S.P.L.A.S.H.
Suckerin Polymer Layer to Achieve Sustainable Health
Scroll over people's names to find out more about them!
Egbert Krug is a trauma surgeon at the Leiden University Medical Center (LUMC).
Titus Radstake is the chair of the Dutch Burn Survivor Association (Vereniging van Mensen met Brandwonden, VMB). Being a burn wound victim himself, he could highlight problems from a professional and personal perspective.
Frank Beneker is the head of the skin and bone divisions of ETB-BISLIFE in Beverwijk, the Netherlands.
The Dutch Skin Bank processes and stores human allogeneic donor skin for the treatment of patients with chronic wounds and burns.
The Miserez research group, from Nanyang Technological University (NTU) in Singapore, is led by Dr. A. Miserez. They focus on revealing the molecular, physico-chemical, and structural principles from unique biological materials and on translating these designs into novel biomimetic synthesis strategies.
Prof. dr. M. H. Vermeer is Head of the Dermatology Department at the Leiden University Medical Center (LUMC).
Prof. dr. E. Middelkoop is specialized in Skin Regeneration & Wound Healing at Amsterdam UMC and is the Director of the Association of Dutch Burn Centers.
Hans Peter Mulder is co-founder of the biomedical company Idris Oncology B.V., where they develop medical devices that improve cancer diagnostics.
Prof. dr. M. Sieber is Professor of Biology and Clinical Research at the Hochschule Bonn-Rhein-Sieg.
Dr. R. van Doorn is a dermatologist at the Leiden University Medical Center (LUMC).
Dr. C. P. Tensen is Head of the research laboratory department of Dermatology at the Leiden University Medical Center (LUMC).
iGEM teams from Eindhoven (2018) and Darmstadt (2017)
Dr. P. H. Nibbering is Associate Professor in and researcher of new antimicrobial agents/strategies at the Leiden University Medical Center (LUMC).
Dr. G. P. H. van Heusden is Assistant Professor of gene expression and protein translocation in yeast at Leiden University.
Dr. B. S. de Pater is Assistant Professor of Genome Engineering at Leiden University.
Dr. E. Vijgenboom is an Assistant Professor focused on using Streptomyces lividans as a cell factory for enzyme production at Leiden University.
Linda Dijkshoorn is CEO and founder of EV Biotech.
Prof. dr. P. J. Punt is Professor in Industrial Biotechnology and Chief Scientific Officer at Dutch DNA.
Dr. ir. E. J. van der Zaal is Assistant Professor of Molecular Genetics at Leiden University.
Dr. H. C. van Leeuwen is a senior scientist at the Netherlands organization for applied scientific research (TNO) in Rijswijk, the Netherlands.
Prof. dr. J. T. Pronk is a Professor of Industrial Microbiology at the Technical University of Delft.
EV Biotech is a company with the goal to stir the chemical industry to microbial production using a combination of cutting-edge techniques in Microbiology, Genetic Engineering and Systems Biology.
National Insitute for Public Health and the Environment (RIVM) advises the Dutch government on public health and a healthy living environment.
Korienke Smit is a policy advisor at the RIVM (National Institute of Public Health and the Environment) and coordinator of the Safe-by-Design assignment.
Dr. E. G. M. Kleijn is Associate Professor at the Institute of Environmental Sciences (CML) at Leiden University and focuses on industrial ecology and circular economy.
Nienke de Graeff is a PhD candidate in the Ethics of Biomedical Innovation at the Department of Medical Humanities of the University Medical Center Utrecht (UMC Utrecht).
Eugen Kaprov is a business advisor who provides an early stage venture capital for founders using technology to solve big problems.
Vincent van der Wel is the director of Patient One and Business Development Manager, and project leader at Fair Medicine.
Prof. dr. A. Cohen is a Professor of clinical pharmacology and until 2018 CEO of the Centre for Human Drug Research (CHDR).
Wouter ten Voorde is a research assistant at the Centre for Human Drug Research (CHDR).
Rafaëlla Paulo Teixeira is the founder of Fish4Me, a company that develops an information platform to provides consumers with information about the origin and sustainability of fish.
