Difference between revisions of "Part:BBa K3040501"
 
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<partinfo>BBa_K3040501 parameters</partinfo>
 
<partinfo>BBa_K3040501 parameters</partinfo>
 
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== Characterization by 2022 iGEM Team SubCat_China ==
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https://2022.igem.wiki/subcat-china/contribution
 +
 +
SP-lipase
 +
== Profile ==
 +
Name: SP-lipase
 +
 +
Base Pairs: 1854 bp
 +
 +
Origin: Lactiplantibacillus Plantarum, genome
 +
 +
Properties: a lipase for triacylglyceride digestion.
 +
== Usage and Biology ==
 +
BBa_K4279000 is the coding sequence of SP-lipase. Lipase is a primary lipase critical for triacylglyceride digestion in humans and is considered a promising target for the treatment of obesity [1]. Triacylglycerol lipase is the primary lipase secreted by the pancreas, and is responsible for breaking down dietary lipids into unesterified fatty acids (FAs) and monoglycerides (MGs). Medically, lipases are targets for therapeutic intervention in the treatment of obesity. The focus of applied research with lipases has been to exploit the unusual properties of lipolytic systems for the production of chiral pharmaceuticals, improved detergents, and designer fats [2]. Obesity is a medical condition in which excess body fat accumulates to the extent that it may have a negative effect on health, leading to reduced life expectancy and/or increased health problems. Diverse approaches to the prevention and treatment of obesity have been reported [3-5]. W1-lipase (EC 3.1.1.3) is a lipase amplified from Pseudomonas sp. 7323. The SP-lipase is made up of 265 aa [6].
 +
[[File:BBa K4279001-figure1.png|500px|thumb|center|Figure  1. The structural modeling of an extremophilic bacterial lipase isolated from saline habitats.]]
 +
== Construct design ==
 +
1. Construction of the lipase expression plasmids
 +
The SP-lipase gene was amplified from the pseudomonas and then inserted in the XhoI and HindIII sites of pET28a (Figure 2).
 +
[[File:BBa K4279001- figure 2.png |500px|thumb|center|Figure 2. W1-lipase and SP-ligase expression plasmids in this project.]]
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In order to build our plasmids, plasmid pET28a was digested with XhoI and HindIII (Figure 3), and we used T4 DNA ligase to ligate the fragments and the vector. Then we transformed the recombinant plasmids into E. coli DH5α competent cells and coated on the LB (Kanamycin) solid plates.
 +
[[File:BBa K4279001-figure3.png|500px|thumb|center|Figure 3. Gel electrophoresis of double-enzyme digested pET28a-SP-lipase.]]
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The returned sequencing comparison results showed that there were no mutations in the ORF region, and the plasmid was successfully constructed (Figure 4).
 +
[[File:BBa K4279001- figure 4.jpg |500px|thumb|center|Figure  4. Mapped the sequencing data of the pET28a-SP-lipase.]]
 +
 +
2. Protein lipase expression
 +
 +
The recombinant plasmid was transformed into Escherichia coli BL21 (DE3) and cultured overnight in the medium containing resistance. When the OD600 was around 0.4-0.5, the IPTG was added to induce the expression of recombinant protein W1-lipase/SP-lipase, and then the strains were cultured at 16℃ for 20h. After that, the collected bacterial solution was cracked by Ultrasonic crushing. SDS-PAGE was used to analyze the recombinant proteins. Figure 5 showed the electrophoretic results of the protein gel.
 +
[[File:BBa K4279001- figure 5.jpg|500px|thumb|center|Figure 5. SDS-PAGE detection of lipase protein.]]
 +
6.Lipase activity detection at different pH and temperature
 +
 +
a)Standard curve measurement
 +
 +
