Difference between revisions of "Team:XMU-China/Description"

 
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            <a href="#T" id="Quick_B">Antea-Glyphosate</a></a>
<p>As a famous saying goes, "Quantitative changes lead to qualitative changes". This year team XMU-China did experience a period of pain. During the brainstorming stage, our team was divided into 5 groups to explore different project directions for the 2019 iGEM competition. We initially constructed 5 alternative projects in 8 weeks:</p>
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<p>1. Reuse of Waste Edible Oil: Efficiently Producing Surfactants in <i>Bacillus Subtilis</i></p>
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            <img id="turn_img" src="https://static.igem.org/mediawiki/2020/d/dd/T--XMU-China--right2-2.png">
<p>2. Plasmid Delivery System Suppresses the Release of Inflammatory Cytokines in Inflammatory Bowel Disease (IBD) to Relieve Symptoms</p>
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<p>3. Using Alkaloids to Kill Fouling Organism Barnacles</p>
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<p>4. Repairing Wooden Buildings with <i>E. coli</i> Secreted Cellulose</p>
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<p>5. Using Bacteria to Simulate Social Relationships </p>
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<p>With these preliminary projects, we joined this year's Southern China Regional Meeting, and this meeting did help us determine our project's direction. During the brainstorming stage of our team, there was an idea that was promoting at that time: Using Alkaloids to Kill Fouling Organism Barnacles as mentioned above. This was surprisingly similar to the design introduced by Greatbay_SCIE in the meeting presentation. We had more in-depth communication with Greatbay_SCIE team for genetic circuit. As we hope to construct innovative project, this stimulated us to explore more new fields through brainstorming. The meeting was a great impetus for us to turn our attention to the study of sociology using synthetic biology.</p>
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<p>Then we did a pointed literature search and summarized some ideas that could support this project. </p>
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<p>Using microbes for sociology often gains interesting results. Japanese scientist Nakagaki (<i>1</i>) used slime molds to crack a maze successfully in 2004. In 2010, Tero (<i>2</i>) just spent 26 hours by using slime molds and sweet oat granules simulating the road map of Japanese Shinkansen which actually spent several decades to build. People wondered why slime molds without nervous systems can solve such complicated network problem in such a short time, but no wan can give a convincing answer so far. Shapiro (<i>3</i>) pointed out in 2007 that bacteria have cognitive, computational and evolutionary abilities. Meanwhile, they can utilize complex intercellular communication mechanisms to control the basic cellular biology functions of "advanced" plants and animals, which means that it is possible to use bacteria to simulate some basic social forms or interactions.</p>
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<p>Bourke, an evolutionary biologist, gives an explanation for the biological evolution to social evolution. He believes that: <i>genes form genomes, prokaryotic cells and protobacteria form eukaryote cells, eukaryote cells form multicelled organisms and multicelled organisms form eusocial societies or join with other organisms to form mutualisms</i>. (<i>4</i>)</p>
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                <a href="https://2020.igem.org/Team:XMU-China">
<p>In fact, observing the evolution of a stable species to another stable species can better help us understand the social structure. However, due to the consideration of time cost, it seems to be a more viable way by using synthetic biological method to create engineering bacteria with different functions that we need directly.</p>
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                    <img src="https://static.igem.org/mediawiki/2020/c/cb/T--XMU-China--logo.png" alt="">
<p>So, we abstracted social relationships into Mutual Benefit, Altruism, Spite and Selfishness. Our team prepared to build genetic circuits around these 4 relationships.</p>
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<p>But it was the origin version of our project, we lately improved our project for more than 4 times and finally formed the final version Re_Gone with the wind. You can see more details about why and how we updated the project version at the page of  <a class="click_here" href="https://2019.igem.org/Team:XMU-China/Human_Practices">Integrated Human Practices</a>.</p>
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                            <a href="https://2020.igem.org/Team:XMU-China/Description"><li>Description</li></a>
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                            <a href="https://2020.igem.org/Team:XMU-China/Design"><li>Design</li></a>
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                            <a href="https://2020.igem.org/Team:XMU-China/Results"><li>Result</li></a>
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                            <a href="https://2020.igem.org/Team:XMU-China/Engineering"><li>Engineering Success</li></a>
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<p>XIAMEN UNIVERSITY XIAMEN UNIVERSITY XIAMEN UNIVERSITY XIAMEN UNIVERSITY XIAMEN UNIVERSITY XIAMEN UNIVERSITY</p>