Integrated Human Practices
Science and society go hand in hand, and they influence each other in many different ways. For our project, we wanted to improve current burn wound treatments by using the promising biomaterial suckerin. Therefore, it was important to investigate the impact that our project would have on its direct environment and the world. To do this, we included the feedback of a variety of stakeholders, like patients, medical professionals, companies, researchers and many others. Our conversations with them shaped the design of our project, for example by implementing a linker system that can couple antimicrobial peptides, which is lacking in most current treatments. Throughout this page, there are several links to other pages where you can find more information.
On this page you can read about the process of our project and the integration of society into the science:
Phase I:
Exploring the problem
Phase III:
Development of the product
Phase II:
Suckerin as a solution
Phase IV:
Impact
Abstract: setting up our initial project design
Exploring the immense challenges of burn wounds
In order to contribute to society, several local and worldly problems with high priority were contemplated in the first stage of our project. Since Leiden is close to one of the national burn wound centers in the Netherlands (Dutch Burn Centre Beverwijk), this subject eventually attracted our attention and we decided to explore the problem of burn wounds in more depth. According to the World Health Organization (WHO), more than 300,000 people die of burn injuries, together with the hospitalization of 11 million a year [1]. Several studies over the last decade have shown that approximately 42%-65% of fatalities are caused by bacterial infections [2-5].
- Treating burn wounds is a difficult process that annually causes death and disability around the world. We wanted to investigate the various challenges in this problem to see at which stage we could help improve conditions for the patients.
The underlying complications: life-long effects on the well-being of patients
To understand the challenges of burn wounds further, we spoke to Egbert Krug, and realized that there are actually two main stages of burn wound treatment. Firstly, the initial remediation and care of open wounds bring difficulties due to excessive fluid loss and increased risk of infections. Secondly, the aftercare consists of long-term and recurring treatments, for example, surgical interventions to salvage and replace the damaged skin. We contacted the Dutch Burn Survivor Association for more information on burn wound aftercare, and talked to the chair of the organization: Titus Radstake, who is a burn wounds victim himself. He explained that patients are faced with a long process of restoring and repairing skin and recurring surgeries become a standard of living. In addition, the association brought us in contact with another burn wound victim who suffered from third-degree burn wounds, covering 55% of her body. She explained to us that she had had multiple skin transplantations, resulting in thick scars. Most importantly, she still needs weekly micro-needling therapy to treat the stiff scar tissue, ever since her accident, two years ago.
- Burn wound treatment is extremely complicated, thereby decreasing the quality of a patient’s life. The aftercare could be greatly improved by inventing a strategy to restore the skin barrier during the initial burn wound recovery.
Current primary treatments of burn wounds: donor skin
Once we had insight into the severity of the problem, we started investigating the current solutions and treatment options. Titus Radstake also mentioned that initial treatment involves two parts:
- covering the wounds with allogeneic donor skin
- removing skin autografts from unaffected body parts, to replace the damaged or missing skin
To investigate these parts, we approached Frank Beneker from the Dutch Skin Bank. From him, we learned that current treatment is dependent on the highly fluctuating supply of post mortem donor skin. In addition, the available donor skin has to meet various quality criteria before it can be deemed ‘safe’ for treatment purposes. This includes a medical examination, as well as blood- and bacterial tests. The processing results in a low yield of usable donor skin, creating a gap between demand and supply of donor skin.
- The main treatment of burn wounds, allogeneic donor skin, has limited and unpredictable availability. Therefore, there is a demand for alternative methods that could substitute donor skin as a therapy.
Current primary treatments of burn wounds: hydrogels
In addition to donor skin, trauma surgeon Egbert Krug informed us that burn centers are constantly looking for novel dressings. In particular, he mentioned hydrogels as a promising substitute. We learned about the two prominent hydrogels: Aquacel, which allows vertical transportation of fluid, and alginates, which are used to cover wounds. These are already on their way to replace donor skin as a treatment option. Although hydrogels can mimic biological tissues, they often lack the ability to self-heal. This limits their use in biomedical applications and researchers have been attempting to improve these mechanical properties [6].
