Difference between revisions of "Team:CPU CHINA/Partnership"

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        <div id="load" v-show="loading"><img src="https://static.igem.org/mediawiki/2021/c/c4/T--CPU_CHINA--loading.gif"
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             <nav>
 
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                 <div class="catalogue-title">COLLABORATION</div>
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                 <div class="catalogue-title">PARTNERSHIP</div>
 
                 <ul class="catalogue">
 
                 <ul class="catalogue">
 
                     <li class="num">
 
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                         <a href="#section1" title="CONFERENCES AND MEETUPS">CONFERENCES AND MEETUPS</a>
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                         <a href="#section1" title="SAMMARY">SAMMARY</a>
 
                     </li>
 
                     </li>
 
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                     <li class="num">
                         <a href="#section2" title="TEAM COLLABORATIONS">TEAM COLLABORATIONS</a>
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                         <a href="#section2" title="PARTNER2: UESTC-CHINA">PARTNER2: UESTC-CHINA</a>
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                        <a href="#section3" title="SPECIAL ISSUE: INTO CHINA, INTO iGEM (ICII)">SPECIAL ISSUE: INTO
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                            CHINA, INTO iGEM (ICII)</a>
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                <h2 id='summary'><span>Summary</span></h1>
 
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                    <p><span>In the circumstances of the continuous spread of the epidemic, this year, 2021,
            <head>
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                            our team met a
                <meta charset="UTF-8">
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                            group of excellent partners through online communication and offline visits.
                <meta http-equiv="X-UA-Compatible" content="IE=edge">
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                            From field visits and
                <meta name="viewport" content="width=device-width, initial-scale=1.0">
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                            surveys to waste treatment plants, the overcoming of technical problems about
                <title>Collaboration</title>
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                        </span><em><span>Pichia pastoris</span></em><span> and CRISPR/Cas, to human
                <link rel="stylesheet"
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                            practice, we have been
                    href="https://2017.igem.org/wiki/index.php?title= Template:SCU_China/default_CSS &action=raw&ctype=text/css">
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                            supporting each other all the way through the long season, and now we hand in a
                <link rel="stylesheet"
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                            satisfactory
                    href="https://2021.igem.org/wiki/index.php?title= Template:CPU_CHINA/reset_CSS &action=raw&ctype=text/css">
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                            answer.</span></p>
                <link rel="stylesheet"
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                    <h3 id='partner-1-tongjichina'><span>Partner 1: Tongji_China</span>
                    href="https://2021.igem.org/wiki/index.php?title= Template:CPU_CHINA/common_CSS &action=raw&ctype=text/css">
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                </h2>
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                <h3 id='-------the-start-of-the-pede'><span>—— The start of the PEDe.</span></h2>
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                    <h3 id='1-collaborative-work-at-different-stages'><span>1. Collaborative work at
                <style>
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                            different stages.</span>
                    #header #title {
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                        </h2>
                        left: 15%;
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                        <p><span>We have been in contact with Tongji_China for many seasons. At the
                    }
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                                beginning of this season in
 
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                                April 2021, we organized an online project determination meeting to discuss
                    #contain .left img {
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                                that for this season. At
                        position: absolute;
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                                this meeting, we discussed with </span></p>
                        width: 80%;
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                        <p><span>Tongji_China that the cities where the two teams are located both have
                        top: 150px;
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                                begun to implement the
                        left: 12%;
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                                garbage sorting policy. And we all noticed that the messy collection of
                        z-index: 2;
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                                parcel waste in the Cai Niao
                    }
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                                Courier Station on campus. So, we decided to conduct further research on
                </style>
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                                this.</span></p>
            </head>
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                        <p><span>In May, Tongji_China came to NanjinCPU_CHINA Team-Partnership</span></p>
 
