Overview

As a newborn, prospective science, synthetic biology has been getting attention from all walks of life as a powerful tool to cope with global challenges, and is expected to make more contributions to the society, while iGEM has built up an effective platform for youngsters to practice and communicate, promoting the potential exploration.

However, what raises public concern along with the prospect is the risks brought by the process and products of the biological engineering. The uncontrollable evolution and unintentionally leakage of synthetic organisms may cause unknown diseases and gene contamination in natural world, leading to health risks and economic losses. As a result, rigorous inspections and standards of safety, as well as proper operation are necessary to prevent the potential hazards of synthetic biology.

As researchers, we made the safety of the people involved in the research or exposed to our products a top priority. With strict adherence to iGEM and international requirements, we have committed sufficient resources and time to the matter of risk management, which can be described in four aspects: laboratory safety, project design safety, risk identification, and related policies.

Laboratory Safety

Basic Facilities and Equipment

All the experiments of our team were conducted in the iGEM laboratory at the School of Chemical Engineering and Technology, Tianjin University, under the requirements of the “Regulations of the People's Republic of China on the Administration of Biosafety in Pathogenic Microorganism Laboratories” [supplement link 1] and the “Safety Code for Laboratories in Higher Educational Institutions” [supplement link 2]. Our laboratory is classified as a BSL-II one, and is well-organized with clearly partitioned layout, which further ensures the safety and practicality.

The main safety facilities in our laboratories has been listed as below:
● Bio-safety cabinet
● Ultra-clean bench
● Chemical fume hood
● Emergency equipment (including firefighting equipment and first aid equipment)
● Emergency lighting

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Figure 1. Laboratory Equipment
Basic Waste Disposal

Waste disposal is a crucial part of the laboratory safety precautions. Our disposal measures include but are not limited to:
● All experimental waste is to be collected and sorted in a timely manner.
● Waste exposed to microorganisms is to be strictly sterilized indoor before collection.
● A duty roster has been set up to assign specific persons the daily waste disposal.
● Before final disposal, reinspection is to be made in order to verify that the waste is non-toxic and correctly sorted.

Basic Laboratory Safety Rules

Participants in our laboratory strictly adheres to the “Laboratory Biosafety Manual, Fourth Edition” [supplement link 3], “Compilation of Safety Management System of Tianjin University School of Chemical Engineering” [supplement link 4], and “Tianjin Guidelines for Scientist's Biosafety Code of Conduct” [supplement link 5], which stipulate the requirements for the proper operation of experimental instruments, the proper use of chemicals, the protection clothing and the disposal of experimental waste, etc., to ensure the personal safety of our team members.

Additionally, to further standardize the operation before, during and after the experiments, we have established a clear and strict Laboratory Safety Code, which includes but is not limited to:

Experimental operations:
● Experimental operations in the laboratory must be carried out in accordance with the established norms, and illegal operation is strictly prohibited.
● All instruments and equipment should be maintained regularly and restored to the original conditions and positions after use. All reagents should be labeled with names, checked regularly, and replaced if necessary. The usage and storage of all reagents must be in accordance with relevant regulations.
● The laboratory should be maintained in a sanitary condition, with waste disposed in time.

Dress code:
● A lab coat is required upon entering the laboratory to minimize bare skin exposure.
● When conducting experiments that may pose a hazard, additional personal protective equipment (e.g., safety goggles, face masks, and protective gloves) must be worn as appropriate.
● All personal protective equipment should be removed before leaving the laboratory.

Emergency measures:
● Before starting work, the location of fire-fighting equipment, electrical switches, emergency evacuation routes and other emergency facilities must be made clear. Participants must be familiar with all types of emergency measures and corresponding operating procedures.

Behavioral restraints:
● Smoking, eating or sleeping in the laboratory are strictly prohibited.

Basic Laboratory Personnel Training

Before the formal startup of our project, all team members had passed the “Laboratory Safety Training” and “Laboratory Safety Entrance Study and Examination” tests conducted by the School of Chemical Engineering and Technology of Tianjin University, which include knowledge of laboratory procedures, emergency management and chemical handling.

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Figure 2. Cell Safety Examination

Given that some of the team members were lack of practical experience in biological experiments, when our project initially started, the majority of experiments are conducted by those experienced members, most of whom had taken part in either the former iGEM competition or other research projects in our university, and thus had been trained to meet the requirements of performing experiments independently. Novices were asked to familiarize themselves with the standardized procedures in experimental protocols, and record details that may have an impact on safety, the final results or the lifespan of the instruments.

During the first few times one performing experiments, experienced members would observe on the sideline in order to point out wrong operation and prevent potential safety accidents. As the project was gradually carried out, nearly all participants of wet experiments have acquired a high degree of safety awareness as well as profound understanding of the principles behind the gene editing tools used. All team members were encouraged to attend safety training and seminars regularly to further enrich their safety knowledge.

Project Design Safety

Basic Microbial Safety

In this experiment, we used three strains of Escherichia coli DH5α, Saccharomyces cerevisiae EBY100 and NCTC clone 929.

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Figure 3. Laboratory Commitment Form

All of them are non-pathogenic microorganisms commonly used in research, do no harm to the environment per se and thus are on the White List, However, since Saccharomyces cerevisiae can form spores which can withstand harsh environments, the strain EBY100 needs extra controls. Rigorous security measures have been put in place to prevent the leakage of the experimental strains and a host of other possible safety issues during the course of daily experiments. In addition, EBY100 is a standardized amino acid auxotrophic engineered strain, which remarkably reduces the survival rate of leaked microorganisms outside the laboratory. And the corresponding Check-in Forms have also been submitted.