- Hydrogels are already used in treatment to keep wounds moist and cover skin wounds. However, they lack mechanical properties that can be improved on, to make a hydrogel that actively stimulates wound healing.
Abstract: project specifications and design
Suckerin as a replacement for skin
- Previous iGEM teams have investigated hydrogels composed of spider silk. This biomaterial is promising due to its mechanical properties, but can cause problems during molecular engineering. We found a similar protein called suckerin, that has similar properties and is more advantageous for production in recombinant microorganisms.
The advantages of suckerin
- Suckerin consists of two alternating modules, which translate into various degrees of rigidity and flexibility. The advances of synthetic biology provide the possibility to switch around and experiment with these modules. We can further improve our product and make it more versatile by testing the production of different suckerins.
The main problem with suckerin: immune response
Esther Middelkoop, Hans Peter Mulder and Martin Sieber addressed the problem of a possible immune response against a non-human protein, so we started searching for a solution. After our conversations with these experts, we concluded that the immune response to suckerin would limit its use for deeper wounds. Together, they recommended us to conduct several in vitro and in vivo biological tests, to investigate the response of human cells to suckerin. One of the suggested in vitro experiments was the addition of a suckerin layer onto human skin cells. Interestingly, a previous study performed this assay regarding suckerin-19 and showed negligible cytotoxicity [14]. After further communication with the Miserez research group, we discovered that they had conducted biocompatibility assays showing that suckerin did not induce an immune response. Since biocompatibility assays are unavoidable during clinical trials, these data are promising for suckerin-based medical devices. Therefore, we incorporated this into the future prospects of our results.
- Several experts addressed to risk of an immune response against suckerin and advised us to incorporate several biocompatibility assays in our project design.
- Biocompatibility experiments performed by the Miserez group indicated the absence of an immune response against suckerin-19, which is promising for suckerin-based medical devices.
Addressing the challenges of scarring tissue
- One disadvantage of current treatments is the development of scar tissue as an effect of skin replacement and damage.
- In order to combat the above-mentioned disadvantage, we want to incorporate compounds that stimulate the growth of healthy skin tissue instead of scarring tissue. This would increase the quality of life by decreasing the amount of aftercare.
Linker system with antimicrobial peptides
- Infection of open burn wounds is a challenge during treatment.
- To improve the patient’s welfare, we focus on making a hydrogel that can be easily removed together with a linker system to which antimicrobial peptides can be coupled. Since current treatments are not effective in preventing infections, our product will be an improvement compared to these treatments.
- Considering resistance to these AMPs, we added a controlled release mechanism.
Abstract: designing and optimizing methods of production
For the design of the experimental part of our project, we closely cooperated with experts in a variety of relevant fields, including biologists and bioinformatics. Incorporating their advice and feedback, we established efficient production and purification conditions and methods, as well as an optimized upscaling approach based on a statistical model.
Producing suckerin in microbes
- Using the natural suckerin protein negatively impacts animal welfare, marine biodiversity, and its medical applications. To minimize this impact, we decided to produce the protein in microorganisms.
Selecting a production organism
- From a variety of recommendations, we chose E. coli, S. lividans and S. cerevisiae as our respective gram-negative, gram-positive and eukaryotic production organisms.
Suckerin production and purification
After finding a suitable production organism, we investigated purification methods. Both Bert van der Zaal and Hans van Leeuwen warned us about inclusion bodies, which are aggregations of produced protein within the cell. This separation complicates subsequent purification and protein extraction. In addition, proteins inside inclusion bodies can not interact with the machinery to fold them properly, resulting in non-functional proteins. However, we found that this would not be a problem for suckerin, as the protein self-assembles and would therefore remain functional [9]. We used an inclusion body purification protocol, adapted from Ding et al. [11]. Furthermore, Dr. van der Zaal and Dr. van Leeuwen recommended several steps to improve purification:
- Dr. van der Zaal proposed to include a His-tag as this allows for more targeted purification. We decided to include a His-tag in the suckerin sequences used for upscaled production (suckerin-19 and suckerin-12).
- Dr. Van Leeuwen suggested trying to build suckerin out of multiple small peptides. We implemented this by creating general sequences of the two modules based on the protein sequences of suckerin-12 and suckerin-19.