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                        <img src="https://static.igem.org/mediawiki/2021/1/17/T--CPU_CHINA--CPU_CHINA_Team-Partnership_Fig_1.png"
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                            alt="">
                <header id="header">
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                        <p class="imgdescribe"><strong>Fig 1. Fisrt offline meeting</span></p>
                    <div id="menu">
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                        <p><span>g to communicate with CPU offline. In this offline communication,
                        <div id="menuBack" v-show="isOpen" :class="isActive" @click="ifclick"></div>
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                                Tongji_China shared their project
                        <a href="https://2021.igem.org/Team:CPU_CHINA"><img id="logo"
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                                design with us. They hope to use sulfoquinone oxidoreductase (SQR) and
                                src="https://static.igem.org/mediawiki/2021/d/d5/T--CPU_CHINA--ProjectLogo.png"
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                                Ks-Amt to detect hydrogen
                                alt="项目logo"></a>
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                                sulfide and ammonia, and use AQR, superoxide dismutase (SOD) , ArpBA and SAT
                        <div id="select" @mouseleave="leave" @mouseover="on">
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                                are expected to
                            <img id="menuImg" :src="menu" alt="这是菜单图片" @mouseover="mouseover" @click="click">
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                                gradually degrade hydrogen sulfide gas to mask the stench produced by wet
                            <ul id="class-a" class="class" v-show="classA">
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                                garbage.</span></p>
                                <li v-for="(item,index) in classList" :class="isActiveA == index? 'class-a' : ''"
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                        <img src="https://static.igem.org/mediawiki/2021/c/c6/T--CPU_CHINA--Education--Figure_2.png" alt="">
                                    @click="classAClick(index)">{{item}}</li>
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                        <p class="imgdescribe"><strong>Fig 2. Communication in both team</span></p>
                            </ul>
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                        <img src="https://static.igem.org/mediawiki/2021/9/92/T--CPU_CHINA--Education--Figure_3.jpg" alt="">
                            <ul id="class-b" class="class" v-show="classB">
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                        <p class="imgdescribe"><strong>Fig 3. Academic communication</span></p>
                                <li v-for="item in classList2[isActiveA]" :class="isActiveB == item.num? 'class-b' : ''"
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                        <p><span>At the meeting, Tongji_China proposed a problem that the secreted
                                    @mouseover="classBOver(item.num)" @mouseleave="classBLeave(item.num)"><a
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                                expression of SQR and SOD may
                                        :href="item.url">
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                                have low trans-membrane rate, while the way of lysing engineering bacteria
                                        {{item.text}}</a></li>
+
                                to obtain enzymes they
                            </ul>
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                                produced may face the problem that enzymes are gradated by intracellular
                        </div>
+
                                proteases. In this regard,
                    </div>
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                                our team proposed two solutions respectively: ①We can construct a signal
                    <img class="background"
+
                                peptide library and screen
                        src="https://static.igem.org/mediawiki/2021/d/df/T--CPU_CHINA--Collabration--Background.png" alt="">
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                                out the signal peptide with the highest efficiency to assist the target
                    <h1 id="title">PARTNERSHIP</h1>
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                                protein with exocytosis,
                    <svg width="100%" height="100%" viewBox="0 0 1920 600" version="1.1"
+
                                CPU_CHINA Team-Partnership Fig 3avoid the encounter between the protease and
                        style="fill-rule:evenodd;clip-rule:evenodd;stroke-linejoin:round;stroke-miterlimit:2;">
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                                the target protein as
                        <g transform="matrix(1.16285,0,0,1.38837,253.426,-231.748)">
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                                well. ②It can be considered to add protease inhibitor or EDTA to inhibit the
                            <g id="AD1">
+
                                protease activity in
                                <path id="凹形遮罩"
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                                the process of lysing E. coli.</span></p>
                                    d="M1433.18,439.801C1433.18,439.801 1001.08,524.071 607.621,524.374C219.99,524.673 -217.935,439.801 -217.935,439.801L-217.935,944.811L1433.18,944.811L1433.18,439.801Z"
+
                        <p><span>At the same time, Tongji_China shared the design ideas of the questionnaire
                                    style="fill:#FFFFFF;" />
+
                                with us, hoping to help
                            </g>
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                                us optimize the questionnaire for plastic pollution treatment.</span></p>
                        </g>
+
                        <img src="https://static.igem.org/mediawiki/2021/3/3b/T--CPU_CHINA--Education--Figure_4.png" alt="">
                    </svg>
+
                        <p class="imgdescribe"><strong>Fig 4. Tokens exchange</span></p>
                </header>
+
                        <p><span>In June 2021, Tongji_China and us both were preparing a trial talk of
                <div id="contain" class=" clearfix">
+
                                meetup, during which we
                    <div class="left clearfix">
+
                                revised the speech and slides for each other.</span></p>
                        <svg class="Frosting" width="70%" height="280px">
+
                        <img src="https://static.igem.org/mediawiki/2021/0/0b/T--CPU_CHINA--Education--Figure_5.jpg" alt="">
                            <defs>
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                        <p class="imgdescribe"><strong>Fig 5. Speech Preparation</span></p>
                                <pattern id="cardBg" x="0" y="0" width="100" height="100" patternUnits="userSpaceOnUse">
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                        <p><span>In July, with the help of Tongji_China, we completed the synthetic biology
                                    <image opacity="0.5" width="100" height="100"
+
                                publicity and education
                                        xlink:href="https://static.igem.org/mediawiki/2021/7/75/T--CPU_CHINA--Frosting1.png" />
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                                project &quot;INTO CHINA, INTO IGEM&quot; in</span></p>
                                    <image class="fillLight" opacity="0.5" width="100" height="100"
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                        <p><span>In August, due to a new outbreak of COVID-19, we conducted a site visit to
                                        xlink:href="https://static.igem.org/mediawiki/2021/f/fd/T--CPU_CHINA--Frosting2.png" />
+
                                the Jiaozishan Waste
                                </pattern>
+
                                Treatment Plant for Tongji_China</span></p>
                            </defs>
+
                        <img src="https://static.igem.org/mediawiki/2021/7/77/T--CPU_CHINA--Education--Figure_6.png" alt="">
                            <g class="main">
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                        <p class="imgdescribe"><strong>Fig 6. Assisted interviw.</span></p>
                                <g class="card">
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                        <p><span> and provided Tongji_China with details of the wet waste treatment methods
                                    <rect fill="none" stroke="#ccc" opacity="0.75" stroke-width="3" width="100%"
+
                                of the existing waste
                                        height="100%" rx="10" ry="10" opacity="0.6" />
+
                                plant.</span></p>
                                    <rect fill="url(#cardBg)" width="100%" height="100%" rx="11" ry="11"
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                        <h3 id='2-benefit-from-each-other-1'><span>2. Benefit from each other.</span></h2>
                                        opacity="0.6" />
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                            <p><span>Tongji_China helped CPU_CHINA:</span></p>
                                </g>
+
                            <p><span>With the help of Tongji_China, we completed the design of a
                            </g>
+
                                    questionnaire about plastic pollution
                        </svg>
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                                    at the beginning of our project.</span></p>
                        <nav>
+
                            <h3 id='3-working-together-1'><span>3. Working together. </span></h2>
                            <div class="catalogue-title">PARTNERSHIP</div>
+
                                <p><span>PU_CHINA Team-Partnership Fig 5 &amp; CPU_CHINA Team-Partnership
                            <ul class="catalogue">
+
                                        Fig 6</span></p>
                                <li class="num">
+
                                <p><span>With the cooperation of both teams, we completed the project
                                    <a href="#section1" title="SAMMARY">SAMMARY</a>
+
                                        background research, final project
                                </li>
+
                                        design and polished the speech and slides in multiple presentations.
                                <li class="num">
+
                                        In addition, in education work,
                                    <a href="#section2" title="PARTNER2: UESTC-CHINA">PARTNER2: UESTC-CHINA</a>
+
