Difference between revisions of "Team:TU Dresden/Description"
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<figure style="width: 49%;" class="makeresponsive linkpicture"><img src="https://static.igem.org/mediawiki/2017/f/fe/T--TU_Dresden--sketch--biosensor.png"> | <figure style="width: 49%;" class="makeresponsive linkpicture"><img src="https://static.igem.org/mediawiki/2017/f/fe/T--TU_Dresden--sketch--biosensor.png"> | ||
<figcaption><h2>Biosensor</h2> | <figcaption><h2>Biosensor</h2> | ||
| − | <p>Worldwide, multidrug-resistant germs are on the rise and provoke the intensive search for novel effective compounds. To simplify the search for new antibiotics and to track the antibiotic pollution in water samples, we developed a functional β-lactam biosensor in Bacillus subtilis. By the time these specified cells sense a compound of the β-lactam family, they will respond by producing a measurable luminescence signal. Here, we analyzed the detection range and sensitivity of the biosensor in response to six different β-lactam antibiotics. The evaluated Biosensor was then encapsulated into Peptidosomes to prove the concept of our project EncaBcillus. The trapping of engineered bacteria thus will allow for increased control and simplified handling, potentially raising the chances for their application e.g. sewage treatment plants.</p></figcaption> | + | <p>Worldwide, multidrug-resistant germs are on the rise and provoke the intensive search for novel effective compounds. To simplify the search for new antibiotics and to track the antibiotic pollution in water samples, we developed a functional β-lactam biosensor in <i>Bacillus subtilis</i>. By the time these specified cells sense a compound of the β-lactam family, they will respond by producing a measurable luminescence signal. Here, we analyzed the detection range and sensitivity of the biosensor in response to six different β-lactam antibiotics. The evaluated Biosensor was then encapsulated into Peptidosomes to prove the concept of our project EncaBcillus. The trapping of engineered bacteria thus will allow for increased control and simplified handling, potentially raising the chances for their application e.g. sewage treatment plants.</p></figcaption> |
</figure></a> | </figure></a> | ||
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<figure style="width: 49%;" class="makeresponsive linkpicture"><img src="https://static.igem.org/mediawiki/2017/8/8b/T--TU_Dresden--sketch--communication.png"> | <figure style="width: 49%;" class="makeresponsive linkpicture"><img src="https://static.igem.org/mediawiki/2017/8/8b/T--TU_Dresden--sketch--communication.png"> | ||
<figcaption><h2>Communication</h2> | <figcaption><h2>Communication</h2> | ||
| − | <p>By using Peptidosomes we introduce a new powerful platform for co-culturing. This technique physically separates bacterial populations without limiting their ability to communicate with each other via signalling molecules. This part of EncaBcillus is focused on proving the concept of communication between encapsulated bacteria by making use of the native regulatory system for competence development in Bacillus subtilis which is based on quorum sensing.</p></figcaption> | + | <p>By using Peptidosomes we introduce a new powerful platform for co-culturing. This technique physically separates bacterial populations without limiting their ability to communicate with each other via signalling molecules. This part of EncaBcillus is focused on proving the concept of communication between encapsulated bacteria by making use of the native regulatory system for competence development in <i>Bacillus subtilis</i> which is based on quorum sensing.</p></figcaption> |
</figure></a> | </figure></a> | ||
<a href="https://2017.igem.org/Team:TU_Dresden/Measurement"> | <a href="https://2017.igem.org/Team:TU_Dresden/Measurement"> | ||
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<figure style="width: 49%;" class="makeresponsive linkpicture"><img src="https://static.igem.org/mediawiki/2017/4/40/T--TU_Dresden--sketch--vector.png"> | <figure style="width: 49%;" class="makeresponsive linkpicture"><img src="https://static.igem.org/mediawiki/2017/4/40/T--TU_Dresden--sketch--vector.png"> | ||
<figcaption><h2>Evaluation Vector</h2> | <figcaption><h2>Evaluation Vector</h2> | ||
| − | <p>Peptidosomes offer a perfect platform for enhanced protein overproduction by the means of efficient protein secretion and purification due to physical separation of bacteria and | + | <p>Peptidosomes offer a perfect platform for enhanced protein overproduction by the means of efficient protein secretion and purification due to physical separation of bacteria and the final product. In order to take full advantage of <i>B. subtilis</i>' native protein secretion potential, it is necessary to evaluate its secretion orchastrating signal peptides. Therefore, we developed the Evaluation Vector. This powerful genetic tool containing a multiple cloning site to easily build all combinatorial constructs of a protein with a set of signal peptides.</p></figcaption> |