We have access to information about these strains on ATCC. According to the latest edition of Biosafety in Microbiological and Biomedical Laboratories (BMBL) [supplement link 6] by the U.S. Department of Health and Human Services, the biosafety level of the strains we used in the project was determined to be BSL-1 on the basis of the risk assessment, which means the strains “do not consistently cause disease in healthy adults” and have a high level of safety.

Basic Parts Safety

Before the construction of genetic circuits, we had carried out a thorough assessment of the safety of the genetic components to be used. We gave top priority to risk prevention and took appropriate measures to minimize potential hazards and maximize protection for operators and the environment.

To determine the allergenic potential of the added protein in humans, we conducted preliminary in vitro allergen screening on the wild-type protein of the submitted parts. However, further experimental validation is required to confirm its allergenic status.

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Figure 4. Based on AlgPred allergen analysis results
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Table 1 Based on AlertTop BLAST Results
Basic Experimental Design

Every design of our team's genetic circuits and experimental protocols is based on extensive and detailed reading of authoritative literature and analysis of relevant policies, or from research on similar aspects of previous outstanding teams. Moreover, every piece of literature and other information has been read by more than one personnel to verify the accuracy and validity of the information we obtained, and to further ensure the safety of the experiments we conducted. Each step of our experimental protocols is confirmed after risk assessment and careful consideration.

The parts included in our protocols have been listed as below:
● Recovery of target DNA fragments.
● PCR of DNA fragments.
● PCR of E. coli colonies.
● PCR of S. cere colonies.
● E. coli plasmid extraction.
● S. cere plasmid extraction.
● DNA gel extraction.
● Seamless cloning.
● E. coli transformation.
● S. cere transformation.
● Flat colony counting.
● Thermal hysteresis measurement by DSC.
● Ice recrystallisation inhibition measurement.

Every experimental operation is performed in strict accordance with the procedures defined in our protocols. All members of our team are committed to minimizing safety risks to the public and the environment caused by errors in experimental protocol design or improper operation.

Risk Identification

Basic Risk Identification

Even though we have conducted systematic training in laboratory operation and established a comprehensive laboratory safety protocol, the likelihood of emergency circumstances cannot be completely eradicated. Thus, we need to make reasonable assessments of potential risks, which enables prompt identification and calm response.

1. Identification and response to laboratory potential risk

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Figure 5. Safety Facilities

Each type of accidents that may occur during the experiment (e.g. burns, scratches, fires, etc.) has a corresponding emergency plan, all team members being well versed in the measures of the plans.


2. Risks of the project to the outside world
Several gene components are involved in the construction of engineered S. cere, including lactose operon, surface display system, etc. If these modified strains escape into the external environment and spread freely, they may cause genetic contamination, leading to unpredictable consequences. However, EBY100 is a standardized amino acid auxotrophic engineered strain, which significantly reduces the risk of engineered strain leakage from the laboratory.

It is noteworthy that despite the non-pathogenic property of E. coli DH5α, this strain may introduce its antibiotic resistance genes to bacteria outside the laboratory, resulting in the spread of antibiotic resistance. In response, waste exposed to these two strains was sterilized with a stricter standard.

3. Predicting the risk of future applications of the project
According to the planning, the antifreeze proteins and trehalose produced by our designed microorganisms will eventually be applied in the cosmetics industry, principally in the improvement of hand creams. However, the addition of new biological ingredients may pose a hazard to users, including allergic reactions and cytotoxic reactions, which makes it necessary to perform rigorous in vitro biocompatibility testing. The results of the cytotoxicity tests with L929 cells indicate the low toxic action on mouse fibroblast-like cells.

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Figure 6. L929 cytotoxicity assay diagram. (a) At the start of the experiment, 2,500 cells were seeded into each well. Diagram showing the results of the freeze-proteins' cytotoxicity test on L929 cells. (b) At the start of the experiment, 5,000 cells were seeded into each well. Diagram showing the results of the freeze-proteins' cytotoxicity test on L929 cells.
Basic Human Practices Safety

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Figure 7. HP Activity
The wet and dry experiments were paralleled by a series of human practice activities, in which we investigated the opinions from all walks of life, and achieved cooperation with SNEFE, a Chinese skincare brand. We found these activities bring additional safety risks on a social aspect, which should be attached importance to as well. We gave serious consideration to the privacy of respondents and cooperators. During the investigation, all respondents have been informed of the purpose of the activity, and we have committed all the information we collected was in strictest confidence. Shared documents were also utilized to enhance the confidentiality in which the personal information was only visible to participants themselves. Before the visit to the enterprise in cooperation, we had arrived in an agreement that the access to core technologies was denied according to the intellectual property protection regulations.

Policies on Genetic Engineering and Biosafety

During the project, our team strictly adhered to the “Measures for the Safe Management of Genetic Engineering” [supplement link 7], the “Biosafety Law of the People's Republic of China” [supplement link 8], and other relevant regulations.

For example, matters of safety management are covered in the Article 35 of the Biosafety Law of the People's Republic of China: “Units engaged in biotechnology research, development and application activities shall be responsible for the safety of biotechnology research, development and application of this unit, adopt biosafety risk prevention and control measures, formulate a working system of biosafety training, tracking and inspection, and regular reporting, and strengthen the process management.”

The requirements of waste disposal and safety supervision are made in the Article 20 of the Measures for the Safe Management of Genetic Engineering: “Units engaged in genetic engineering work shall, according to the safety level, formulate appropriate safety measures for the management of waste. Measures shall be taken to inactivate the residual genetic engineering bodies before discharge, so as to prevent proliferation and pollution of the environment.” and Article 24: “Units and individuals engaged in genetic engineering work must carefully make safety supervision records. Safety supervision records shall be kept for a period of not less than ten years for verification.”, respectively.

References