                                        we completed the &quot;ICII&quot; project together.</span></p>
                                </li>
+
            </div>
                            </ul>
+
            <div class="section" id="section2">
                        </nav>
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                <h2 id='partner2-uestc-china'><span>Partner2: UESTC-China</span></h1>
                        <img src="https://static.igem.org/mediawiki/2021/2/2e/T--CPU_CHINA--walking.png" alt="">
+
                    <h3><span>—— It starts with
                    </div>
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                        </span><em><span>pichia
                    <div id="detail" class="clearfix">
+
                                pastoris</span></em>
                        <div class="section" id="section1">
+
                </h2>
                            <h2 id='summary'><span>Summary</span></h1>
+
                <h3 id='collaborative-work-at-different-stages'><span>Collaborative work at different
                                <p><span>In the circumstances of the continuous spread of the epidemic, this year, 2021,
+
                        stages.</span></h2>
                                        our team met a
+
                    <p><span>At the beginning of this season, April, we met UESTC-China in the iGEM
                                        group of excellent partners through online communication and offline visits.
+
                            communication community of
                                        From field visits and
+
                            China area and discussed the project design. In this meeting, we both focused on
                                        surveys to waste treatment plants, the overcoming of technical problems about
+
                            the issue of
                                    </span><em><span>Pichia pastoris</span></em><span> and CRISPR/Cas, to human
+
                            environmental protection, hoping to solve the pollution problems in our
                                        practice, we have been
+
                            life.</span></p>
                                        supporting each other all the way through the long season, and now we hand in a
+
                    <img src="https://static.igem.org/mediawiki/2021/b/bd/T--CPU_CHINA--Education--Figure_1.1.png" alt="">
                                        satisfactory
+
                    <p class="imgdescribe"><strong>Fig 1. Start of our partner journary</span></p>
                                        answer.</span></p>
+
                    <p><span>After our team confirmed the use of manganese peroxidase to degrade
                                <h3 id='partner-1-tongjichina'><span>Partner 1: Tongji_China</span>
+
                            polyethylene, how to choose the
                            </h2>
+
                            bottom bacteria became a difficult problem. In May, we held an online meeting
                            <h3 id='-------the-start-of-the-pede'><span>—— The start of the PEDe.</span></h2>
+
                            with UESTC-China in
                                <h3 id='1-collaborative-work-at-different-stages'><span>1. Collaborative work at
+
                            order to </span><strong><span>seek advice from UESTC-China</span></strong><span>
                                        different stages.</span>
+
                            on this issue
                                    </h2>
+
                            because UESTC has rich experience in yeast. With their help, our team compared
                                    <p><span>We have been in contact with Tongji_China for many seasons. At the
+
                            the advantages and
                                            beginning of this season in
+
                            disadvantages of </span><em><span>Saccharomyces cerevisiae</span></em><span> and
                                            April 2021, we organized an online project determination meeting to discuss
+
                        </span><em><span>Pichia pastoris</span></em><span> for secreting and expressing
                                            that for this season. At
+
                            highly glycosylated MnP,
                                            this meeting, we discussed with </span></p>
+
                            and finally decided to use </span><em><span>Pichia pastoris</span></em><span>
                                    <p><span>Tongji_China that the cities where the two teams are located both have
+
                            GS115 for protein
                                            begun to implement the
+
                            expression.</span></p>
                                            garbage sorting policy. And we all noticed that the messy collection of
+
                    <img src="https://static.igem.org/mediawiki/2021/1/10/T--CPU_CHINA--Education--Figure_2.1.png" alt="">
                                            parcel waste in the Cai Niao
+
                    <p class="imgdescribe"><strong>Fig 2. UESTC-China help CPU_CHINA with choosing of
                                            Courier Station on campus. So, we decided to conduct further research on
+
                            chassis--*Pichia Pastoris *GS115.</span></p>
                                            this.</span></p>
+
                    <p><span>In June, after the trial started, we exchanged the progress of the project for
                                    <p><span>In May, Tongji_China came to NanjinCPU_CHINA Team-Partnership</span></p>
+
                            the first time.
                                    <img src="https://static.igem.org/mediawiki/2021/1/17/T--CPU_CHINA--CPU_CHINA_Team-Partnership_Fig_1.png" alt="">
+
                            Discussed and solved the problems of </span><strong><span>bacteria contamination
                                    <p class="imgdescribe"><strong>Fig 1. Fisrt offline meeting</span></p>
+
                                and PCR
                                    <p><span>g to communicate with CPU offline. In this offline communication,
+
                                pretreatment</span></strong><span> encountered during the experiment. In
                                            Tongji_China shared their project
+
                            addition, the two teams
                                            design with us. They hope to use sulfoquinone oxidoreductase (SQR) and
+
                            also discussed how to use deep learning and </span><strong><span>machine
                                            Ks-Amt to detect hydrogen
+
                                learning for directed
                                            sulfide and ammonia, and use AQR, superoxide dismutase (SOD) , ArpBA and SAT
+
                                evolution of enzymes</span></strong><span>.</span></p>
                                            are expected to
+
                    <img src="https://static.igem.org/mediawiki/2021/8/8b/T--CPU_CHINA--Education--Figure_3.1.png" alt="">
                                            gradually degrade hydrogen sulfide gas to mask the stench produced by wet
+
                    <p class="imgdescribe"><strong>Fig 3. Design of plasmid be used to construct single
                                            garbage.</span></p>
+
                            point mutant.</span></p>
                                  <img src="https://static.igem.org/mediawiki/2021/c/c6/T--CPU_CHINA--Education--Figure_2.png" alt="">
+
                    <p><span>In July, we jointly </span><strong><span>formulated a cultural and creative
                                    <p class="imgdescribe"><strong>Fig 2. Communication in both team</span></p>
+
                                exchange
                                    <img src="https://static.igem.org/mediawiki/2021/9/92/T--CPU_CHINA--Education--Figure_3.jpg" alt="">
+
                                plan</span></strong><span>, and deeply understood the design concepts of
                                    <p class="imgdescribe"><strong>Fig 3. Academic communication</span></p>
+
                            each other&#39;s
                                    <p><span>At the meeting, Tongji_China proposed a problem that the secreted
+
                            projects, and initially made the work plan of the two teams in popular science
                                            expression of SQR and SOD may
+
                            education.</span></p>
                                            have low trans-membrane rate, while the way of lysing engineering bacteria
+
                    <img src="https://static.igem.org/mediawiki/2021/6/68/T--CPU_CHINA--Education--Figure_4.1.png" alt="">
                                            to obtain enzymes they
+
                    <p class="imgdescribe"><strong>Fig 4 Exchange of our culture-- Good from
                                            produced may face the problem that enzymes are gradated by intracellular
+
                            CPU_CHINA</span></p>
                                            proteases. In this regard,
+
                    <img src="https://static.igem.org/mediawiki/2021/0/0b/T--CPU_CHINA--Education--Figure_5.1.png" alt="">
                                            our team proposed two solutions respectively: ①We can construct a signal
+
                    <p class="imgdescribe"><strong>Fig 5 Exchange of our culture-- Good from
                                            peptide library and screen
+
                            UESTC-China</span></p>
                                            out the signal peptide with the highest efficiency to assist the target
+
                    <p><span>In August, we assisted UESTC-China in </span><strong><span>holding the Yeast
                                            protein with exocytosis,
+
                                Meetup</span></strong><span>, shared experience with the participating
                                            CPU_CHINA Team-Partnership Fig 3avoid the encounter between the protease and
+
                            teams, and finally
                                            the target protein as
+
                            completed the writing of the &quot;Yeast Handbook&quot;.</span></p>
                                            well. ②It can be considered to add protease inhibitor or EDTA to inhibit the
+
                    <img src="https://static.igem.org/mediawiki/2021/a/ac/T--CPU_CHINA--Education--Figure_6.1.jpg" alt="">
                                            protease activity in
+
                    <p class="imgdescribe"><strong>Fig 6. Image of Yeast Meetup</span></p>
                                            the process of lysing E. coli.</span></p>
+
                    <img src="https://static.igem.org/mediawiki/2021/a/af/T--CPU_CHINA--Education--Figure_7.1.png" alt="">
                                    <p><span>At the same time, Tongji_China shared the design ideas of the questionnaire
+
                    <p class="imgdescribe"><strong>Fig 7. The cover of </span><em><span>Yeast
                                            with us, hoping to help
+
                                    Handbook</span></em><span> Exchange of our culture--
                                            us optimize the questionnaire for plastic pollution treatment.</span></p>
+