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<p>XIAMEN UNIVERSITY XIAMEN UNIVERSITY XIAMEN UNIVERSITY XIAMEN UNIVERSITY XIAMEN UNIVERSITY XIAMEN UNIVERSITY</p>
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<p>XIAMEN UNIVERSITY XIAMEN UNIVERSITY XIAMEN UNIVERSITY XIAMEN UNIVERSITY XIAMEN UNIVERSITY XIAMEN UNIVERSITY</p>
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<p>XIAMEN UNIVERSITY XIAMEN UNIVERSITY XIAMEN UNIVERSITY XIAMEN UNIVERSITY XIAMEN UNIVERSITY XIAMEN UNIVERSITY</p>
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<p>XIAMEN UNIVERSITY XIAMEN UNIVERSITY XIAMEN UNIVERSITY XIAMEN UNIVERSITY XIAMEN UNIVERSITY XIAMEN UNIVERSITY</p>
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<p>XIAMEN UNIVERSITY XIAMEN UNIVERSITY XIAMEN UNIVERSITY XIAMEN UNIVERSITY XIAMEN UNIVERSITY XIAMEN UNIVERSITY</p>
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                        <a href="" class="a1">Human Practices</a>
<div class="panel-heading" role="tab" id="heading60">
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                        <ul class="two">
<h4 class="panel-title">
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                            <a href="https://2020.igem.org/Team:XMU-China/Human_Practices"><li>Overview</li></a>
<a class="collapsed" role="button" data-toggle="collapse" data-parent="#accordion" href="#collapse60" aria-expanded="false" aria-controls="collapse60">
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                            <a href="https://2020.igem.org/Team:XMU-China/Human_Practices#Silver"><li>Silver</li></a>
Literature Analysis
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                            <a href="https://2020.igem.org/Team:XMU-China/Human_Practices#Gold"><li>Gold</li></a>
</a></h4>
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                            <a href="https://2020.igem.org/Team:XMU-China/Education"><li>Science Communication</li></a>
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                            <a href="https://2020.igem.org/Team:XMU-China/Entrepreneurship"><li>Supporting Entrepreneurship</li></a>
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                        </ul>
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<p>Using microbes for group interactions often gains interesting results. Japanese scientist Nakagaki (<i>1</i>) used slime molds to crack a maze successfully in 2004. In 2010, Tero (<i>2</i>) just spent 26 hours by using slime molds and sweet oat granules simulating the road map of Japanese Shinkansen which actually spent several decades to build. People wondered why slime molds without nervous systems can solve such complicated network problem in such a short time, but no wan can give a convincing answer so far. Shapiro (<i>3</i>) pointed out in 2007 that bacteria have cognitive, computational and evolutionary abilities. Meanwhile, they can utilize complex intercellular communication mechanisms to control the basic cellular biology functions of “advanced” plants and animals, which means that it is possible to use bacteria to simulate some basic social forms or interactions.</p>
+
                    <li>
<P>Bourke, an evolutionary biologist, gives an explanation for the biological evolution to social evolution. He believes that: <i>genes form genomes, prokaryotic cells and protobacteria form eukaryote cells, eukaryote cells form multicelled organisms and multicelled organisms form eusocial societies or join with other organisms to form mutualisms</i> (<i>4</i>).</P>
+
                        <div class="ball"></div>
<p>In fact, observing the evolution of a stable species to another stable species can better help us understand the social structure. However, due to the consideration of time cost, it seems to be a more viable way by using synthetic biological method to create engineering bacteria with different functions that we need directly.</p>
+
                        <a href="" class="a1">Awards</a>
<p>So, we abstracted group interactions into Mutual Benefit, Altruism, Spite and Selfishness. Our team prepared to build genetic circuits around these 4 relationships.</p>
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                        <ul class="two">
</div>
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<a href="https://2020.igem.org/Team:XMU-China/Awards"><li>Awards</li></a>
</div>
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                            <a href="https://2020.igem.org/Team:XMU-China/Judging"><li>Judging</li></a>
</div>
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                            <a href="https://2020.igem.org/Team:XMU-China/Human_Practices"><li>Best Integrated Human Practices</li></a>
</div>
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                            <a href="https://2020.igem.org/Team:XMU-China/Education"><li>Best Education</li></a>
</div>
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                            <a href="https://2020.igem.org/Team:XMU-China/Entrepreneurship"><li>Best Supporting Entrepreneurship</li></a>
</div>
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                            <a href="https://2020.igem.org/Team:XMU-China/Model"><li>Best Model</li></a>
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                            <a href="https://2020.igem.org/Team:XMU-China/Hardware"><li>Best Hardware</li></a>
<h2 class="specialHeadline">Gold</h2>
