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| | <h2>Pex5 Import</h2> | | <h2>Pex5 Import</h2> |
| − | <p>The achievement of an orthogonal import was a huge step towards ann fully artificial compartment that could be utilized for all kinds of synthetic biological applications. The relocalizationtion of cytosolic pathways into an isolated space benefits biotechnological productions, opens new doors and enriches possibilities. | + | <p>The achievement of an orthogonal import was a huge step towards an artificial compartment that could be utilized for all kinds of synthetic biological applications. The relocalization of pathways into an isolated space benefits biotechnological production, opens new doors and enriches possibilities. |
| | <br> | | <br> |
| − | Although, we could not demonstrate our concept by fully relocatinge complex metabolic pathways, importing fluorescent proteins is already is a solid proof of concept. Our results show that the transport of fluorescent markers such as mTurquoise work really well, assuming our new import machinery todoes not alter the function of the cargo of interest. Thus, we provideassume that any protein of interest can be shifted fully intact into the peroxisome via our import system. This orthogonality emphasizesd the importance of this system for synthetic biology as it contributes to the engineering of a synthetic cell. | + | Although, we could not demonstrate our concept by fully relocating complex metabolic pathways, importing fluorescent proteins is already a solid proof of concept. Our results show that the transport of fluorescent markers such as mTurquoise work really well, assuming our new import machinery to not alter the function of the cargo of interest. Thus, we provide that any protein of interest can be shifted fully intact into the peroxisome via our import system. This orthogonality emphasizes the importance of this system for synthetic biology as it contributes to the engineering of a synthetic cell. |
| | <br> | | <br> |
| − | The most important difference is that we conquered this big challenge by converting its functional systems from the inside. But what is of far more importance:nt is the possibility of this system to <strong>fight world threatening diseases.</strong>.: Our system makes the proteome of the peroxisomes accessible and engineerable. Due to the natural function of peroxisomes as a stress-resistant compartment our import machinery enables the shift of metabolic pathways from the cytosol into the peroxisome and by this increases the productivity, yield and efficiency of the pathways end -product. We choseosed nNootkatone and Violacein as exemplary pathways to demonstrate the potential of our project. O, but our system is not limited only for producing drugs,; it is rather a versatile tool to efficiently maintain the toxicity and limited <i>in vivo</i> production of compounds from many different branches of industrial branches.y like the cosmetic or food/nutrition industry. | + | The most important difference is that we conquered this big challenge by converting its functional systems from the inside. But what is of far more importance: the possibility of this system to <strong>fight world threatening diseases</strong>. Our system makes the proteome of the peroxisomes accessible and engineerable. Due to the natural function of peroxisomes as a stress-resistant compartment our import machinery enables the shift of metabolic pathways from the cytosol into the peroxisome and by this increases the productivity, yield and efficiency of the pathways end product. We chose nootkatone and violacein as exemplary pathways to demonstrate the potential of our project. Our system is not limited only for producing drugs, it is rather a versatile tool to efficiently maintain the toxicity and limited <i>in vivo</i> production of compounds from many different branches of industrial branches.y like the cosmetic or food/nutrition industry. |
| | <br> | | <br> |
| − | ASo as an outlook, we predict major yields for the two products, Nootkatone, Violacein and many more compounds of interest once we relocated their pathways into the peroxisome. | + | ASo as an outlook, we predict major yields for the two products, nNootkatone, vViolacein and many more compounds of interest once we relocated their pathways into the peroxisome. |
| | </p> | | </p> |
| | <!-- | | <!-- |
| | This subproject was a big challenge but also a big opportunity for our project. As the relocalization of an enzymatic pathway like the nootkatone and violacein pathway depends on a working import machinery that selects specifically for certain cargo proteins, this subproject was and is a crucial part for our whole project. | | This subproject was a big challenge but also a big opportunity for our project. As the relocalization of an enzymatic pathway like the nootkatone and violacein pathway depends on a working import machinery that selects specifically for certain cargo proteins, this subproject was and is a crucial part for our whole project. |
