Difference between revisions of "Part:BBa K4719011"
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__NOTOC__ | __NOTOC__ | ||
<partinfo>BBa_K4719011 short</partinfo> | <partinfo>BBa_K4719011 short</partinfo> | ||
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==Introduction== | ==Introduction== | ||
| − | Vilnius-Lithuania iGEM 2023 team's goal was to create | + | Vilnius-Lithuania iGEM 2023 team's goal was to create synthetic biology tools for <i>in vivo</i> alterations of <i>Komagataeibacter xylinus</i> bacterial cellulose polymer composition. Firstly, we chose to produce a cellulose-chitin polymer that would later be deacetylated, creating bacterial cellulose-chitosan. This polymer is an easily modifiable platform when compared to bacterial cellulose. The enhanced chemical reactivity of the bacterial cellulose-chitosan polymer allows for specific functionalizations in the biomedicine field, such as scaffold design. As a second approach, we designed indigo-dyed cellulose that could be used as a green chemistry way to apply cellulose in the textile industry. Lastly, we have achieved a composite of bacterial cellulose and polyhydroxybutyrate (PHB), which is synthesized by ''K. xylinus''. |
==Usage and biology== | ==Usage and biology== | ||
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AnCDA biosynthesis in <i>E. coli</i> TOP10 (Liu et al., 2017) was not sufficient for purification. After testing three more strains, we found out that arabinose non-metabolizing DH10B is the best fit for AnCDA. | AnCDA biosynthesis in <i>E. coli</i> TOP10 (Liu et al., 2017) was not sufficient for purification. After testing three more strains, we found out that arabinose non-metabolizing DH10B is the best fit for AnCDA. | ||
<br> | <br> | ||
| − | Cultivating conditions: | + | <br> |
| + | <strong>Cultivating conditions:</strong> | ||
<br> | <br> | ||
<strong>Medium:</strong>2XYT; | <strong>Medium:</strong>2XYT; | ||
<br> | <br> | ||
| − | <strong/>Antibiotics:</strong> Ampicillin | + | <strong/>Antibiotics:</strong> Ampicillin 100 µg/ml and Streptomycin 50 µg/ml; |
<br> | <br> | ||
| − | <strong>Strain:</strong>DH10B; | + | <strong>Strain:</strong> DH10B; |
<br> | <br> | ||
| − | <strong>Temperature</strong> 16°C; | + | <strong>Temperature:</strong> 16°C; |
<br> | <br> | ||
| − | <strong>Time</strong> overnight; | + | <strong>Time:</strong> overnight; |
| − | + | ||
| − | + | ||
<br> | <br> | ||
| + | <strong>Inducer:</strong> 0.02% L-arabinose. | ||
| + | |||
</p> | </p> | ||
<figure> | <figure> | ||
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</figure> | </figure> | ||
| − | + | <h2>References</h2> | |
| + | <p> | ||
| + | Liu, Z. et al. (2017) ‘Structure and function of a broad-specificity chitin deacetylase from aspergillus nidulans FGSC A4’, Scientific Reports, 7(1). doi:10.1038/s41598-017-02043-1. | ||
| + | </p> | ||
<!-- Uncomment this to enable Functional Parameter display | <!-- Uncomment this to enable Functional Parameter display | ||
===Functional Parameters=== | ===Functional Parameters=== | ||
<partinfo>BBa_K4719011 parameters</partinfo> | <partinfo>BBa_K4719011 parameters</partinfo> | ||
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Latest revision as of 14:52, 12 October 2023
AnCDA chitin deacetylase
Sequence and Features
- 10COMPATIBLE WITH RFC[10]
- 12INCOMPATIBLE WITH RFC[12]Illegal NotI site found at 348
- 21INCOMPATIBLE WITH RFC[21]Illegal XhoI site found at 361
Illegal XhoI site found at 593 - 23COMPATIBLE WITH RFC[23]
- 25COMPATIBLE WITH RFC[25]
- 1000COMPATIBLE WITH RFC[1000]
Introduction
Vilnius-Lithuania iGEM 2023 team's goal was to create synthetic biology tools for in vivo alterations of Komagataeibacter xylinus bacterial cellulose polymer composition. Firstly, we chose to produce a cellulose-chitin polymer that would later be deacetylated, creating bacterial cellulose-chitosan. This polymer is an easily modifiable platform when compared to bacterial cellulose. The enhanced chemical reactivity of the bacterial cellulose-chitosan polymer allows for specific functionalizations in the biomedicine field, such as scaffold design. As a second approach, we designed indigo-dyed cellulose that could be used as a green chemistry way to apply cellulose in the textile industry. Lastly, we have achieved a composite of bacterial cellulose and polyhydroxybutyrate (PHB), which is synthesized by K. xylinus.
Usage and biology
AnCDA is chitin deacetylase from Aspergilus nidulans FGSCA4. This deacetylase is a member of carbohydrate esterase family 4 (CE4) of the CAZy database ([http://www.cazy.org/, www.cazy.org]). It has broad substrate specifity – AnCDA hydrolyzes N-acetamido groups in chitin oligomers, crystalline chitin and chitosan, however, it does not deacetylase peptidoglycan. AnCDA reaches its highest level of activity at approximately 50°C and pH 8.0 when Co2+ is used as a cofactor.
AnCDA gene has three exons and encodes the primary product of 237 amino acids, including the N-terminal extracellular signal sequence. Coding regions except leader sequence were cloned into pBAD/HisB vector for recombinant protein expression in E. coli and protein purification using Ni-NTA chromatography with His-tag fused to AnCDA in N-terminal.
This basic part is used for achieving bacterial cellulose-chitosan polymer by enzymatic reaction of deacetylation from bacterial cellulose-chitin. In addition, we have created a construct BBa_K4719019 to improve the degree of deacetylation.
Experimental characterization
Protein expression optimization
AnCDA biosynthesis in E. coli TOP10 (Liu et al., 2017) was not sufficient for purification. After testing three more strains, we found out that arabinose non-metabolizing DH10B is the best fit for AnCDA.Cultivating conditions:
Medium:2XYT;
Antibiotics: Ampicillin 100 µg/ml and Streptomycin 50 µg/ml;
Strain: DH10B;
Temperature: 16°C;
Time: overnight;
Inducer: 0.02% L-arabinose.
References
Liu, Z. et al. (2017) ‘Structure and function of a broad-specificity chitin deacetylase from aspergillus nidulans FGSC A4’, Scientific Reports, 7(1). doi:10.1038/s41598-017-02043-1.