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                            <a href="https://2020.igem.org/Team:XMU-China/Parts#Basic"><li>Best Basic Parts</li></a>
<h3 class="specialHeadline2">Integrated Human Practices</h3>
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                    <a href="https://2020.igem.org/Team:XMU-China/Parts#Composite"><li>Best Composite Parts</li></a>
<p>This year’s Integrated Human Practices can be divided into four parts. Firstly, we have widely read sociological literatures on our project, which established the foundation for initially constructing our project. Additionally, we have communicated with professors from Molecular Anthropology, Bioenergy Engineering, Sociology and Public Affairs Management respectively, whose feedbacks helped us to determine the subject of our project and the major direction of the experiment design. What’s more, in terms of the details of the subject, we have made an elaborate design for the questionnaire using social-science research methods, and we have conducted extensive investigations in iGEM Community and public. We attended various exchange meetings in China, and communicated with many teams. </p>
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                    <a href="https://2020.igem.org/Team:XMU-China/Parts#Collection"><li>Best Part Collection</li></a>
<h3 class="specialHeadline2">Integrated Human Practices</h3>
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                        </ul>
<p>This year’s Integrated Human Practices can be divided into four parts. Firstly, we have widely read sociological literatures on our project, which established the foundation for initially constructing our project. Additionally, we have communicated with professors from Molecular Anthropology, Bioenergy Engineering, Sociology and Public Affairs Management respectively, whose feedbacks helped us to determine the subject of our project and the major direction of the experiment design. What’s more, in terms of the details of the subject, we have made an elaborate design for the questionnaire using social-science research methods, and we have conducted extensive investigations in iGEM Community and public. We attended various exchange meetings in China, and communicated with many teams. </p>
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                    </li>
<h2 class="specialHeadline">Silver</h2>
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                </ul>
<p>This year’s Integrated Human Practices can be divided into four parts. Firstly, we have widely read sociological literatures on our project, which established the foundation for initially constructing our project. Additionally, we have communicated with professors from Molecular Anthropology, Bioenergy Engineering, Sociology and Public Affairs Management respectively, whose feedbacks helped us to determine the subject of our project and the major direction of the experiment design. What’s more, in terms of the details of the subject, we have made an elaborate design for the questionnaire using social-science research methods, and we have conducted extensive investigations in iGEM Community and public. We attended various exchange meetings in China, and communicated with many teams. </p>
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            </div>
<h2 class="specialHeadline">Bronze</h2>
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        </div>
<p>This year’s Integrated Human Practices can be divided into four parts. Firstly, we have widely read sociological literatures on our project, which established the foundation for initially constructing our project. Additionally, we have communicated with professors from Molecular Anthropology, Bioenergy Engineering, Sociology and Public Affairs Management respectively, whose feedbacks helped us to determine the subject of our project and the major direction of the experiment design. What’s more, in terms of the details of the subject, we have made an elaborate design for the questionnaire using social-science research methods, and we have conducted extensive investigations in iGEM Community and public. We attended various exchange meetings in China, and communicated with many teams. </p>
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<div class="cont cont3">
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<h1 class="allheadline">Reference</h1>
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<p>1. T. Nakagaki, et al., Yamada, Maze-solving by an amoeboid organism. Nature 407, 470 (2000).</p>
+
<p>2. A. Tero, et al., Rules for Biologically Inspired Adaptive Network Design. Science 327, 439-442 (2010).</p>
+
<p>3. J. A. Shapiro, Bacteria are small but not stupid: cognition, natural genetic engineering and socio-bacteriology. Stud Hist Phil Biol & Biomed Sci 38, 807-819 (2007).</p>
+
<p>4. C. E. Mouden, Life: social to its core Principles of Social Evolution. Evolution and Human Behavior 33, 79-80 (2012).</p>
+
<h1 class="allheadline">Reference</h1>
+
<p>1. T. Nakagaki, et al., Yamada, Maze-solving by an amoeboid organism. Nature 407, 470 (2000).</p>
+
<p>2. A. Tero, et al., Rules for Biologically Inspired Adaptive Network Design. Science 327, 439-442 (2010).</p>
+
<p>3. J. A. Shapiro, Bacteria are small but not stupid: cognition, natural genetic engineering and socio-bacteriology. Stud Hist Phil Biol & Biomed Sci 38, 807-819 (2007).</p>
+
<p>4. C. E. Mouden, Life: social to its core Principles of Social Evolution. Evolution and Human Behavior 33, 79-80 (2012).</p>
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                Inspiration