In order to measure the standard curve of the activity of lipases, we chose p-nitrophenol as the substrate and detected its absorbance value of it when adding lipases. 0.02789g of p-nitrophenol (p-np) was weighed and dissolved in 100mL of solution B, and stored in a brown reagent bottle after configuration and stored at 4°C. 0.02, 0.04, 0.06, 0.08, 0.12, 0.16mL of p-nitrophenol solution (2mmol/L) was diluted to 4mL, and the absorbance value at 410nm was measured successively. The standard curve was drawn with p-nitrophenol (0.01, 0.02, 0.03, 0.04, 0.06, 0.08, mmol/L) as the abscissa and absorbance value Y as the ordinate (Figure 6).
 +
[[File:BBa K4279001-figure 6.png |500px|thumb|center|Figure 6. The standard curve of p-nitrophenol.]]
 +
According to the standard curve determination method, the standard curve is drawn as shown in Figure 6. Regression coefficient R2=0.9979, the results are credible.
 +
 +
b) Measure the activity of lipase at different pH
 +
 +
Esterase activity was assayed in the pH range from 3.0 to 12.0, and at temperatures of 25 to 70°C. Enzyme thermostability was measured by incubation of the enzyme in 50 mM sodium phosphate buffer (pH 9.0) at 25-70°C for 5 min, 15 min, 30 min, and 1, 2, 4, 6, and 20 h. After incubation, the residual activity of lipase was measured as described above. To test the effects of metals, ions, and additives on the activity of the esterase, lipase was incubated in their presence at a final concentration of 1 mM for 5 min at room temperature. Then, the substrate (p-nitrophenyl acetate) was added, and the reaction mixture was incubated at 37°C. The experiments were performed in triplicate.
 +
[[File:BBa K4279001- figure 7.png|500px|thumb|center|Figure 7. The enzyme activity of lipase at different pH..]]
 +
As shown in Figure7, when changed the pH value of the buffer, the activity of lipase is changed compared with the negative control, and SP-lipase showed no obviously different. And when the pH value is 9, the lipase exhibited the highest activity.
 +
 +
c) Measure the activity of lipase at different temperature
 +
 +
When pH=9, the recombinant enzyme activity reached the highest, 36.-40U/mL, and decreased when pH=9, so the optimal pH of the recombinant enzyme was 9. According to the standard curve, the enzyme activity at the optimum pH and different temperatures are shown in Figures 3-10 (right). At 40℃, the recombinant enzyme activity reached the highest, 36-40U/m L, and decreased when the temperature was higher than 40℃. Therefore, the optimal temperature for the recombinant enzyme was 40℃, but it had higher activity at 30-40 ℃.
 +
[[File:BBa K4279001-figure 8.png|500px|thumb|center|Figure 8. the enzyme activity of lipase at different temperatures.]]
 +
As shown in Figure8, when changed the reaction temperature, the activity of lipase is different compared with the negative control. And when the temperature is around 35℃, the SP-lipase showed the highest activity.
 +
 +
==Reference==
 +
 +
[1] Paul Joyce, Catherine P. Whitby, Clive A. Prestidge, Nanostructuring Biomaterials with Specific Activities towards Digestive Enzymes for Controlled Gastrointestinal Absorption of Lipophilic Bioactive Molecules, Advances in Colloid and Interface Science,2016, 237; 52-75.
 +
 +
[2] Khan I, Nagarjuna R, Dutta JR, Ganesan R Enzyme-Embedded Degradation of Poly(ε-caprolactone) using Lipase-Derived from Probiotic Lactobacillus plantarum. ACS Omega. 2019, 4(2):2844-2852
 +
 +
[3] H. L. Brockman, lipase.Encyclopedia of Biological Chemistry (Second Edition), 2013.
 +
 +
[4] Birari RB, Bhutani KK. Pancreatic lipase inhibitors from natural sources: Unexplored potential. Drug Discov Today. 2007;12:879–889
 +
 +
[5] Kim S, Lim SD. Separation and Purification of Lipase Inhibitory Peptide from Fermented Milk by Lactobacillus plantarum Q180. Food Sci Anim Resour. 2020, 40(1):87-95.
 +
 +
[6] Kim, K.K., Song, H.K., Shin, D.H., Hwang, K.Y. and Suh, S.W. The crystal structure of a triacylglycerol lipase from Pseudomonas cepacia reveals a highly open conformation in the absence of a bound inhibitor. Structure 5 (1997) 173–185.
 +
 +
https://2022.igem.wiki/subcat-china/contribution