                                Good from UESTC-China</span></p>
                                    <img src="https://static.igem.org/mediawiki/2021/3/3b/T--CPU_CHINA--Education--Figure_4.png" alt="">
+
                    <p><span>In September, with the help of UESTC-China, we jointly completed the
                                    <p class="imgdescribe"><strong>Fig 4. Tokens exchange</span></p>
+
                        </span><strong><span>&quot;ICII&quot; publicity and education work.</span></strong>
                                    <p><span>In June 2021, Tongji_China and us both were preparing a trial talk of
+
                        <span>In October, with the assistance of UESTC-China, we
                                            meetup, during which we
+
                        </span><strong><span>contacted with
                                            revised the speech and slides for each other.</span></p>
+
                                teacher</span></strong><span> Jia Fang from Chengdu Yeast Institute and
                                    <img src="https://static.igem.org/mediawiki/2021/0/0b/T--CPU_CHINA--Education--Figure_5.jpg" alt="">
+
                            teacher Pei Xiaoqiong
                                    <p class="imgdescribe"><strong>Fig 5. Speech Preparation</span></p>
+
                            from Sichuan University, and discovered common problems in the purification
                                    <p><span>In July, with the help of Tongji_China, we completed the synthetic biology
+
                            experiments of the
                                            publicity and education
+
                            His-Tag-labeled protein expressed in </span><em><span>Pichia
                                            project &quot;INTO CHINA, INTO IGEM&quot; in</span></p>
+
                                pastoris</span></em><span>.</span>
                                    <p><span>In August, due to a new outbreak of COVID-19, we conducted a site visit to
+
                    </p>
                                            the Jiaozishan Waste
+
                    <img src="https://static.igem.org/mediawiki/2021/1/1d/T--CPU_CHINA--Education--Figure_1.png" alt="">
                                            Treatment Plant for Tongji_China</span></p>
+
                    <p class="imgdescribe"><strong>Fig 8. Supply of the positive sample.</span></p>
                                    <img src="https://static.igem.org/mediawiki/2021/7/77/T--CPU_CHINA--Education--Figure_6.png" alt="">
+
                    <h3 id='2-benefit-from-each-other-2'><span>2. Benefit from each other.</span></h2>
                                    <p class="imgdescribe"><strong>Fig 6. Assisted interviw.</span></p>
+
                        <p><span>UESTC-China helped CPU_CHINA:</span></p>
                                    <p><span> and provided Tongji_China with details of the wet waste treatment methods
+
                        <p><span>UESTC-China helped us determine the use of the </span><em><span>Pichia
                                            of the existing waste
+
                                    pastoris</span></em><span>
                                            plant.</span></p>
+
                                expression system, guided our team to improve the quality of competent
                                    <h3 id='2-benefit-from-each-other-1'><span>2. Benefit from each other.</span></h2>
+
                                yeast, and assisted us in
                                        <p><span>Tongji_China helped CPU_CHINA:</span></p>
+
                                interviews with professionals about </span><em><span>Pichia
                                        <p><span>With the help of Tongji_China, we completed the design of a
+
                                    pastoris</span></em><span> . They also
                                                questionnaire about plastic pollution
+
                                helped us </span><strong><span>test the wild-type </span><em><span>Pichia
                                                at the beginning of our project.</span></p>
+
                                        pastoris</span></em><span>
                                        <h3 id='3-working-together-1'><span>3. Working together. </span></h2>
+
                                    we used</span></strong><span> and sent us the reagents needed to
                                            <p><span>PU_CHINA Team-Partnership Fig 5 &amp; CPU_CHINA Team-Partnership
+
                                complete the new enzyme
                                                    Fig 6</span></p>
+
                                activity determination method.</span></p>
                                            <p><span>With the cooperation of both teams, we completed the project
+
                        <p><span>CPU_CHINA helped UESTC-China: </span></p>
                                                    background research, final project
+
                        <p><span>We sent dCas9-SpyCatcher protein with His-Tag tag to UESTC-China, and
                                                    design and polished the speech and slides in multiple presentations.
+
                            </span><strong><span>provided
                                                    In addition, in education work,
+
                                    a His-Tag tag positive control sample for
                                                    we completed the &quot;ICII&quot; project together.</span></p>
+
                                    UESCTA-China</span></strong><span>.</span></p>
                        </div>
+
                        <h3 id='3-working-together-2'><span>3. Working together: </span></h2>
                        <div class="section" id="section2">
+
                            <p><span>We jointly completed the Yeast Meetup meeting and communication work,
                            <h2 id='partner2-uestc-china'><span>Partner2: UESTC-China</span></h1>
+
                                    and collaborated to complete
                                <h3><span>—— It starts with
+
                                    the writing of the </span><em><span>Yeast
                                    </span><em><span>pichia
+
                                        Handbook</span></em><span>.</span></p>
                                            pastoris</span></em>
+
                            <h3 id='partner-3-tianjin'><span>Partner 3: Tianjin</span></h2>
                            </h2>
+
                                <h3 id='-------partner-brought-by-crisprcas-technology'><span>—— Partner
                            <h3 id='collaborative-work-at-different-stages'><span>Collaborative work at different
+
                                        brought by CRISPR/Cas
                                    stages.</span></h2>
+
                                        technology</span></h2>
                                <p><span>At the beginning of this season, April, we met UESTC-China in the iGEM
+
                                    <h3 id='1collaborative-work-at-different-stages'><span>1.Collaborative
                                        communication community of
+
                                            work at different stages.</span></h2>
                                        China area and discussed the project design. In this meeting, we both focused on
+
                                        <p><span>In April, Tianjin provided us with </span><strong><span>the
                                        the issue of
+
                                                    idea of introducing CRISPR/dCas9
                                        environmental protection, hoping to solve the pollution problems in our
+
                                                    technology</span></strong><span> to fix proteins.</span>
                                        life.</span></p>
+
                                        </p>
                                <img src="https://static.igem.org/mediawiki/2021/b/bd/T--CPU_CHINA--Education--Figure_1.1.png" alt="">
+
                                        <img src="https://static.igem.org/mediawiki/2021/1/1b/T--CPU_CHINA--Education--Figure_1-1.jpg"
                                <p class="imgdescribe"><strong>Fig 1. Start of our partner journary</span></p>
+
                                            alt="">
                                <p><span>After our team confirmed the use of manganese peroxidase to degrade
+
                                        <p class="imgdescribe"><strong>Fig 1. Meet with Tianjin </span></p>
                                        polyethylene, how to choose the
+
                                        <p><span>In May, we discussed with Tianjin about the method of
                                        bottom bacteria became a difficult problem. In May, we held an online meeting
+
                                                constructing plasmids in
                                        with UESTC-China in
+
                                            </span><em><span>Saccharomyces cerevisiae</span></em><span>,
                                        order to </span><strong><span>seek advice from UESTC-China</span></strong><span>
+
                                                which served as a
                                        on this issue
+
                                            </span><strong><span>reference for us</span></strong><span> to
                                        because UESTC has rich experience in yeast. With their help, our team compared
+
                                                choose whether
                                        the advantages and
+
                                            </span><em><span>Saccharomyces cerevisiae</span></em><span> or
                                        disadvantages of </span><em><span>Saccharomyces cerevisiae</span></em><span> and
+
                                            </span><em><span>Pichia
                                    </span><em><span>Pichia pastoris</span></em><span> for secreting and expressing
+
                                                    pastoris</span></em><span> for experiments.</span></p>
                                        highly glycosylated MnP,
+
                                        <img src="https://static.igem.org/mediawiki/2021/5/56/T--CPU_CHINA--Education--Figure_2-1.png"
                                        and finally decided to use </span><em><span>Pichia pastoris</span></em><span>
+
                                            alt="">
                                        GS115 for protein
+
                                        <p class="imgdescribe"><strong>Fig 2. Comparation between
                                        expression.</span></p>
+
                                                </span><em><span>Saccharomyces cerevisiae</span></em><span>
                                <img src="https://static.igem.org/mediawiki/2021/1/10/T--CPU_CHINA--Education--Figure_2.1.png" alt="">
+
                                                    and
                                <p class="imgdescribe"><strong>Fig 2. UESTC-China help CPU_CHINA with choosing of
+
                                                </span><em><span>Pichia pastoris</span></em></p>
                                        chassis--*Pichia Pastoris *GS115.</span></p>
+
                                        <p><span>In June, we assisted Tianjin to complete a
