Difference between revisions of "Part:BBa K5034210"
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| − | + | ===Basic Description=== | |
This basic part encodes the PPX gene which is initially from Escherichia coli and we performed codon optimization on, is expressed in the PYYDT plasmid. This basic part is designed to facilitate the complete conversion of inorganic polyphosphate (PolyP) to inorganic phosphate (Pi). The PPX enzyme, also known as exopolyphosphatase, is crucial for degrading PolyP into Pi, which is essential for various cellular processes. Inactivation of PPX1 had no effect on the Poly P level in nuclei in the stationary phase, Poly P level in the nuclei increased 1.5- and 2-fold in the exponential phase in the parent strain and PPX1 mutant, respectively. | This basic part encodes the PPX gene which is initially from Escherichia coli and we performed codon optimization on, is expressed in the PYYDT plasmid. This basic part is designed to facilitate the complete conversion of inorganic polyphosphate (PolyP) to inorganic phosphate (Pi). The PPX enzyme, also known as exopolyphosphatase, is crucial for degrading PolyP into Pi, which is essential for various cellular processes. Inactivation of PPX1 had no effect on the Poly P level in nuclei in the stationary phase, Poly P level in the nuclei increased 1.5- and 2-fold in the exponential phase in the parent strain and PPX1 mutant, respectively. | ||
| − | + | In a sentence, it can reversibly convert Poly p to Pi thoroughly. For the first time, we expressed this element in a strain of Shewanella and conducted codon optimization based on Shewanella.We tested the effects of the introduction of this element on electricity production and phosphorus metabolism. | |
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Figure 1: Basic function of PPX | Figure 1: Basic function of PPX | ||
| − | + | ===Construct features(only coding sequence included in basic part)=== | |
Promoter: Constitutive promoter for continuous expression. We use tac promoter in our experiment. | Promoter: Constitutive promoter for continuous expression. We use tac promoter in our experiment. | ||
PPX Coding Sequence: Encodes the exopolyphosphatase enzyme. | PPX Coding Sequence: Encodes the exopolyphosphatase enzyme. | ||
Terminator: Efficient transcription terminator to ensure proper mRNA processing. We use T7Te terminator in our experiment. | Terminator: Efficient transcription terminator to ensure proper mRNA processing. We use T7Te terminator in our experiment. | ||
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Figure 2: PCR of target genes PCR before plasmids construction (The extra small fragment in the picture is primer dimer) | Figure 2: PCR of target genes PCR before plasmids construction (The extra small fragment in the picture is primer dimer) | ||
| − | + | ===Origin (Organism)=== | |
The PPX gene was sourced from Yeast. | The PPX gene was sourced from Yeast. | ||
| − | + | ===Experimental Characterization and results=== | |
In our team’s previous research we found that the behavior of the modified Shewanella did not reach our expectation and the electron microscopic observation also showed an abnormal morphology of the bacterium, we postulated that too much PPK1 may lead to an abnormal charge distribution in the bacterium thus result in a decrease in the bacterium's activity and a reduction in its capacity for electricity production, so we planed to improve the situation by introducing different polyphosphate hydrolases which influence the phosphorus metabolism of Shewanella. | In our team’s previous research we found that the behavior of the modified Shewanella did not reach our expectation and the electron microscopic observation also showed an abnormal morphology of the bacterium, we postulated that too much PPK1 may lead to an abnormal charge distribution in the bacterium thus result in a decrease in the bacterium's activity and a reduction in its capacity for electricity production, so we planed to improve the situation by introducing different polyphosphate hydrolases which influence the phosphorus metabolism of Shewanella. | ||
Electricity production: Using half-cell reaction(electrochemistry) to measure the electricity production ability. | Electricity production: Using half-cell reaction(electrochemistry) to measure the electricity production ability. | ||
Capacity to polymerize phosphorus: Conducting molybdate assays to determine Pi concentration. | Capacity to polymerize phosphorus: Conducting molybdate assays to determine Pi concentration. | ||
Conducting molybdate assays to determine Pi concentration and found PPX a bad capacity to polymerize phosphorus. | Conducting molybdate assays to determine Pi concentration and found PPX a bad capacity to polymerize phosphorus. | ||