Furthermore, we learned from Sylvia de Pater that it would be best to include an inducible promoter in our plasmid design. This provides control over the production and ensures that the bacteria can grow to exponential phase without the burden of protein (over)production, which would be especially important for the upscaling of suckerin production.
- After feedback from different experts, we developed our project design to have:
- E. coli strain Rosetta as a suitable organism for production of eukaryotic-derived proteins
- Addition of a His-tag to the protein sequence to enhance purification
- An inducible promoter to maximize and control suckerin production
Figure 1: A visual summary of our design for suckerin production. Using the feedback and recommendations of our stakeholders, we will produce suckerin in E. coli Rosetta, with a plasmid containing the inducible PLac promoter and His6-tag.
Evaluating a method of upscaling
- Suckerin production will be initiated in shake flasks, after which bioreactors are used to upscale protein. Growth conditions in the bioreactors were optimized using our model.
Team members during their visit at the headquarters of EV Biotech, to talk about the possibilities of modelling our suckerin production.
Abstract: analysis of the impact of our project
To comprehend the impact of our suckerin-based hydrogel on society, we talked with a range of stakeholders. Each gave us feedback and new ideas to integrate into our project design. Since our final hydrogel will be considered as a medical product, safety was a crucial aspect of the project. Furthermore, we investigated the sustainability, as it may give an advantage of biodegradability of the suckerin proteins. Lastly, we summarized the stakeholders that were involved in previous phases.
Safety of suckerin
- By participating in the Safe-By-Design assignment of the RIVM, we anticipated the safety risks of our project design. Furthermore, in our initial tests we will involve FDA approved compounds to test the linker system.
Sustainability and considerations
- The sustainability of suckerin has potential and should be further explored, as it could provide additional advantages to our suckerin-based hydrogel.
Involved and affected stakeholders
Stakeholders |
Summary |
Patients |
We decided to start with the most affected group which would directly experience our implemented product, namely people with burn wounds. Our aim was to understand their struggles with the current methods of wound dressings, as well as their wishes and preferences with regard to new methods. To achieve this we came in contact with a burn wound victim who suffered from third-degree burn wounds, covering 55% of her body. Her story highlighted the continuous discomfort due to pain, itching and restricted movement from scar tissue. Moreover, she mentioned her weekly therapy sessions to treat her scars, indicating the intensive aftercare of burn wounds. We talked to Titus Radstake, who told us that wounds are currently covered with allogeneic donor skin to close off wounds, thus avoiding infections and excessive fluid loss as much as possible. We thrive to improve this by including a linker system to which beneficial compounds, such as growth factors, can be coupled. This set-up would stimulate wound healing and decrease scarring. |
Providers of current treatment methods |
Before we could implement our own project into the real world, we had to investigate the current treatments, struggles, and opportunities for new research. To further investigate this, as well as integrate the point Mr. Radstake had made about the current use of allogeneic donor skin, we talked to the head of the Dutch Skinbank, Frank Beneker. This conversation provided us with information on the current burn wound treatment with allogeneic donor skin and, more specifically, where opportunities for improvement lie. |
Medical professionals |
Trauma surgeon, Egbert Krug told us that one of the important features of wound dressings would be easy removal. This was also mentioned by Esther Middelkoop, who informed us that removing membranous dressings is often painful for the patient. However, hydrogels are known to be non-adhesive to skin cells, but instead stick to the skin due to the fluids in the wound. In this way, for use on large (burn) wounds the pain caused by removing the hydrogel will be minimized. Nonetheless, biodegradability is an interesting feature for other applications, therefore we included further research on this in our future prospects of our results. |
Other providers of biomedical products |
From Hans Peter Mulder (Idris Oncology) and Vincent van der Wel (Patient One) we learned the possibilities within biomedical companies, and they gave us advice on how to get the product to the market. We developed their feedback further in our entrepreneurship program. |
Developing the product for the market
Future Prospects
Alternative applications for suckerin
Even though our main aim was to create a suckerin-based hydrogel, the protein itself can be used for a wide variety of applications. During our conversations with experts in different fields we discovered several options.