Latest revision as of 09:09, 13 October 2022


Lipase-Pseudomonas sp 7323. 

Lipase from Pseudomonas sp 7323

Description

Lipase from Antarctic cold-tolerant Pseudomonas sp. 7323 can catalyze the hydrolysis of triacylgly-cerols to glycerol and monoacyl-glycerols. We utilize the characteristic of lipase-having different catalytic activity under different temperature, to sense the temperature change. Lipase A reaches its catalytic activity peak at about 30℃, and decreases as temperature rise or drop. Furthermore, to purify our lipase A in an easier way, we design a His-tag sequence behind the lipase A.

Result

Prove our vectors successfully constructed

The cold-adapted lipase A is from an Antarctic deep sea psychrotrophic bacterium Pseudomonas sp. 7323. Lipases are glycerol ester hydrolases that are able to hydrolyze ester to free fatty acid and glycerol. With overexpression of Lip A, the bacteria are able to produce different concentration of fatty acid in different temperature.

We get the sequence of Lip A from NCBI. In order to check the expression of Lip A in cells and facilitate the purification of this protein, we attached the 6 X His tag on the C-terminal of this protein. This part was inserted into the iGEM provided expression vector psB1C3 through the restriction site EcoRI and SpeI (Fig1).

Figure 1 Construction of expression vector pSB1C3-LipA-6X His-tag. The insert sequence is flanked by EcoRI and SpeI restriction site.

This recombinant plasmid was further screened by ampicilin selection, colony PCR in the cloning E. coli, DH5α (Fig. 2) and the digestion of miniprep product (Fig 3). From those result, we can prove that the Lip A sequence synthesized by IDT was successfully integrated into the cloning vector psB1C3.
Figure 2 DNA electrophoresis with 1.32% gel was performed to screen the positive recombinant. The plasmid constructed was 4176bp and the predicted PCR result should be 2420bp (flanked by the VF2 and VR primer). Lane 1: DNA loading marker, Lane 2-7: VF2 and VR PCR product).
Figure 3 DNA electrophoresis with 1.32% gel was performed to screen the positive recombinant. The plasmid extracted was digested with EcoRI and SpeI. The digested part (R0010-Lip A-6X His tag) should be 2129bp. Lane 1: DNA loading marker, Lane 2 to 5: Plasmid digested, Lane 6: J04450 control. The plasmid should be digested into 2 parts, one is R0010-Lip A-6X His tag, the other one is the psB1C3 backbone, both parts are about 2200bp. Thus, there will be only one band on the lane.

Prove lipase successfully produced

We have transformed E. coli BL21 strain with pSB1C3-LipA-His tag construct which has been previously proved succeed. The positive transformants were screened with ampicillins and colony PCR. We liquid cultured the cells and collected after 16 hours. After washing with PBS, we lysed the cells by using lysis buffer (please refer to the Experiment protocol) to get the protein lysate. Western Blot has been performed to check the expression of Lip A by using antibody against His tag.

Figure 4 Western Blot analysis of total protein extracted from BL21 transformed with pSB1C3-Lip A-6X His tag by using antibody against His tag. Lane 1: BL21 control with no plasmid transform. Lane 2 and 3: Protein loading marker. Lane 4 to 13: BL21 transformed with our construct. According to the information on UniProt, Lip A from Pseudomonas sp.7323 was reported to be 64.555 kDa.

Prove enzymes are functional

In order to verify the functionality of Lip A expressed, we have done a functional assay with the protein extract from BL21 by sonication. To determine the lipase activity, we utilized a spectrometry-based method by using 4-nitrophenyl decanoate as substrate. The amount of 4-nitrophenol hydrolyzed and released was determined spectrophotometrically at 405nm. We compared the fluorescence and found that the change in fluorescence is greater in the protein in BL21 expressed Lip A compared to control (Fig. 5).

Figure 5 Lipase activity assay was performed to analyze the function of lipase A. The protein was first incubated at 30°c for 30 minutes at pH9.0. Then 4-nitrophenyl decanoate (pND) mixture was added into the protein lysate. The mixture was then detected at 405nm 30°c in continuous duration (0, 20, 40, 60 mins). The fluorescence level in the graph was subtracted with the background fluorescence of protein. Histograms represent normalized means±s.e.m. (n=3).

Enzymes activity detection

Since our goal is to build a precise thermal-tunable promoter with dynamic range of gene transcription, the lipase activity in variety of temperature is very important to us. Hence, we evaluated the lipase activity in different temperature and the curve illustrated fitted to what reported in previous research of Lip A of Pseudomonas sp.7323 (Figure 6 and 7).

