 +
            <div class="HP-content-all">
 +
                <div class="HP-title-3 HP-margin-toTitle2">
 +
                    <a style="color:#131313;text-decoration: none;">BIT-China for Tsinghua-A</a>
 +
                </div>
 +
                <div class="HP-content">
 +
                    <p class="HP-content-p HP-margin-toTitle3">
 +
                        Our work in 2017 made several fundamental changes to the pheromone pathway, facilitating the
 +
                        further transformation of biosensors in their team in 2018. So we shared the stain of modified
 +
                        <i>CEN.pk2-1C</i>,
 +
                        which used it to:
 +
                    </p>
 +
 +
                    <p class="HP-content-p HP-margin-toContentP">
 +
                        1. Exclude the possibility that the pheromone pathway is affected by the native ligand
 +
                        pheromone in
 +
                        yeast: (Knock out the Ste2 receptor);
 +
                    </p>
 +
                    <p class="HP-content-p HP-margin-toContentP">
 +
                        2. Exclude upstream G-protein coupled receptor signaling attenuation (desensitization) that may
 +
                        result from sustained stimulation. (Knock out Sst2, the GTPase-activating protein for Gpa1p, as
 +
                        a
 +
                        receptor-desensitizing factors.)
 +
                    </p>
 +
 +
                    <p class="HP-content-p HP-margin-toContentP">
 +
                        3. Exclude side effects on cell life cycle, cell morphology, etc. due to enhanced MAPK pathway
 +
                        signaling in the Pheromone pathway. (Knock out Far1, the cyclin-dependent protein
 +
                        serine/threonine
 +
                        kinase inhibitor.)
 +
                    </p>
 +
 +
                    <p class="HP-content-p HP-margin-toContentP">
 +
                        We also shared our original strain <i>CEN.PK2-1C</i> which no knockout of Ste2, Sst2, Far1 was
 +
                        performed. And the results of ligand binding response before and after gene knockout of
 +
                        pheromone
 +
                        pathway were compared to verify the significance of the modification for knocking out side
 +
                        effects.
 +
                        <a href="https://2018.igem.org/Team:Tsinghua-A/experiment" target="_Blank" style="color:#131313;"><b>(check
 +
                            here for more detail)</b></a>
 +
                    </p>
 +
                </div>
 +
 +
                <div class="HP-title-3 HP-margin-Title3Up">
 +
                    <a style="color:#131313;text-decoration: none;">Tsinghua-A for BIT-China</a>
 +
                </div>
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                <div class="HP-content">
 +
                    <p class="HP-content-p HP-margin-toTitle3">
 +
                        After understanding our needs for modeling, they helped us build a descriptive model based on
 +
                        the
 +
                        mechanism of action of fluorescent probes. The model validates this linear relationship through
 +
                        experimental data and predicts future possible outcomes by constructing a linear regression
 +
                        model.
 +
                        And they also analyzed the residuals of the model to ensure it works well. With this model, we
 +
                        can
 +
                        properly predict the output when the concentration of H<sub>2</sub>O<sub>2</sub> is in certain
 +
                        interval. <a href="https://2018.igem.org/Team:BIT-China/FluorescentProbesModel" target="_Blank"
 +
                            style="color:#131313;"><b>(check here for more details)</b></a>
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            <p style="font-size:15px;margin: 0;padding: 0;margin-top: 4px;">Institute of
 +
                Biotransformation and synthetic biosystem School of Chemistry and Chemical Engineering.
 +
            </p>
 +
            <p style="font-size:15px;margin: 0;padding: 0;margin-top: 4px;">
 +
                Beijing Institute of Technology
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            </p>
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            <p style="font-size:15px;margin: 0;padding: 0;margin-top: 4px;">
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                100081, Beijing
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            </p>
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            <p style="font-size:15px;margin: 0;padding: 0;margin-top: 4px;">
 +
                Email:lichun@bit.edu.cn
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Latest revision as of 00:51, 18 October 2018

Meeting up
Meetup held by ITCCC

On July 24th, we were invited to take part a meeting upheld by International Teenager Competition and Communication Center on campus of USTB, during which 4 teams shared the experimental process about their project of iGEM. We found some problems in the design of each other's projects through communication, and discussed some solutions and ideas. Each team received a lot of pertinent suggestions from the others, which helped a lot to our project.