</figure></a> | </figure></a> | ||
</figure> | </figure> | ||
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<p id="B-subtilis"><i>B. subtilis</i> is the best-studied gram-positive microorganism, and a model bacterium for studying bacterial differentiation (e.g. endospore formation) and phenotypic heterogeneity.<a target="_blank" href ="https://www.ncbi.nlm.nih.gov/pubmed/19054118">[1]</a><a target="_blank" href ="https://www.ncbi.nlm.nih.gov/pubmed/20030732">[2]</a> Its ability to become naturally competent makes <i>B. subtilis</i> an organism with easily tractable genetics.<a target="_blank" href ="https://www.ncbi.nlm.nih.gov/pubmed/21278288">[3]</a> The GRAS (generally recognized as safe) status and secretory capacity made <i>B. subtilis</i> a preferred host of choice for big scale production of secreted proteins, such as lipases, proteases and amylases, highlighting the industrial relevance of this bacterium. <a target="_blank" href ="https://www.ncbi.nlm.nih.gov/pubmed/1368322">[5]</a></p> | <p id="B-subtilis"><i>B. subtilis</i> is the best-studied gram-positive microorganism, and a model bacterium for studying bacterial differentiation (e.g. endospore formation) and phenotypic heterogeneity.<a target="_blank" href ="https://www.ncbi.nlm.nih.gov/pubmed/19054118">[1]</a><a target="_blank" href ="https://www.ncbi.nlm.nih.gov/pubmed/20030732">[2]</a> Its ability to become naturally competent makes <i>B. subtilis</i> an organism with easily tractable genetics.<a target="_blank" href ="https://www.ncbi.nlm.nih.gov/pubmed/21278288">[3]</a> The GRAS (generally recognized as safe) status and secretory capacity made <i>B. subtilis</i> a preferred host of choice for big scale production of secreted proteins, such as lipases, proteases and amylases, highlighting the industrial relevance of this bacterium. <a target="_blank" href ="https://www.ncbi.nlm.nih.gov/pubmed/1368322">[5]</a></p> | ||
<p> | <p> | ||
| − | In addition, the iGEM Team LMU-Munich 2012 has constructed the Bacillus BioBrickBox, which contains several well evaluated integrative vectors and other parts for the use in <i>B. subtilis</i>, thus providing a powerful toolbox to engineer <i>B. subtilis</i>.<a target="_blank" href ="https://www.ncbi.nlm.nih.gov/pubmed/24295448">[6]</a></p> | + | In addition, the iGEM Team LMU-Munich 2012 has constructed the <i>Bacillus</i> BioBrickBox, which contains several well evaluated integrative vectors and other parts for the use in <i>B. subtilis</i>, thus providing a powerful toolbox to engineer <i>B. subtilis</i>.<a target="_blank" href ="https://www.ncbi.nlm.nih.gov/pubmed/24295448">[6]</a></p> |
</div> | </div> | ||
Revision as of 17:01, 1 November 2017
EncaBcillus – It’s a trap!
Synthetic biology wants to go beyond the pure biological by integrating concepts from chemistry or physics into the living world. At this interphase, our project wants to introduce Peptidosomes as a new fundamental approach for generating and applying encapsulated bacteria. These spheres possess advantageous properties like stability in different media and a mesh-like structure that allows for the selective exchange of compounds via diffusion. Therefore, we are able to benefit from the entrapped cells’ abilities, while ensuring that they are not released into their surroundings. Using the powerful genetics of Bacillus subtilis and its secretory capabilities we demonstrate communication and cooperation between separately encapsulated bacterial populations as well as the environment. Peptidosomes can be further enhanced by incorporating magnetic or biological beads – which can be functionalized with proteins – into their peptide-based shell. With this unique setup, we provide a whole new universe of applications to the iGEM community.
Peptidosomes
Peptidosomes are the new fundamental approach for generating and applying encapsulated bacteria. By the creation of spherical compartments containing a liquid environment inside, bacteria are still able to grow and fulfill a given task. The mesh-like structure of the sphere allows the selective exchange of compounds via diffusion, but holds the bacteria trapped inside. Therefore, we are able to benefit from the entrapped cells’ abilities, while still ensuring that they are not released into their surroundings. Peptidosomes can be further enhanced by incorporating magnetic or biological beads – which themselves can be functionalized with proteins – into their peptide-based fibrillary shell.