| − | Our results show that we designed and established a new and orthogonal peroxisomal import system in yeast. We modified one of the most conserved import machineries within the domain of eukaryotes - no matter if it is plants, mammals or fungi. This opens up new possibilities for biotechnological applications since this import system can be used to shift toxic compound reactions into the natural stress-resistant peroxisomes and thereby it can increase the yield and efficiency of rare biomolecule production <em> in vivo </em>. | + | Our results show that we designed and established a new and orthogonal peroxisomal import system in <i>Saccharomyces cerevisiae</i>yeast. We modified one of the most conserved import machineries within the domain of eukaryotes - no matter if it is plants, mammals or fungi. This opens up new possibilities for biotechnological applications since this import system can be used to shift toxic compound reactions into the natural stress-resistant peroxisomes and thereby it can increase the yield and efficiency of rare biomolecule production <em> in vivo </em>. |
| | Furthermore, we managed to make a big step further towards a synthetic cell: While many research groups try to build up a synthetic cell from scratch, we decided to build it up from the inside by subverting its natural functional systems and making it fully customizable and controllable. | | Furthermore, we managed to make a big step further towards a synthetic cell: While many research groups try to build up a synthetic cell from scratch, we decided to build it up from the inside by subverting its natural functional systems and making it fully customizable and controllable. |
| | This is why our new import machinery shows the potential for biotechnology and real world applications in general. | | This is why our new import machinery shows the potential for biotechnology and real world applications in general. |
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| | </abbr> | | </abbr> |
| | </a>.<br> | | </a>.<br> |
| − | The results of the <a href="https://2017.igem.org/Team:Cologne-Duesseldorf/Design#Secretion"> GUS-assay </a> indicate, that the contents of the peroxisomes were successfully secreted into the supernatant. This is the first time it was shown that this system works in <em>S.Cerevisiae</em>, since to this point it has only been demonstrated in <a href="https://2017.igem.org/Team:Cologne-Duesseldorf/Design#Secretion"> <em>Aspergillus niger</em> </a> | + | The results of the <a href="https://2017.igem.org/Team:Cologne-Duesseldorf/Design#Secretion"> GUS-assay </a> indicate, that the contents of the peroxisomes were successfully secreted into the supernatant. This is the first time it was shown that this system works in <em>S. cerevisiae</em>, since to this point it has only been demonstrated in <i>Aspergillus niger</i>. |
| − | Even though our secretion is not as efficient as the unconventional secretion in other organisms <a href=" https://www.ncbi.nlm.nih.gov/pubmed/22446315"><abbr title="Applying unconventional secretion of the endochitinase Cts1 to export heterologous proteins in Ustilago maydis.">(Stock <i> et al</i>, 2012)</abbr></a>, the possibility to secrete the compounds of our artificial compartment is still a substantial success with exciting implications. One could, for example, not only secrete proteins but also compounds from metabolic pathways.<br> | + | Even though our secretion is not as efficient as the unconventional secretion in other organisms <a href=" https://www.ncbi.nlm.nih.gov/pubmed/22446315"><abbr title="Stock, J., Sarkari, P., Kreibich, S., Brefort, T., Feldbrügge, M., & Schipper, K. (2012). Applying unconventional secretion of the endochitinase Cts1 to export heterologous proteins in Ustilago maydis. Journal of biotechnology, 161(2), 80-91.">(Stock <i> et al</i>, 2012)</abbr></a>, the possibility to secrete the compounds of our artificial compartment is still a substantial success with exciting implications. One could, for example, not only secrete proteins but also compounds from metabolic pathways.<br> |
| | Here we have only shown our general proof of concept. The next steps would be to develop a more efficient system. An easy way to increase the yield of compounds in the supernatant would be to manipulate the <a href="https://2017.igem.org/Team:Cologne-Duesseldorf/Description#SizeAndNumber"> size and number</a> of the artificial compartments in the cell. <br> | | Here we have only shown our general proof of concept. The next steps would be to develop a more efficient system. An easy way to increase the yield of compounds in the supernatant would be to manipulate the <a href="https://2017.igem.org/Team:Cologne-Duesseldorf/Description#SizeAndNumber"> size and number</a> of the artificial compartments in the cell. <br> |
| | Due to the fact, that peroxisomes are linked to the endoplasmic reticulum (ER) in <em>S. cerevisiae</em> cells, the efficiency of our system could be inhibited. To overcome this problem one possible solution would be to delete <em>INP1</em> in the background strain. Inp1 works as a molecular link between peroxisomal Pex3 and ER Pex3. Deletion of <em>INP1</em> leads to mobile peroxisomes which should lead to more fusion events. <br> | | Due to the fact, that peroxisomes are linked to the endoplasmic reticulum (ER) in <em>S. cerevisiae</em> cells, the efficiency of our system could be inhibited. To overcome this problem one possible solution would be to delete <em>INP1</em> in the background strain. Inp1 works as a molecular link between peroxisomal Pex3 and ER Pex3. Deletion of <em>INP1</em> leads to mobile peroxisomes which should lead to more fusion events. <br> |