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Figure 3: statistical data on electricity production capacity of Shewanella with the introduction of different hydrolases | Figure 3: statistical data on electricity production capacity of Shewanella with the introduction of different hydrolases | ||
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Figure 4: statistical data on the phosphorus accumulation capacity of Shewanella with PPX | Figure 4: statistical data on the phosphorus accumulation capacity of Shewanella with PPX | ||
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Figure 5: ATP level in Shewanella with the introduction of different hydrolases | Figure 5: ATP level in Shewanella with the introduction of different hydrolases | ||
| − | + | ===References=== | |
1.Lichko, L. P., Kulakovskaya, T. V., & Kulaev, I. S. (2006). Inorganic polyphosphate and exopolyphosphatase in the nuclei of Saccharomyces cerevisiae: dependence on the growth phase and inactivation of the PPX1 and PPN1 genes. Biochemistry (Moscow), 71(11), 1171-1175. | 1.Lichko, L. P., Kulakovskaya, T. V., & Kulaev, I. S. (2006). Inorganic polyphosphate and exopolyphosphatase in the nuclei of Saccharomyces cerevisiae: dependence on the growth phase and inactivation of the PPX1 and PPN1 genes. Biochemistry (Moscow), 71(11), 1171-1175. | ||
<!-- Add more about the biology of this part here | <!-- Add more about the biology of this part here | ||
Revision as of 06:51, 29 September 2024
PolyP ---> Pi
Contents
Basic Description
This basic part encodes the PPX gene which is initially from Escherichia coli and we performed codon optimization on, is expressed in the PYYDT plasmid. This basic part is designed to facilitate the complete conversion of inorganic polyphosphate (PolyP) to inorganic phosphate (Pi). The PPX enzyme, also known as exopolyphosphatase, is crucial for degrading PolyP into Pi, which is essential for various cellular processes. Inactivation of PPX1 had no effect on the Poly P level in nuclei in the stationary phase, Poly P level in the nuclei increased 1.5- and 2-fold in the exponential phase in the parent strain and PPX1 mutant, respectively. In a sentence, it can reversibly convert Poly p to Pi thoroughly. For the first time, we expressed this element in a strain of Shewanella and conducted codon optimization based on Shewanella.We tested the effects of the introduction of this element on electricity production and phosphorus metabolism.
Figure 1: Basic function of PPX
Construct features(only coding sequence included in basic part)
Promoter: Constitutive promoter for continuous expression. We use tac promoter in our experiment. PPX Coding Sequence: Encodes the exopolyphosphatase enzyme. Terminator: Efficient transcription terminator to ensure proper mRNA processing. We use T7Te terminator in our experiment.
Figure 2: PCR of target genes PCR before plasmids construction (The extra small fragment in the picture is primer dimer)
Origin (Organism)
The PPX gene was sourced from Yeast.
Experimental Characterization and results
In our team’s previous research we found that the behavior of the modified Shewanella did not reach our expectation and the electron microscopic observation also showed an abnormal morphology of the bacterium, we postulated that too much PPK1 may lead to an abnormal charge distribution in the bacterium thus result in a decrease in the bacterium's activity and a reduction in its capacity for electricity production, so we planed to improve the situation by introducing different polyphosphate hydrolases which influence the phosphorus metabolism of Shewanella. Electricity production: Using half-cell reaction(electrochemistry) to measure the electricity production ability. Capacity to polymerize phosphorus: Conducting molybdate assays to determine Pi concentration. Conducting molybdate assays to determine Pi concentration and found PPX a bad capacity to polymerize phosphorus.
Figure 3: statistical data on electricity production capacity of Shewanella with the introduction of different hydrolases
Figure 4: statistical data on the phosphorus accumulation capacity of Shewanella with PPX
Figure 5: ATP level in Shewanella with the introduction of different hydrolases
References
1.Lichko, L. P., Kulakovskaya, T. V., & Kulaev, I. S. (2006). Inorganic polyphosphate and exopolyphosphatase in the nuclei of Saccharomyces cerevisiae: dependence on the growth phase and inactivation of the PPX1 and PPN1 genes. Biochemistry (Moscow), 71(11), 1171-1175. Sequence and Features
- 10COMPATIBLE WITH RFC[10]
- 12COMPATIBLE WITH RFC[12]
- 21COMPATIBLE WITH RFC[21]
- 23COMPATIBLE WITH RFC[23]
- 25COMPATIBLE WITH RFC[25]
- 1000COMPATIBLE WITH RFC[1000]