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            <p>Fujian province, where Xiamen University is located, is a famous tea production base nominated for the hometown of tea, plays a vital role in China and even around the world. In 2019, the yield of tea in Fujian reached 410,000 tons, with income of 29.7 billion yuan. Tea production has become not only the pillar industry of Fujian, but also its business card to the world. With the development of modern tea planting industry, herbicides appear in tea plantations.</p>
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            <p class="F3">
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                <img src="https://static.igem.org/mediawiki/2020/8/89/T--XMU-China--XMU-China_2020_Annual_Production.png">
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            </p>
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            <p class="Figure_word">Fig. 1 The annual production and output value of tea in Fujian</p>
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            <p>This year, we decided to focus on the problems that tea food industry is facing. In January 2020, for understanding the current situation of tea diseases, pests and agricultural residues, we went to Wuyi Mount, Fujian Province to do researches. </p>
 +
            <p>Our team members visited Huo Da, the teacher of Wuyi College; Huang Shixiong, the agronomic master of Wuyi Agricultural and Rural Bureau and Zhong Xingwang, the director of Wuyi Tea Quality Inspection Institute. Through communicating with Mr. Huo and Mr.Huang, we learned that a variety of physical, chemical and biological methods had been developed to deal with the problems of tea diseases and pests, had a better understanding of the advantages and limitations of biological pesticides. In conclusion, the vitality of tea trees is very tenacious. <strong style="font-weight: bold">Diseases and pests are not the main issues plaguing in the safety aspect of tea foods, pesticide and herbicide residues are greater hidden danger.</strong></p>
 +
            <p>To solve the problem of herbicide’s over-application and residues in tea food, Director Xingwang Zhong gave our team greater inspiration. On the one hand, the problems of agricultural residues need to be control in a timely manner for the export of tea and the long-term development of tea plantations. On the other hand, herbicides like glyphosate are currently used in tea cultivation even have no national standard agricultural residue detection methods. <strong style="font-weight: bold">It gave us a good direction to develop convenient detection methods for herbicides with incomplete testing standards.</strong></p>
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            <p class="F3">
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                <img src="https://static.igem.org/mediawiki/2020/b/b9/T--XMU-China--XMU-China_2020_Quality_Inspection_Institute.jpeg">
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            </p>
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            <p class="Figure_word">Fig. 2 Team members are communicating with Director Zhong</p>
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            <p>During the further discussion and brainstorm, our team started to wonder if we could solve the problem from its origin, so we decided develop a new technology to degrade the glyphosate residue in tea leaves. However, we realized that the farmers are unwilling to use bacteria on tea leaves, which may arise more safety issues. So we changed our project's target to develop a method that can degrade the glyphosate in soil. <strong style="font-weight: bold">We hope the degradation system we design can efficiently cut the absorption of glyphosate in tea food.</strong> </p>
 +
            <p>These investigations gave our team a better understanding of the tea culture and tea industry in Wuyi Mount. It was a great inspiration for our team to turn our attention to the development of synthetic biology methods to solve the glyphosate residues problems on tea.</p>
 +
            <p>But it was the origin version of our project, we lately improved our project for more than 4 times and finally formed the final version AnTea-Glyphosate. You can see more details about why and how we updated the project version at the page of <a style="color:green" href="https://2020.igem.org/Team:XMU-China/Human_Practices">Integrated Human Practices</a>.</p>
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                AnTea-Glyphosate
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            <p>Tea is deeply rooted in Chinese culture. For a long period, a large amount of glyphosate has been used as a herbicide, which raises a severe problem of pesticide residues in tea food. XMU-China aims at developing an efficient glyphosate detection and degradation system. For the detection system, glyphosate is degraded by several enzymes and then transferred into a measurable fluorescence signal caused by the NADPH; and the degradation system plans to disintegrate glyphosate to be AMPA to minimize the toxicity. Two suicide switches controlled by different inducers are also projected. It is hoped that this project could provide new ideas for the detection and degradation of pesticide residues. Taking care of the earth by tiny bacteria, we here promise a better future of tea.</p>
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            <p class="F2">
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Latest revision as of 05:22, 21 December 2020

