Difference between revisions of "Team:SJTU-BioX-Shanghai/HP/Gold Integrated-cn"

今年，SJTU-BIOX-Shanghai团队创造了一个原创的分析和展现integrated HP的方法。我们可以采用这种方法来认识、策划和展现队伍的integrated HP，我们称之为主体分析方法。

在Integrated HP部分，我们的目标是将自己与社会的工作整合进我们的项目，这一过程一定涉及到两个主体，“我们”和“我们所作用的对象”（在我们的理论中，解释成“他们”），我们认为：

1. 设计HP工作的时候应该从两个主体的角度出发，分析我们需要什么，他们能得到什么，这样能够更合适的开展我们的工作，达到更好的效果。
2. 总结我们的HP工作的时候应该从两个主体的角度出发，从不同的角度看待事情的结果，有没有达到效果，各方的收获都有什么。
3. 展现我们的HP工作的时候应该从两个主体的方式展现，这样能够让读者体会两方的感受，同时更好的理解我们的integrated HP工作。

我们将会先做个示范，用这个方法分析我们的integrated HP工作，也许看完，你就能清楚的体会到我们的整体思路，感受到这种方法的漂亮之处！

我们认为，从两个角度看待我们的HP工作，能够更高效的阐释清楚什么是integrated HP，并且，这种分析方式可以为其他的iGEM队伍提供借鉴和思路。在认识、策划、展示你们的iGEM integrate HP的时候，你可以尝试一下这种方法，兴许会有意想不到的发现！

这种方法主要由以下几个方面构成：

对于“WE”的部分，主要采用“我们想……”“我们了解到……”等语句组织，主要阐述你们项目发展过程中的遇到的问题和你们的想法，你们的措施，以及你们的解决方案。

对于“THEY”的部分，主要采用“他们提供了……”“他们需要……”“他们告诉我们……”，主要阐述他们对我们的帮助和他们需要我们什么方面的帮助。

注意，THEY的部分建议以小条形式列出，建议不要采用故事形式，因为THEY的具体心理活动我们是不知道的，而对于WE，我们了解自身的想法，我们的想法也在支配着我们的行为，所以WE的板块建议以故事的形式展现，能够更好的分析结果。

下面来看一下我们的分析吧！点击下方的“WE”或者“THEY”，你可以看到两个不同的页面分析。

寻找载体

我们团队研究今年的项目时，参观了青岛大学生命科学学院院长李荣贵教授的实验室，他向我们介绍了他在2006年进行的一项研究工作——累积番茄红素的大肠杆菌工程菌及其培养条件的研究。他的这项研究，分析了玉米黄素二核糖苷合成途径的基因和代谢回路，通过同时克隆回路中合成番茄红素相关基因，高效表达番茄红素。他向我们展示了完整的回路，并告诉我们在这个回路中，通过基因的组合和排序能够表达出不同的色素，从而使菌产生不同的颜色变化。

这不禁让我们想到了可以利用这些基因作为报告基因，利用这个代谢回路做一个检测系统，这个系统的优点在于

1. 颜色无需激发，是可视的；
2. 能够同时检测多种因子的存在。

经过查阅相关文献和资料，我们确定了项目的核心思想——制作一个可视化的多因子检测系统。而这个系统的初步构想很大程度上来自于李教授实验项目的介绍启发。

为了更多的了解我们项目的可行性，我们向教授了解了该代谢回路作为报告基因的可能性，在他的实验过程中，发现该基因回路存在着表达效率较低、色谱范围较窄且颜色区别较小、渗漏表达(leakage expression)等缺点。由于色素的这些缺点，我们试图探索其他的可视化指示因子，李教授向我们提供了色素蛋白的想法，我们上网查阅相关资料，发现色素蛋白相比于色素，表达效率较高，色谱范围很宽，有着色素不可比拟的优点，最终，我们决定采用色素蛋白作为我们的颜色报告因子。

原理难题的攻克

由于是通过显色对多因子系统进行检测，这便涉及到色彩的混合和叠加，同时，我们还期望叠加荧光蛋白和色素蛋白来丰富我们的系统，但是，荧光蛋白和色素的发光原理不尽相同，想利用颜色混合，我们就要探讨关于发光机理和色彩混合机理，于是我们寻找到了上海交通大学物理与天文系教授刘士勇，请他给我们的项目进行一个最终颜色的混合猜想，询问了光的三原色机理和颜料的三原色机理，对于色彩混合和色彩发光原理都有了更为深入的了解，这对于我们education hp板块的游戏设计起到了很大的帮助。

