Difference between revisions of "Part:BBa K5034209"
Line 16: Line 16:
 
Figure 1: Basic function of PPN1
 
Figure 1: Basic function of PPN1
  
−
===Construct features(only coding sequence included in basic part)===
+
===Sequence and Features===
 +
 
 +
<html>
 +
<body>
 +
    <img src="https://static.igem.wiki/teams/5034/engineering/sppn1.png" style="width: 300px; height: auto;">
 +
</body>
 +
</html>
 +
 
 +
Figure 2: xxxx
 +
<partinfo>BBa_K5034209 SequenceAndFeatures</partinfo>
 +
 
 +
 
 +
 
 
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.
 +
RBS: <a href="https://parts.igem.org/Part:BBa_B0034">BBa_B0034</a>
 
PPN1 Coding Sequence: Encodes the polyphosphatase enzyme.
 
PPN1 Coding Sequence: Encodes the polyphosphatase 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.
Line 27: Line 40:
 
</html>
 
</html>
  
−
Figure 2: PCR of target genes PCR before plasmids construction (The extra small fragment in the picture is primer dimer)
+
Figure 3: PCR of target genes PCR before plasmids construction (The extra small fragment in the picture is primer dimer)
  
 
===Origin (Organism)===
 
===Origin (Organism)===
Line 44: Line 57:
 
</html>
 
</html>
  
−
Figure 3: statistical data on electricity production capacity of Shewanella with the introduction of different hydrolases
+
Figure 4: statistical data on electricity production capacity of Shewanella with the introduction of different hydrolases
  
 
<html>
 
<html>
Line 52: Line 65:
 
</html>
 
</html>
  
−
Figure 4: statistical data on the phosphorus accumulation capacity of Shewanella with PPN1
+
Figure 5: statistical data on the phosphorus accumulation capacity of Shewanella with PPN1
  
 
<html>
 
<html>
Line 60: Line 73:
 
</html>
 
</html>
  
−
Figure 5: ATP level in Shewanella with the introduction of different hydrolases
+
Figure 6: ATP level in Shewanella with the introduction of different hydrolases
  
 
===Potential applications===
 
===Potential applications===
Line 75: Line 88:
  
 
===References===
 
===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
+
−
===Usage and Biology===
+
−
 
+
−
<!-- -->
+
−
<span class='h3bb'>Sequence and Features</span>
+
−
<partinfo>BBa_K5034209 SequenceAndFeatures</partinfo>
+
−
 
+
−
 
+
−
<!-- Uncomment this to enable Functional Parameter display
+
−
===Functional Parameters===
+
−
<partinfo>BBa_K5034209 parameters</partinfo>
+
−
<!-- -->
+

Revision as of 14:31, 30 September 2024


Poly P -> Poly P(smaller) or Pi


Basic Description

This basic part encodes the PPN1 gene which is initially from Saccharomyces cerevisiae and we performed codon optimization on, is expressed in the PYYDT plasmid. This basic part is designed to facilitate the conversion of long-chain inorganic polyphosphate (PolyP) into shorter fragments without completely degrading it to inorganic phosphate (Pi). The PPN1 enzyme exhibits both exopolyphosphatase and endopolyphosphatase activities, depending on the presence of specific metal ions. Inactivation of the PPN1 gene encoding another protein, which exhibited exopolyPase activity in the yeast (CRN and CNX strains), resulted in almost total elimination of the nuclear exopolyPase activities in both growth phases.In a sentence, this enzyme can convert Poly P to Poly P with smaller fragments, but not to Pi completely. 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 PPN1

Sequence and Features

Figure 2: xxxx


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    COMPATIBLE WITH RFC[1000]


Promoter: Constitutive promoter for continuous expression. We use tac promoter in our experiment. RBS: <a href="https://parts.igem.org/Part:BBa_B0034">BBa_B0034</a> PPN1 Coding Sequence: Encodes the polyphosphatase enzyme. Terminator: Efficient transcription terminator to ensure proper mRNA processing. We use T7Te terminator in our experiment.

Figure 3: PCR of target genes PCR before plasmids construction (The extra small fragment in the picture is primer dimer)

Origin (Organism)

The PPN1 gene was sourced from Saccharomyces cerevisiae.

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 PPN1 a bad capacity to polymerize phosphorus.

Figure 4: statistical data on electricity production capacity of Shewanella with the introduction of different hydrolases

Figure 5: statistical data on the phosphorus accumulation capacity of Shewanella with PPN1

Figure 6: ATP level in Shewanella with the introduction of different hydrolases

Potential applications

Potential Applications of PPN1

  • Environmental Management: - Controls phosphorus levels to reduce pollution.
  • Bioenergy: - Influences electricity generation in microorganisms; optimization may enhance bioelectricity.
  • Industrial Biotechnology: - Regulates phosphate levels, useful in production and processing.
  • Research and Development: - Studies phosphate metabolism effects on cell function, aiding synthetic biology and metabolic engineering.
  • Agriculture: - Regulates soil phosphates, improving fertilizer efficiency and promoting sustainable practices.

Chassis and genetic

Chassis：Shewanella onediensis MR-1 The gene can be expressed and function properly in Shewanella.

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.