Inspiration

Fujian province, where Xiamen University is located, is a famous tea production base nominated for the hometown of tea, plays a vital role in China and even around the world. In 2019, the yield of tea in Fujian reached 410,000 tons, with income of 29.7 billion yuan. Tea production has become not only the pillar industry of Fujian, but also its business card to the world. With the development of modern tea planting industry, herbicides appear in tea plantations.

Fig. 1 The annual production and output value of tea in Fujian

This year, we decided to focus on the problems that tea food industry is facing. In January 2020, for understanding the current situation of tea diseases, pests and agricultural residues, we went to Wuyi Mount, Fujian Province to do researches.

Our team members visited Huo Da, the teacher of Wuyi College; Huang Shixiong, the agronomic master of Wuyi Agricultural and Rural Bureau and Zhong Xingwang, the director of Wuyi Tea Quality Inspection Institute. Through communicating with Mr. Huo and Mr.Huang, we learned that a variety of physical, chemical and biological methods had been developed to deal with the problems of tea diseases and pests, had a better understanding of the advantages and limitations of biological pesticides. In conclusion, the vitality of tea trees is very tenacious. Diseases and pests are not the main issues plaguing in the safety aspect of tea foods, pesticide and herbicide residues are greater hidden danger.

To solve the problem of herbicide’s over-application and residues in tea food, Director Xingwang Zhong gave our team greater inspiration. On the one hand, the problems of agricultural residues need to be control in a timely manner for the export of tea and the long-term development of tea plantations. On the other hand, herbicides like glyphosate are currently used in tea cultivation even have no national standard agricultural residue detection methods. It gave us a good direction to develop convenient detection methods for herbicides with incomplete testing standards.

Fig. 2 Team members are communicating with Director Zhong

During the further discussion and brainstorm, our team started to wonder if we could solve the problem from its origin, so we decided develop a new technology to degrade the glyphosate residue in tea leaves. However, we realized that the farmers are unwilling to use bacteria on tea leaves, which may arise more safety issues. So we changed our project's target to develop a method that can degrade the glyphosate in soil. We hope the degradation system we design can efficiently cut the absorption of glyphosate in tea food.

These investigations gave our team a better understanding of the tea culture and tea industry in Wuyi Mount. It was a great inspiration for our team to turn our attention to the development of synthetic biology methods to solve the glyphosate residues problems on tea.

But it was the origin version of our project, we lately improved our project for more than 4 times and finally formed the final version AnTea-Glyphosate. You can see more details about why and how we updated the project version at the page of Integrated Human Practices.

AnTea-Glyphosate

Tea is deeply rooted in Chinese culture. For a long period, a large amount of glyphosate has been used as a herbicide, which raises a severe problem of pesticide residues in tea food. XMU-China aims at developing an efficient glyphosate detection and degradation system. For the detection system, glyphosate is degraded by several enzymes and then transferred into a measurable fluorescence signal caused by the NADPH; and the degradation system plans to disintegrate glyphosate to be AMPA to minimize the toxicity. Two suicide switches controlled by different inducers are also projected. It is hoped that this project could provide new ideas for the detection and degradation of pesticide residues. Taking care of the earth by tiny bacteria, we here promise a better future of tea.