Figure 6 Lipase activity assay analysis was performed to check the activity of lipase at different temperature varies with time at pH9.0. The protein was first incubated at the experiment temperature (10, 20, 25, 30 and 40°c) for 30 minutes. Then 4-nitrophenyl decanoate (pND) mixture was added into the protein lysate. The mixture was then detected at 405nm in continuous duration (0, 20, 40, 60 mins) at the temperature required. The fluorescence level in the graph was subtracted with the background fluorescence of protein. Histograms represent normalized means±s.e.m. (n=3).
Figure 7 Lipase activity assay analysis was performed to check the activity of lipase at different temperature for 40 minutes at pH9.0. 40 minutes data was chosen because this time duration is best fitted to the activity curve reported previously in the paper. Thus, our lipase is proved to be functional.

In conclusion, lipA is the functional and the activity fits our expectation. Sequence and Features


Assembly Compatibility:
  • 10
    INCOMPATIBLE WITH RFC[10]
    Illegal prefix found in sequence at 40
    Illegal suffix found in sequence at 2168
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal EcoRI site found at 40
    Illegal SpeI site found at 2169
    Illegal PstI site found at 2183
    Illegal NotI site found at 46
    Illegal NotI site found at 2176
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal EcoRI site found at 40
  • 23
    INCOMPATIBLE WITH RFC[23]
    Illegal prefix found in sequence at 40
    Illegal suffix found in sequence at 2169
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal prefix found in sequence at 40
    Illegal XbaI site found at 55
    Illegal SpeI site found at 2169
    Illegal PstI site found at 2183
    Illegal NgoMIV site found at 436
    Illegal NgoMIV site found at 548
    Illegal NgoMIV site found at 1583
  • 1000
    COMPATIBLE WITH RFC[1000]



Characterization by 2022 iGEM Team SubCat_China

https://2022.igem.wiki/subcat-china/contribution

SP-lipase

Profile

Name: SP-lipase

Base Pairs: 1854 bp

Origin: Lactiplantibacillus Plantarum, genome

Properties: a lipase for triacylglyceride digestion.

Usage and Biology

BBa_K4279000 is the coding sequence of SP-lipase. Lipase is a primary lipase critical for triacylglyceride digestion in humans and is considered a promising target for the treatment of obesity [1]. Triacylglycerol lipase is the primary lipase secreted by the pancreas, and is responsible for breaking down dietary lipids into unesterified fatty acids (FAs) and monoglycerides (MGs). Medically, lipases are targets for therapeutic intervention in the treatment of obesity. The focus of applied research with lipases has been to exploit the unusual properties of lipolytic systems for the production of chiral pharmaceuticals, improved detergents, and designer fats [2]. Obesity is a medical condition in which excess body fat accumulates to the extent that it may have a negative effect on health, leading to reduced life expectancy and/or increased health problems. Diverse approaches to the prevention and treatment of obesity have been reported [3-5]. W1-lipase (EC 3.1.1.3) is a lipase amplified from Pseudomonas sp. 7323. The SP-lipase is made up of 265 aa [6].

Figure 1. The structural modeling of an extremophilic bacterial lipase isolated from saline habitats.

Construct design

1. Construction of the lipase expression plasmids The SP-lipase gene was amplified from the pseudomonas and then inserted in the XhoI and HindIII sites of pET28a (Figure 2).

Figure 2. W1-lipase and SP-ligase expression plasmids in this project.

In order to build our plasmids, plasmid pET28a was digested with XhoI and HindIII (Figure 3), and we used T4 DNA ligase to ligate the fragments and the vector. Then we transformed the recombinant plasmids into E. coli DH5α competent cells and coated on the LB (Kanamycin) solid plates.

Figure 3. Gel electrophoresis of double-enzyme digested pET28a-SP-lipase.

The returned sequencing comparison results showed that there were no mutations in the ORF region, and the plasmid was successfully constructed (Figure 4).

Figure 4. Mapped the sequencing data of the pET28a-SP-lipase.

2. Protein lipase expression

The recombinant plasmid was transformed into Escherichia coli BL21 (DE3) and cultured overnight in the medium containing resistance. When the OD600 was around 0.4-0.5, the IPTG was added to induce the expression of recombinant protein W1-lipase/SP-lipase, and then the strains were cultured at 16℃ for 20h. After that, the collected bacterial solution was cracked by Ultrasonic crushing. SDS-PAGE was used to analyze the recombinant proteins. Figure 5 showed the electrophoretic results of the protein gel.