Meetup in Shanghai

By the end of August, we had preliminarily completed all parts of experimental verification, constructed the relevant proteins, and verified the strength of each promoter. In order to further improve our project and make progress with other teams from communication, we participated in CCIC. All of the teams exchanged ideas about their project and original design and have a quick exhibition of the poster, give some simple but classic presentation. Among which we also try to find ways to better collaborate with other teams, especially in the modelling and outreach. We received more than 10 useful advises about our project and having a great time!


Collaborations with FJNU-China
BIT-China for FJNU-China

We determined the inhibitory effect of PLA (phenyllactic acid, a new type of natural antibacterial substance and preservative) on yeast CEN.PK2-1C. In this way, we knew more about the broad-spectrum antibacterial performance of PLA. (check here for more detail)


We provided them with the E.coli strain containing BBa_K2120006 for they decided to make an improvement on it. (check here for more detail)


They designed a handbook that contains an introduction of iGEM and tips for preventing bacterial infections in daily life, presenting useful information in a more concise and clearer way, focused on the prevention of harmful bacterial and how to maintain environmental sanitation. We learned the manual and promoted it to the community. Helping them broaden the scope of the promotion, namely the northeastern part of China (check here for more detail)


FJNU-China for BIT-China

In the early days of collaborations, we explained to FJNU-China about the needs and difficulties of our modeling. After analyzing, communicating and consulting the literature, they helped us establish the ODE equation in the hydrogen peroxide decomposition model and provided us with guiding recommendations and feasibility verification strategies.(check here for more detail)


Collaborations with Peking

They shared us the right of using flow cytometer and helped us measure the related data of regulator group, finally got the fluorescence intensity of a single cell. (check here for more detail)


Besides, the two teams discussed each other's project content and problems, and raised some questions and views, solving existing problems of both projects.


Collaborations with Tsinghua-A
BIT-China for Tsinghua-A

Our work in 2017 made several fundamental changes to the pheromone pathway, facilitating the further transformation of biosensors in their team in 2018. So we shared the stain of modified CEN.pk2-1C, which used it to:

1. Exclude the possibility that the pheromone pathway is affected by the native ligand pheromone in yeast: (Knock out the Ste2 receptor);

2. Exclude upstream G-protein coupled receptor signaling attenuation (desensitization) that may result from sustained stimulation. (Knock out Sst2, the GTPase-activating protein for Gpa1p, as a receptor-desensitizing factors.)

3. Exclude side effects on cell life cycle, cell morphology, etc. due to enhanced MAPK pathway signaling in the Pheromone pathway. (Knock out Far1, the cyclin-dependent protein serine/threonine kinase inhibitor.)

We also shared our original strain CEN.PK2-1C which no knockout of Ste2, Sst2, Far1 was performed. And the results of ligand binding response before and after gene knockout of pheromone pathway were compared to verify the significance of the modification for knocking out side effects. (check here for more detail)

Tsinghua-A for BIT-China

After understanding our needs for modeling, they helped us build a descriptive model based on the mechanism of action of fluorescent probes. The model validates this linear relationship through experimental data and predicts future possible outcomes by constructing a linear regression model. And they also analyzed the residuals of the model to ensure it works well. With this model, we can properly predict the output when the concentration of H2O2 is in certain interval. (check here for more details)

Contact

Institute of Biotransformation and synthetic biosystem School of Chemistry and Chemical Engineering.

Beijing Institute of Technology

100081, Beijing

Email:lichun@bit.edu.cn

Copyright © 2018 BIT-China