| − | After the generation of an optimized background strain, the next goal would be stable genome integration of the secretion system. One of the problems of this integration would be the constitutive expression of the snare constructs. This would lead to a constant secretion and loss of the proteins in our compartment. For an optimal yield it would be better to use inducible promoters to control the secretion of the produced metabolites. Another approach could be to control the fusion of the compartment and the cell membrane by <a href="https://2017.igem.org/Team:Cologne-Duesseldorf"> optogenetics*needs to be change* </a>. | + | After the generation of an optimized background strain, the next goal would be stable genome integration of the secretion system. One of the problems of this integration would be the constitutive expression of the snare constructs. This would lead to a constant secretion and loss of the proteins in our compartment. For an optimal yield it would be better to use inducible promoters to control the secretion of the produced metabolites. Another approach could be to control the fusion of the compartment and the cell membrane by <a href="https://2017.igem.org/Team:Cologne-Duesseldorf/Design#Optogenetics"> optogenetics</a>. |
| | </p> | | </p> |
| | </article> | | </article> |
Demonstrate
Pex5 Import
The achievement of an orthogonal import was a huge step towards an artificial compartment that could be utilized for all kinds of synthetic biological applications. The relocalization of pathways into an isolated space benefits biotechnological production, opens new doors and enriches possibilities.
Although, we could not demonstrate our concept by fully relocating complex metabolic pathways, importing fluorescent proteins is already a solid proof of concept. Our results show that the transport of fluorescent markers such as mTurquoise work really well, assuming our new import machinery to not alter the function of the cargo of interest. Thus, we provide that any protein of interest can be shifted fully intact into the peroxisome via our import system. This orthogonality emphasizes the importance of this system for synthetic biology as it contributes to the engineering of a synthetic cell.
The most important difference is that we conquered this big challenge by converting its functional systems from the inside. But what is of far more importance: the possibility of this system to fight world threatening diseases. Our system makes the proteome of the peroxisomes accessible and engineerable. Due to the natural function of peroxisomes as a stress-resistant compartment our import machinery enables the shift of metabolic pathways from the cytosol into the peroxisome and by this increases the productivity, yield and efficiency of the pathways end product. We chose nootkatone and violacein as exemplary pathways to demonstrate the potential of our project. Our system is not limited only for producing drugs, it is rather a versatile tool to efficiently maintain the toxicity and limited in vivo production of compounds from many different branches of industrial branches.y like the cosmetic or food/nutrition industry.
ASo as an outlook, we predict major yields for the two products, nNootkatone, vViolacein and many more compounds of interest once we relocated their pathways into the peroxisome.
Secretion
Using microscopy we were able to show, that our membrane anchors localize in a typical peroxisomal pattern
(Halbach et al, 2006)
.
The results of the GUS-assay indicate, that the contents of the peroxisomes were successfully secreted into the supernatant. This is the first time it was shown that this system works in S. cerevisiae, since to this point it has only been demonstrated in Aspergillus niger.
Even though our secretion is not as efficient as the unconventional secretion in other organisms (Stock et al, 2012), the possibility to secrete the compounds of our artificial compartment is still a substantial success with exciting implications. One could, for example, not only secrete proteins but also compounds from metabolic pathways.
Here we have only shown our general proof of concept. The next steps would be to develop a more efficient system. An easy way to increase the yield of compounds in the supernatant would be to manipulate the size and number of the artificial compartments in the cell.
Due to the fact, that peroxisomes are linked to the endoplasmic reticulum (ER) in S. cerevisiae cells, the efficiency of our system could be inhibited. To overcome this problem one possible solution would be to delete INP1 in the background strain. Inp1 works as a molecular link between peroxisomal Pex3 and ER Pex3. Deletion of INP1 leads to mobile peroxisomes which should lead to more fusion events.
After the generation of an optimized background strain, the next goal would be stable genome integration of the secretion system. One of the problems of this integration would be the constitutive expression of the snare constructs. This would lead to a constant secretion and loss of the proteins in our compartment. For an optimal yield it would be better to use inducible promoters to control the secretion of the produced metabolites. Another approach could be to control the fusion of the compartment and the cell membrane by optogenetics.