载体化系统

至于我们项目所应用的检测系统，我们初步决定对水中的重金属离子进行检测，于是我们采访宁波市内河处相关管理人员。

他们表示，目前采用的重金属检测方法是国家标准，若国家标准没有，则采用行业标准CJ／T51-2004。这些方法多依赖于实验室，如原子吸收光谱分析，化学试剂显色等。同时管理人员表示，对水质的监测，通常需要去往相关厂实地取样，再将样品带回实验室进行检测。由此我们想到，我们可以利用我们工程菌廉价、可视、便携的特点，做一个便携的重金属检测仪。而要实现可携带性和安全性，我们则需要一个载体来携带我们的工程菌。

Bacteria choosing and wet laboratory experiments

The bacteria we choose, should provide our users with a variety of color systems, as well as meeting the need for multi-factor detection. After discussing much about various kinds of bacteria with the previous SJTU iGEM team members, we finally chose the commonly used E. coli. Because it is known for its compatibility and thoroughness of research, so it is a good engineering bacteria. At the same time, when doing laboratory experiments, we also consulted previous SJTU iGEM team members the problems we encountered.

Finding loaders

We decided to use a microfluidic chip to carry the initial report system. We got in touch with SJTU Micro Nano Research Institute Professor Xiang Chen. Their laboratory has been doing research related to microfluidic chips. He suggested us that we can combine our report system with chip. We can further combine the chip with mobile devices to extend its function. So we start to try chips.

Meanwhile, Professor Chen’s team was recently doing research on the condition controlling in microfluidic chips. They needed cells that can be induced to exhibit colors. So we provided them cells that can be induced by ITPG (isopropyl thiogalactoside) to emit green fluorescence. We helped them progress their research.

However, after the experiment, we found that the chip is not suitable because the color is difficult to distinguish. We began to consider other possible carriers.

At this point, Professor Chen suggested that we could try test papers or microdroplet. We have analyzed the feasibility of the two possible loaders and carried out relevant experiment. We gave up the idea of microdroplet after communicating with a senior in the lab who reminded us some details we had missed. Ultimately, we used the idea of filter paper which presents good results. (For more details in Loader)

The design of detection system

Our detection system mainly consists of two parts: the box and the smartphone App. The Micro-Nano Science and Technology Institute provided us with great help in these two aspects. Firstly, in the aspect of app software development, the micro-nano laboratory provided us with the Java language OpenCv jar package, which offer us some reference to pick color and help us improve our palette game 2048. Secondly, in the aspect of box making, our model is made in Micro-Nano Science and Technology Institute. After the box was finished, they checked our box and offered us some suggestions such as changing some of the parameters, making the box more responsive to the demand and so on.

Business Plan

We have studied how our equipment can fit into society under the current market environment by writing a business plan. If we want to bring our equipment to the market, we need to evaluate the product in detail.

In order to promote our product, and modify it to better meet the social needs, we wrote a business plan. In which we discussed in detail the product development background, market analysis and risk analysis. While doing market research, the conclusions also guided us to improve our products to make it more competitive in the market. We also thought about the meaning of our products to the community, and did some change to our product design.

Biosecurity

In order to ensure our biosafety, we communicated with Professor Shi Jianxin, and briefly introduced the project to him.

We first discussed the way to deal with used bacteria. Because our product is a portable device, so it can not be put under high pressure or high temperature, so we first would like to have bacteria burnt for safety our bacteria. We considered it reasonable because people can reach fire or other forms of combustion. But after the talking with Professor Shi, we realized that this method will have some problems. For instance, it will cause pollution of gas emissions. What’s more the test paper is difficult to ignite, etc. We then asked what was the most common method to sterilize, he mentioned fungicides. Our team members came up with the idea of using disinfectant (its main ingredient is sodium hypochlorite) people can reach in their daily life. It is later confirmed by Prof. Shi that having an overnight treatment with higher concentration of NaClO can successfully inactivate bacteria. Thus safety can be ensured.

Of course, biosecurity also involves many aspects, Professor Shi also made a variety of recommendations for us, the details can be seen biosafety interface.

Click here to see our silver HP.