                                <p><span>In June, after the trial started, we exchanged the progress of the project for
+
                                            </span><strong><span>questionnaire
                                        the first time.
+
                                                    survey</span></strong><span> on the prospects of
                                        Discussed and solved the problems of </span><strong><span>bacteria contamination
+
                                                chromosome-free </span><em><span>Saccharomyces
                                            and PCR
+
                                                    cerevisiae</span></em><span>.</span></p>
                                            pretreatment</span></strong><span> encountered during the experiment. In
+
                                        <img src="https://static.igem.org/mediawiki/2021/e/e0/T--CPU_CHINA--Education--Figure_3-1.jpg"
                                        addition, the two teams
+
                                            alt="">
                                        also discussed how to use deep learning and </span><strong><span>machine
+
                                        <p class="imgdescribe"><strong>Fig 3. Assist Tianjin with interview
                                            learning for directed
+
                                                offline </span></p>
                                            evolution of enzymes</span></strong><span>.</span></p>
+
                                        <p><span>In July, we participated in the
                                <img src="https://static.igem.org/mediawiki/2021/8/8b/T--CPU_CHINA--Education--Figure_3.1.png" alt="">
+
                                            </span><strong><span>CRISPR/Cas conference</span></strong><span>
                                <p class="imgdescribe"><strong>Fig 3. Design of plasmid be used to construct single
+
                                                held in Tianjin. At the meeting, we discussed the problem of
                                        point mutant.</span></p>
+
                                                protein expression of both teams and
                                <p><span>In July, we jointly </span><strong><span>formulated a cultural and creative
+
                                                provided practical solutions.</span></p>
                                            exchange
+
                                        <img src="https://static.igem.org/mediawiki/2021/c/c4/T--CPU_CHINA--Education--Figure_4-1.png"
                                            plan</span></strong><span>, and deeply understood the design concepts of
+
                                            alt="">
                                        each other&#39;s
+
                                        <p class="imgdescribe"><strong>Fig 4. CRISPR/Cas conference</span>
                                        projects, and initially made the work plan of the two teams in popular science
+
                                        </p>
                                        education.</span></p>
+
                                        <p><span>In August, </span><strong><span>we interviewed Ren
                                <img src="https://static.igem.org/mediawiki/2021/6/68/T--CPU_CHINA--Education--Figure_4.1.png" alt="">
+
                                                    Kejing</span></strong><span> from the laboratory
                                <p class="imgdescribe"><strong>Fig 4 Exchange of our culture-- Good from
+
                                                of China Pharmaceutical University for Tianjin to provide
                                        CPU_CHINA</span></p>
+
                                            </span><strong><span>suggestions on
                                <img src="https://static.igem.org/mediawiki/2021/0/0b/T--CPU_CHINA--Education--Figure_5.1.png" alt="">
+
                                                    CRISPR/Cas</span></strong><span> technology for yeast
                                <p class="imgdescribe"><strong>Fig 5 Exchange of our culture-- Good from
+
                                                chromosome cutting.</span></p>
                                        UESTC-China</span></p>
+
                                        <img src="https://static.igem.org/mediawiki/2021/1/15/T--CPU_CHINA--Education--Figure_5-1.JPG"
                                <p><span>In August, we assisted UESTC-China in </span><strong><span>holding the Yeast
+
                                            alt="">
                                            Meetup</span></strong><span>, shared experience with the participating
+
                                        <p class="imgdescribe"><strong>Fig 5. Interviewing for Tianjin
                                        teams, and finally
+
                                                </span></p>
                                        completed the writing of the &quot;Yeast Handbook&quot;.</span></p>
+
                                        <p><span>In September, Tianjin provided us with a method that we can
                                <img src="https://static.igem.org/mediawiki/2021/a/ac/T--CPU_CHINA--Education--Figure_6.1.jpg" alt="">
+
                                                use chromosome-free cells to express
                                <p class="imgdescribe"><strong>Fig 6. Image of Yeast Meetup</span></p>
+
                                                AAO, the protein </span><em><span>Pichia
                                <img src="https://static.igem.org/mediawiki/2021/a/af/T--CPU_CHINA--Education--Figure_7.1.png" alt="">
+
                                                    pastoris</span></em><span> failed to express.</span></p>
                                <p class="imgdescribe"><strong>Fig 7. The cover of </span><em><span>Yeast
+
                                        <img src="https://static.igem.org/mediawiki/2021/d/d4/T--CPU_CHINA--Education--Figure_6-3.png"
                                                Handbook</span></em><span> Exchange of our culture--
+
                                            alt="">
                                            Good from UESTC-China</span></p>
+
                                        <p class="imgdescribe"><strong>Fig 6. Experiment method provided by
                                <p><span>In September, with the help of UESTC-China, we jointly completed the
+
                                                Tianjin </span></p>
                                    </span><strong><span>&quot;ICII&quot; publicity and education work.</span></strong>
+
                                        <h3 id='2-benefit-from-each-other-3'><span>2. Benefit from each
                                    <span>In October, with the assistance of UESTC-China, we
+
                                                other.</span></h2>
                                    </span><strong><span>contacted with
+
                                            <p><strong><span>Tianjin helped CPU_CHINA:</span></strong><span>
                                            teacher</span></strong><span> Jia Fang from Chengdu Yeast Institute and
+
                                                </span></p>
                                        teacher Pei Xiaoqiong
+
                                            <p><span>Tianjin provided us with ideas and technical
                                        from Sichuan University, and discovered common problems in the purification
+
                                                </span><strong><span>references for using CRISPR/dCas9
                                        experiments of the
+
                                                        technology</span></strong><span> to assemble
                                        His-Tag-labeled protein expressed in </span><em><span>Pichia
+
                                                    molecular machines. And Tianjin provided us with an
                                            pastoris</span></em><span>.</span>
+
                                                </span><strong><span>experimental protocol for using their
                                </p>
+
                                                        yeast to express AAO.</span></strong></p>
                                <img src="https://static.igem.org/mediawiki/2021/1/1d/T--CPU_CHINA--Education--Figure_1.png" alt="">
+
                                            <p><strong><span>CPU_CHINA helped Tianjin:</span></strong><span>
                                <p class="imgdescribe"><strong>Fig 8. Supply of the positive sample.</span></p>
+
                                                </span></p>
                                <h3 id='2-benefit-from-each-other-2'><span>2. Benefit from each other.</span></h2>
+
                                            <p><span>We helped Tianjin </span><strong><span>design the
                                    <p><span>UESTC-China helped CPU_CHINA:</span></p>
+
                                                        half-life detection experiment of modified
                                    <p><span>UESTC-China helped us determine the use of the </span><em><span>Pichia
+
                                                        GFP.</span></strong><span> We also assisted Tianjin
                                                pastoris</span></em><span>
+
                                                    to
                                            expression system, guided our team to improve the quality of competent
+
                                                </span><strong><span>interview</span></strong><span>
                                            yeast, and assisted us in
+
                                                    researchers related to CRISPR/Cas
                                            interviews with professionals about </span><em><span>Pichia
+
                                                    technology.</span></p>
                                                pastoris</span></em><span> . They also
+
                                            <h3 id='3-working-together-3'><span>3. Working together.</span>
                                            helped us </span><strong><span>test the wild-type </span><em><span>Pichia
+
                                                </h2>
                                                    pastoris</span></em><span>
+
                                                <p><span>In the season of 2021, Tianjin and us helped each
                                                we used</span></strong><span> and sent us the reagents needed to
+
                                                        other to solve the problems in the use of
                                            complete the new enzyme
+
                                                        CRISPR/Cas related technologies, co-authored
                                            activity determination method.</span></p>
+
                                                    </span><em><span>CRISPR APPLICATION
                                    <p><span>CPU_CHINA helped UESTC-China: </span></p>
+
                                                            GUIDELINES</span></em><span>, and cooperated to
                                    <p><span>We sent dCas9-SpyCatcher protein with His-Tag tag to UESTC-China, and