We knew from feedback of René Kleijn that the suckerin protein is not suitable for bulk plastic production, but rather for more specialised applications. One possibility that we explored is the use of suckerin as a sustainable plastic in the fishing industry. We reached out to Rafaëlla Paulo Teixeira , who told us that suckerin, due to its strong and elastic properties has potential as a material for fishing nets. However, future experiments should first examine the degradation of suckerin in fresh- and saltwater, as well as its performance under high-pressure conditions.
Additionally, we got the advice from Peter Nibbering to look into the possibilities of application on other forms of open wounds. For example, chronic or diabetic wounds are similar in their treatment to burn wounds. A suckerin-based hydrogel could also be a solution in solving these open wounds. However, further research is required, focusing on the specific differences between the wounds and their treatment process. For example, the compounds linked to the hydrogel can be adjusted to target the specific components involved in these wounds. In addition, the use of different suckerin proteins could be optimized for different wounds.
Guidelines for future iGEM teams
Our project, like other projects within iGEM, underwent various changes as we were confronted with new challenges and knowledge. In this section, we want to explain our process, to give some concrete examples of what you can do with Human Practices. In this section, we hope to aid future iGEM teams in tackling the integration of feedback and stakeholder views into their projects.
For our human practices we used a combination of resources. First, we consulted literature to get familiar with our topic, exploring opportunities and which researchers or research groups are working on this. Secondly, the results from previous iGEM teams have been of great importance. By investigating their project aims and results, we could identify what worked (and equally important, what didn’t work). For example, we learned much about the ethical implications of making a bandage from bacteria from the Eindhoven 2018 team and about the challenges of spider silk production from the SDU Denmark 2016 team. Lastly, we interviewed a large number of experts with a wide variety of backgrounds. To get a coherent story, it was of major importance for us to go through the process step by step, making sure we could back-trace where decisions came from. Something we didn’t manage to complete (but wished we had) is to involve a larger area of stakeholders, such as people from other countries, ethnicities, religions or education. This would give us a more diverse insight into the perception of our hydrogel, and other perspectives of our project design. Click below to see our tips for future teams!
How to build your human practices network: Tips for future teams
- Make use of different sources to corroborate your choices. In our project we had the disadvantage that there are no suckerin experts in the Netherlands. Instead, we explored the literature to find an expert on this topic and contacted them. Besides this, we contacted local experts who work with natural biomaterials and therefore could hypothesize on the potential of suckerin.
- There has been a great deal of iGEM projects: use their knowledge! At the start of the project, you can look at wikis of teams working on similar ideas to familiarize yourself with the stakeholders involved. For example, we looked at the work from teams, like Eindhoven 2018, with a similar project on biomaterials or medical applications, and got inspired from their stakeholder analysis.
- Use the network of your stakeholders. For example, after talking to the Dutch Burn Survivor Association, we asked if they could reach out to anyone who would be willing to share their story with us. In the end, we got a reaction from several people, with whom we further collaborated.
- Try to broaden the horizon of your project by involving stakeholders outside of your own environment/city/country. Imagine the implementation of your project on a global and local scale and from there work your way through every stakeholder affected by it. You can even make a list, prioritizing the different stakeholders you want to involve.
- Be creative with how you involve human practices into your project. It’s a part of more aspects than you think! A good way to approach this is to organize a discussion with the whole team, and brainstorm together. This way, each part of the project is represented and each responsible person/group can think of how to integrate human practices into their part of the project. Analyzing your project halfway through gives you an overview of what is still missing. One useful resource for this is the iGEMmer’s Guide to the Future.
- Human practices can affect your project from beginning to the end. Contacting researchers before you start your lab work, can improve your planning and they can help to prioritize experiments. Besides this, since time is limited, researchers that utilize similar techniques in their work, can provide you with insights in more efficient methods or even offer you equipment.
- Combine public engagement with integrated human practices. Even though integrated human practices and public engagement are different categories, we found that the combination of both can yield a surprising synergy. By interacting with ‘the general public’ and asking for their opinion during events, you can get an insight into their perception of your project. In turn, this can help you to find new perspectives.
References
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