Biosensor
Worldwide, multidrug-resistant germs are on the rise and provoke the intensive search for novel effective compounds. To simplify the search for new antibiotics and to track the antibiotic pollution in water samples, we developed a functional β-lactam biosensor in Bacillus subtilis. By the time these specified cells sense a compound of the β-lactam family, they will respond by producing a measurable luminescence signal. Here, we analyzed the detection range and sensitivity of the biosensor in response to six different β-lactam antibiotics. The evaluated Biosensor was then encapsulated into Peptidosomes to prove the concept of our project EncaBcillus. The trapping of engineered bacteria thus will allow for increased control and simplified handling, potentially raising the chances for their application e.g. sewage treatment plants.
Secretion
In combing Bacillus subtilis powerful secretion capacity with Peptidosomes as a new platform for functional co-cultivation we aim to produce multi protein complexes. Various strains - each secreting distinct proteins of interest - can be cultivated in one reaction hub while being physically separated. In this part of EncaBcillus we study extracelluar protein interaction mediated by the SpyTag/SpyCatcher system. This set-up bears the potential for an effective production of customizable biomaterials or enzyme complexes.
Communication
By using Peptidosomes we introduce a new powerful platform for co-culturing. This technique physically separates bacterial populations without limiting their ability to communicate with each other via signalling molecules. This part of EncaBcillus is focused on proving the concept of communication between encapsulated bacteria by making use of the native regulatory system for competence development in Bacillus subtilis which is based on quorum sensing.
Signal Peptide Toolbox
Protein secretion is mainly orchestrated by Signal Peptides (SP). However, secretion efficiency is not determined by the SP but the combination of a SP with a specific protein. This necessitates establishing screening procedures to evaluate all possible combinations. We developed such an approach, the Signal Peptide Toolbox, and succeeded in identifying the most potent SP-protein combinations for three different proteins. The Signal Peptide Toolbox enables an organism-independent, straightforward approach to enhance protein secretion levels.
Evaluation Vector
Peptidosomes offer a perfect platform for enhanced protein overproduction by the means of efficient protein secretion and purification due to physical separation of bacteria and the final product. In order to take full advantage of B. subtilis' native protein secretion potential, it is necessary to evaluate its secretion orchastrating signal peptides. Therefore, we developed the Evaluation Vector. This powerful genetic tool containing a multiple cloning site to easily build all combinatorial constructs of a protein with a set of signal peptides.
Bacillus subtilis
B. subtilis is the best-studied gram-positive microorganism, and a model bacterium for studying bacterial differentiation (e.g. endospore formation) and phenotypic heterogeneity.[1][2] Its ability to become naturally competent makes B. subtilis an organism with easily tractable genetics.[3] The GRAS (generally recognized as safe) status and secretory capacity made B. subtilis a preferred host of choice for big scale production of secreted proteins, such as lipases, proteases and amylases, highlighting the industrial relevance of this bacterium. [5]
In addition, the iGEM Team LMU-Munich 2012 has constructed the Bacillus BioBrickBox, which contains several well evaluated integrative vectors and other parts for the use in B. subtilis, thus providing a powerful toolbox to engineer B. subtilis.[6]
References
| [1] | Lopez, D., Vlamakis, H. & Kolter, R. (2009) Generation of multiple cell types in Bacillus subtilis: from soil bacterium to super-secreting cell factory. FEMS Microbiol. Rev., 33, 152–163. |
| [2] | Lopez, D. & Kolter, R. (2010) Extracellular signals that define distinct and coexisting cell fates in Bacillus subtilis. FEMS Microbiol. Rev. 34, 134–149 |
| [3] | Kaufenstein, M., van der Laan, M. & Graumann, P. L. (2011) The three-layered DNA uptake machinery at the cell pole in competent Bacillus subtilis cells is a stable complex. J. Bacteriol. 193, 1633–1642. |
| [4] | Fu L. L., Xu Z. R., Li W. F., Shuai J. B., Lu P. and Hu C. X. (2006) Protein secretion pathways in Bacillus subtilis: implication for optimization of heterologous protein secretion. Biotechnology advances 25, 1 (1-12). |
| [5] | Harwood, C. R. (1992) Bacillus subtilis and its relatives: molecular biological and industrial workhorses. Trends Biotechnol. 10, 247–256 |
| [6] | Radeck, J., Kraft, K., Bartels, J., Cikovic, T., Dürr, F., Emenegger, J., Kelterborn, S., Sauer, C., Fritz, G., Gebhard, S., and Mascher, T. (2013) The Bacillus BioBrick Box: generation and evaluation of essential genetic building blocks for standardized work with Bacillus subtilis. J Biol Eng 7, 29. |