+
                                                        complete the &quot;ICII&quot; publicity and
                                        </span><strong><span>provided
+
                                                        education project.</span></p>
                                                a His-Tag tag positive control sample for
+
                                                <p>&nbsp;</p>
                                                UESCTA-China</span></strong><span>.</span></p>
+
            </div>
                                    <h3 id='3-working-together-2'><span>3. Working together: </span></h2>
+
                                        <p><span>We jointly completed the Yeast Meetup meeting and communication work,
+
                                                and collaborated to complete
+
                                                the writing of the </span><em><span>Yeast
+
                                                    Handbook</span></em><span>.</span></p>
+
                                        <h3 id='partner-3-tianjin'><span>Partner 3: Tianjin</span></h2>
+
                                            <h3 id='-------partner-brought-by-crisprcas-technology'><span>—— Partner
+
                                                    brought by CRISPR/Cas
+
                                                    technology</span></h2>
+
                                                <h3 id='1collaborative-work-at-different-stages'><span>1.Collaborative
+
                                                        work at different stages.</span></h2>
+
                                                    <p><span>In April, Tianjin provided us with </span><strong><span>the
+
                                                                idea of introducing CRISPR/dCas9
+
                                                                technology</span></strong><span> to fix proteins.</span>
+
                                                    </p>
+
                                                    <img src="https://static.igem.org/mediawiki/2021/1/1b/T--CPU_CHINA--Education--Figure_1-1.jpg" alt="">
+
                                                    <p class="imgdescribe"><strong>Fig 1. Meet with Tianjin </span></p>
+
                                                    <p><span>In May, we discussed with Tianjin about the method of
+
                                                            constructing plasmids in
+
                                                        </span><em><span>Saccharomyces cerevisiae</span></em><span>,
+
                                                            which served as a
+
                                                        </span><strong><span>reference for us</span></strong><span> to
+
                                                            choose whether
+
                                                        </span><em><span>Saccharomyces cerevisiae</span></em><span> or
+
                                                        </span><em><span>Pichia
+
                                                                pastoris</span></em><span> for experiments.</span></p>
+
                                                    <img src="https://static.igem.org/mediawiki/2021/5/56/T--CPU_CHINA--Education--Figure_2-1.png" alt="">
+
                                                    <p class="imgdescribe"><strong>Fig 2. Comparation between
+
                                                            </span><em><span>Saccharomyces cerevisiae</span></em><span>
+
                                                                and
+
                                                            </span><em><span>Pichia pastoris</span></em></p>
+
                                                    <p><span>In June, we assisted Tianjin to complete a
+
                                                        </span><strong><span>questionnaire
+
                                                                survey</span></strong><span> on the prospects of
+
                                                            chromosome-free </span><em><span>Saccharomyces
+
                                                                cerevisiae</span></em><span>.</span></p>
+
                                                    <img src="https://static.igem.org/mediawiki/2021/e/e0/T--CPU_CHINA--Education--Figure_3-1.jpg" alt="">
+
                                                    <p class="imgdescribe"><strong>Fig 3. Assist Tianjin with interview
+
                                                            offline </span></p>
+
                                                    <p><span>In July, we participated in the
+
                                                        </span><strong><span>CRISPR/Cas conference</span></strong><span>
+
                                                            held in Tianjin. At the meeting, we discussed the problem of
+
                                                            protein expression of both teams and
+
                                                            provided practical solutions.</span></p>
+
                                                    <img src="https://static.igem.org/mediawiki/2021/c/c4/T--CPU_CHINA--Education--Figure_4-1.png" alt="">
+
                                                    <p class="imgdescribe"><strong>Fig 4. CRISPR/Cas conference</span>
+
                                                    </p>
+
                                                    <p><span>In August, </span><strong><span>we interviewed Ren
+
                                                                Kejing</span></strong><span> from the laboratory
+
                                                            of China Pharmaceutical University for Tianjin to provide
+
                                                        </span><strong><span>suggestions on
+
                                                                CRISPR/Cas</span></strong><span> technology for yeast
+
                                                            chromosome cutting.</span></p>
+
                                                    <img src="https://static.igem.org/mediawiki/2021/1/15/T--CPU_CHINA--Education--Figure_5-1.JPG" alt="">
+
                                                    <p class="imgdescribe"><strong>Fig 5. Interviewing for Tianjin
+
                                                            </span></p>
+
                                                    <p><span>In September, Tianjin provided us with a method that we can
+
                                                            use chromosome-free cells to express
+
                                                            AAO, the protein </span><em><span>Pichia
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                                                                pastoris</span></em><span> failed to express.</span></p>
+
                                                    <img src="https://static.igem.org/mediawiki/2021/d/d4/T--CPU_CHINA--Education--Figure_6-3.png" alt="">
+
                                                    <p class="imgdescribe"><strong>Fig 6. Experiment method provided by
+
                                                            Tianjin </span></p>
+
                                                    <h3 id='2-benefit-from-each-other-3'><span>2. Benefit from each
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                                                            other.</span></h2>
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                                                        <p><strong><span>Tianjin helped CPU_CHINA:</span></strong><span>
+
                                                            </span></p>
+
                                                        <p><span>Tianjin provided us with ideas and technical
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                                                            </span><strong><span>references for using CRISPR/dCas9
+
                                                                    technology</span></strong><span> to assemble
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                                                                molecular machines. And Tianjin provided us with an
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                                                            </span><strong><span>experimental protocol for using their
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                                                                    yeast to express AAO.</span></strong></p>
+
                                                        <p><strong><span>CPU_CHINA helped Tianjin:</span></strong><span>
+
                                                            </span></p>
+
                                                        <p><span>We helped Tianjin </span><strong><span>design the
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                                                                    half-life detection experiment of modified
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                                                                    GFP.</span></strong><span> We also assisted Tianjin
+
                                                                to
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                                                            </span><strong><span>interview</span></strong><span>
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                                                                researchers related to CRISPR/Cas
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                                                                technology.</span></p>
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                                                        <h3 id='3-working-together-3'><span>3. Working together.</span>
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                                                            </h2>
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                                                            <p><span>In the season of 2021, Tianjin and us helped each
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                                                                    other to solve the problems in the use of
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                                                                    CRISPR/Cas related technologies, co-authored
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                                                                </span><em><span>CRISPR APPLICATION
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                                                                        GUIDELINES</span></em><span>, and cooperated to
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                                                                    complete the &quot;ICII&quot; publicity and
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                                                                    education project.</span></p>
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                                                            <p>&nbsp;</p>
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                        </div>
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Revision as of 02:16, 22 October 2021