Figure 5. SDS-PAGE detection of lipase protein.

6.Lipase activity detection at different pH and temperature

a)Standard curve measurement

In order to measure the standard curve of the activity of lipases, we chose p-nitrophenol as the substrate and detected its absorbance value of it when adding lipases. 0.02789g of p-nitrophenol (p-np) was weighed and dissolved in 100mL of solution B, and stored in a brown reagent bottle after configuration and stored at 4°C. 0.02, 0.04, 0.06, 0.08, 0.12, 0.16mL of p-nitrophenol solution (2mmol/L) was diluted to 4mL, and the absorbance value at 410nm was measured successively. The standard curve was drawn with p-nitrophenol (0.01, 0.02, 0.03, 0.04, 0.06, 0.08, mmol/L) as the abscissa and absorbance value Y as the ordinate (Figure 6).

Figure 6. The standard curve of p-nitrophenol.

According to the standard curve determination method, the standard curve is drawn as shown in Figure 6. Regression coefficient R2=0.9979, the results are credible.

b) Measure the activity of lipase at different pH

Esterase activity was assayed in the pH range from 3.0 to 12.0, and at temperatures of 25 to 70°C. Enzyme thermostability was measured by incubation of the enzyme in 50 mM sodium phosphate buffer (pH 9.0) at 25-70°C for 5 min, 15 min, 30 min, and 1, 2, 4, 6, and 20 h. After incubation, the residual activity of lipase was measured as described above. To test the effects of metals, ions, and additives on the activity of the esterase, lipase was incubated in their presence at a final concentration of 1 mM for 5 min at room temperature. Then, the substrate (p-nitrophenyl acetate) was added, and the reaction mixture was incubated at 37°C. The experiments were performed in triplicate.

Figure 7. The enzyme activity of lipase at different pH..

As shown in Figure7, when changed the pH value of the buffer, the activity of lipase is changed compared with the negative control, and SP-lipase showed no obviously different. And when the pH value is 9, the lipase exhibited the highest activity.

c) Measure the activity of lipase at different temperature

When pH=9, the recombinant enzyme activity reached the highest, 36.-40U/mL, and decreased when pH=9, so the optimal pH of the recombinant enzyme was 9. According to the standard curve, the enzyme activity at the optimum pH and different temperatures are shown in Figures 3-10 (right). At 40℃, the recombinant enzyme activity reached the highest, 36-40U/m L, and decreased when the temperature was higher than 40℃. Therefore, the optimal temperature for the recombinant enzyme was 40℃, but it had higher activity at 30-40 ℃.

Figure 8. the enzyme activity of lipase at different temperatures.

As shown in Figure8, when changed the reaction temperature, the activity of lipase is different compared with the negative control. And when the temperature is around 35℃, the SP-lipase showed the highest activity.

Reference

[1] Paul Joyce, Catherine P. Whitby, Clive A. Prestidge, Nanostructuring Biomaterials with Specific Activities towards Digestive Enzymes for Controlled Gastrointestinal Absorption of Lipophilic Bioactive Molecules, Advances in Colloid and Interface Science,2016, 237; 52-75.

[2] Khan I, Nagarjuna R, Dutta JR, Ganesan R Enzyme-Embedded Degradation of Poly(ε-caprolactone) using Lipase-Derived from Probiotic Lactobacillus plantarum. ACS Omega. 2019, 4(2):2844-2852

[3] H. L. Brockman, lipase.Encyclopedia of Biological Chemistry (Second Edition), 2013.

[4] Birari RB, Bhutani KK. Pancreatic lipase inhibitors from natural sources: Unexplored potential. Drug Discov Today. 2007;12:879–889

[5] Kim S, Lim SD. Separation and Purification of Lipase Inhibitory Peptide from Fermented Milk by Lactobacillus plantarum Q180. Food Sci Anim Resour. 2020, 40(1):87-95.

[6] Kim, K.K., Song, H.K., Shin, D.H., Hwang, K.Y. and Suh, S.W. The crystal structure of a triacylglycerol lipase from Pseudomonas cepacia reveals a highly open conformation in the absence of a bound inhibitor. Structure 5 (1997) 173–185.

https://2022.igem.wiki/subcat-china/contribution