<!DOCTYPE html> Collaboration

Summary

In the circumstances of the continuous spread of the epidemic, this year, 2021, our team met a group of excellent partners through online communication and offline visits. From field visits and surveys to waste treatment plants, the overcoming of technical problems about Pichia pastoris and CRISPR/Cas, to human practice, we have been supporting each other all the way through the long season, and now we hand in a satisfactory answer.

Partner 1: Tongji_China

—— The start of the PEDe.

1. Collaborative work at different stages.

We have been in contact with Tongji_China for many seasons. At the beginning of this season in April 2021, we organized an online project determination meeting to discuss that for this season. At this meeting, we discussed with

Tongji_China that the cities where the two teams are located both have begun to implement the garbage sorting policy. And we all noticed that the messy collection of parcel waste in the Cai Niao Courier Station on campus. So, we decided to conduct further research on this.

In May, Tongji_China came to NanjinCPU_CHINA Team-Partnership

Fig 1. Fisrt offline meeting

g to communicate with CPU offline. In this offline communication, Tongji_China shared their project design with us. They hope to use sulfoquinone oxidoreductase (SQR) and Ks-Amt to detect hydrogen sulfide and ammonia, and use AQR, superoxide dismutase (SOD) , ArpBA and SAT are expected to gradually degrade hydrogen sulfide gas to mask the stench produced by wet garbage.

Fig 2. Communication in both team

Fig 3. Academic communication

At the meeting, Tongji_China proposed a problem that the secreted expression of SQR and SOD may have low trans-membrane rate, while the way of lysing engineering bacteria to obtain enzymes they produced may face the problem that enzymes are gradated by intracellular proteases. In this regard, our team proposed two solutions respectively: ①We can construct a signal peptide library and screen out the signal peptide with the highest efficiency to assist the target protein with exocytosis, CPU_CHINA Team-Partnership Fig 3avoid the encounter between the protease and the target protein as well. ②It can be considered to add protease inhibitor or EDTA to inhibit the protease activity in the process of lysing E. coli.

At the same time, Tongji_China shared the design ideas of the questionnaire with us, hoping to help us optimize the questionnaire for plastic pollution treatment.

Fig 4. Tokens exchange

In June 2021, Tongji_China and us both were preparing a trial talk of meetup, during which we revised the speech and slides for each other.

Fig 5. Speech Preparation

In July, with the help of Tongji_China, we completed the synthetic biology publicity and education project "INTO CHINA, INTO IGEM" in

In August, due to a new outbreak of COVID-19, we conducted a site visit to the Jiaozishan Waste Treatment Plant for Tongji_China

Fig 6. Assisted interviw.

and provided Tongji_China with details of the wet waste treatment methods of the existing waste plant.

2. Benefit from each other.

Tongji_China helped CPU_CHINA:

With the help of Tongji_China, we completed the design of a questionnaire about plastic pollution at the beginning of our project.

3. Working together.

PU_CHINA Team-Partnership Fig 5 & CPU_CHINA Team-Partnership Fig 6

With the cooperation of both teams, we completed the project background research, final project design and polished the speech and slides in multiple presentations. In addition, in education work, we completed the "ICII" project together.

Partner2: UESTC-China

—— It starts with pichia pastoris

Collaborative work at different stages.

At the beginning of this season, April, we met UESTC-China in the iGEM communication community of China area and discussed the project design. In this meeting, we both focused on the issue of environmental protection, hoping to solve the pollution problems in our life.

Fig 1. Start of our partner journary

After our team confirmed the use of manganese peroxidase to degrade polyethylene, how to choose the bottom bacteria became a difficult problem. In May, we held an online meeting with UESTC-China in order to seek advice from UESTC-China on this issue because UESTC has rich experience in yeast. With their help, our team compared the advantages and disadvantages of Saccharomyces cerevisiae and Pichia pastoris for secreting and expressing highly glycosylated MnP, and finally decided to use Pichia pastoris GS115 for protein expression.

Fig 2. UESTC-China help CPU_CHINA with choosing of chassis--*Pichia Pastoris *GS115.

In June, after the trial started, we exchanged the progress of the project for the first time. Discussed and solved the problems of bacteria contamination and PCR pretreatment encountered during the experiment. In addition, the two teams also discussed how to use deep learning and machine learning for directed evolution of enzymes.

Fig 3. Design of plasmid be used to construct single point mutant.

In July, we jointly formulated a cultural and creative exchange plan, and deeply understood the design concepts of each other's projects, and initially made the work plan of the two teams in popular science education.

Fig 4 Exchange of our culture-- Good from CPU_CHINA

Fig 5 Exchange of our culture-- Good from UESTC-China

In August, we assisted UESTC-China in holding the Yeast Meetup, shared experience with the participating teams, and finally completed the writing of the "Yeast Handbook".

Fig 6. Image of Yeast Meetup

Fig 7. The cover of Yeast Handbook Exchange of our culture-- Good from UESTC-China

In September, with the help of UESTC-China, we jointly completed the "ICII" publicity and education work. In October, with the assistance of UESTC-China, we contacted with teacher Jia Fang from Chengdu Yeast Institute and teacher Pei Xiaoqiong from Sichuan University, and discovered common problems in the purification experiments of the His-Tag-labeled protein expressed in Pichia pastoris.

Fig 8. Supply of the positive sample.

2. Benefit from each other.

UESTC-China helped CPU_CHINA:

UESTC-China helped us determine the use of the Pichia pastoris expression system, guided our team to improve the quality of competent yeast, and assisted us in interviews with professionals about Pichia pastoris . They also helped us test the wild-type Pichia pastoris we used and sent us the reagents needed to complete the new enzyme activity determination method.

CPU_CHINA helped UESTC-China:

We sent dCas9-SpyCatcher protein with His-Tag tag to UESTC-China, and provided a His-Tag tag positive control sample for UESCTA-China.

3. Working together:

We jointly completed the Yeast Meetup meeting and communication work, and collaborated to complete the writing of the Yeast Handbook.

Partner 3: Tianjin

—— Partner brought by CRISPR/Cas technology

1.Collaborative work at different stages.

In April, Tianjin provided us with the idea of introducing CRISPR/dCas9 technology to fix proteins.

Fig 1. Meet with Tianjin

In May, we discussed with Tianjin about the method of constructing plasmids in Saccharomyces cerevisiae, which served as a reference for us to choose whether Saccharomyces cerevisiae or Pichia pastoris for experiments.

Fig 2. Comparation between Saccharomyces cerevisiae and Pichia pastoris

In June, we assisted Tianjin to complete a questionnaire survey on the prospects of chromosome-free Saccharomyces cerevisiae.

Fig 3. Assist Tianjin with interview offline

In July, we participated in the CRISPR/Cas conference held in Tianjin. At the meeting, we discussed the problem of protein expression of both teams and provided practical solutions.

Fig 4. CRISPR/Cas conference

In August, we interviewed Ren Kejing from the laboratory of China Pharmaceutical University for Tianjin to provide suggestions on CRISPR/Cas technology for yeast chromosome cutting.

Fig 5. Interviewing for Tianjin

In September, Tianjin provided us with a method that we can use chromosome-free cells to express AAO, the protein Pichia pastoris failed to express.

Fig 6. Experiment method provided by Tianjin

2. Benefit from each other.

Tianjin helped CPU_CHINA:

Tianjin provided us with ideas and technical references for using CRISPR/dCas9 technology to assemble molecular machines. And Tianjin provided us with an experimental protocol for using their yeast to express AAO.

CPU_CHINA helped Tianjin:

We helped Tianjin design the half-life detection experiment of modified GFP. We also assisted Tianjin to interview researchers related to CRISPR/Cas technology.

3. Working together.

In the season of 2021, Tianjin and us helped each other to solve the problems in the use of CRISPR/Cas related technologies, co-authored CRISPR APPLICATION GUIDELINES, and cooperated to complete the "ICII" publicity and education project.